Hugo_Symbol Entrez_Gene_Id Center NCBI_Build Chromosome Start_position End_position Strand Variant_Classification Variant_Type Reference_Allele Tumor_Seq_Allele1 Tumor_Seq_Allele2 dbSNP_RS dbSNP_Val_Status Tumor_Sample_Barcode Matched_Norm_Sample_Barcode Match_Norm_Seq_Allele1 Match_Norm_Seq_Allele2 Tumor_Validation_Allele1 Tumor_Validation_Allele2 Match_Norm_Validation_Allele1 Match_Norm_Validation_Allele2 Verification_Status Validation_Status Mutation_Status Sequencing_Phase Sequence_Source Validation_Method Score BAM_File Sequencer Tumor_Sample_UUID Matched_Norm_Sample_UUID TTotCov TVarCov NTotCov NVarCov TVarRat NVarRat dbSNP_AF dbSNP_PopFreq dbSNP_Strength COSMIC_Codon COSMIC_Gene COSMIC_Gene_Freq COSMIC_Site_Freq Transcript_Id Exon ChromChange AAChange Genome_Plus_Minus_10_Bp Drug_Target Confidence Algorithm ORM1 5004 hgsc.bcm.edu 37 9 117088618 117088620 + In_Frame_Del DEL AGG AGG - novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 AGG AGG . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 979.0 178.0 915.0 0.0 0.181818 0 . . none . ORM1 20 . NM_000607 exon6 c.586_588del p.196_196del . . PASS Atlas-Indel LRRC37A2 474170 hgsc.bcm.edu 37 17 44590963 44590965 + In_Frame_Del DEL CAA CAA - novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 CAA CAA . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 305.0 20.0 238.0 0.0 0.0655738 0 . . none . LRRC37A2 37 . NM_001006607 exon1 c.884_886del p.295_296del . . PASS Atlas-Indel FOXD4L6 653404 hgsc.bcm.edu 37 9 69201361 69201362 + Frame_Shift_Del DEL TG TG - novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 TG TG . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 547.0 86.0 354.0 0.0 0.157221 0 . . none . . . . NM_001085476 exon1 c.252_253del p.84_85del . . PASS Atlas-Indel LCNL1 401562 hgsc.bcm.edu 37 9 139879429 139879429 + Frame_Shift_Del DEL T T - novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 209.0 15.0 315.0 0.0 0.0717703 0 . . none . LCNL1 4 . NM_207510 exon3 c.460delC p.L154fs . . PASS Atlas-Indel C6orf48 50854 hgsc.bcm.edu 37 6 31807372 31807373 + Frame_Shift_Ins INS - - A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 120.0 41.0 119.0 0.0 0.342 . . . none . C6orf48 8 . NM_001040437 exon5 c.160_161insA p.Y54_N55delinsX . . PASS Pindel,Atlas-Indel NAP1L5 266812 hgsc.bcm.edu 37 4 89618415 89618426 + In_Frame_Del DEL GCAGCCTCTGCC GCAGCCTCTGCC - novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 GCAGCCTCTGCC GCAGCCTCTGCC . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 285.0 66.0 279.0 0.0 0.232 . . . none . NAP1L5 23 . NM_153757 exon1 c.481_492del p.161_164del . . PASS Pindel,Atlas-Indel LRRC37A 9884 hgsc.bcm.edu 37 17 44373384 44373386 + In_Frame_Del DEL CAA CAA - novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 CAA CAA . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 305.0 21.0 235.0 0.0 0.0688525 0 . . none . LRRC37A 19 . NM_014834 exon1 c.884_886del p.295_296del . . PASS Atlas-Indel KRTAP5-4 387267 hgsc.bcm.edu 37 11 1643073 1643073 + Frame_Shift_Del DEL C C - novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 284.0 23.0 225.0 0.0 0.0809859 0 . . none KRTAP5-4,NS,carcinoma,0,1 KRTAP5-4 78 1 NM_001012709 exon1 c.252delT p.C84fs . . PASS Atlas-Indel FANCE 2178 hgsc.bcm.edu 37 6 35424008 35424010 + In_Frame_Del DEL GGA GGA - rs45451605 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 GGA GGA . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 142.0 42.0 138.0 0.0 0.296 . GGA|0.979;-|0.021 0.021 strong . FANCE 45 . NM_021922 exon2 c.732_734del p.244_245del . . PASS Pindel,Atlas-Indel HYDIN 54768 hgsc.bcm.edu 37 16 71007312 71007312 + Frame_Shift_Del DEL G G - rs373616607 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 140.0 25.0 101.0 0.0 0.179 . . . weak . HYDIN 788 . NM_001270974 exon35 c.5314delA p.I1772fs . . PASS Pindel,Atlas-Indel SSPO 23145 hgsc.bcm.edu 37 7 149480091 149480092 + Frame_Shift_Ins INS - - C rs144883973 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 217.0 71.0 217.0 0.0 0.327 . -|0.979;C|0.021 0.021 strong . . . . NM_198455 exon15 c.2057_2058insC p.D686fs . . PASS Pindel,Atlas-Indel TIGD6 81789 hgsc.bcm.edu 37 5 149375721 149375721 + Frame_Shift_Del DEL C C - rs33910807 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 82.0 32.0 66.0 0.0 0.390 . C|0.913;-|0.087 0.087 strong . TIGD6 29 . NM_030953 exon2 c.192delA p.G64fs . . PASS Pindel,Atlas-Indel SCARA5 286133 hgsc.bcm.edu 37 8 27779652 27779672 + In_Frame_Del DEL GCAGCGGAGCCTGCAGCAGCC GCAGCGGAGCCTGCAGCAGCC - novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 GCAGCGGAGCCTGCAGCAGCC GCAGCGGAGCCTGCAGCAGCC . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 53.0 26.0 97.0 0.0 0.491 . . . none . SCARA5 53 . NM_173833 exon4 c.333_353del p.111_118del . . PASS Pindel,Atlas-Indel SLC39A8 64116 hgsc.bcm.edu 37 4 103188834 103188836 + Splice_Site DEL AGA AGA - rs71813938 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 AGA AGA . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 160.0 55.0 166.0 0.0 0.34375 0 AGA|0.950;-|0.050 0.050 strong SLC39A8,NS,carcinoma,0,1 SLC39A8 24 1 . . . . . . PASS Atlas-Indel NBPF3 84224 hgsc.bcm.edu 37 1 21801436 21801444 + In_Frame_Del DEL GTCTCCCAG GTCTCCCAG - rs139002241 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 GTCTCCCAG GTCTCCCAG . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 88.0 17.0 85.0 0.0 0.193 . GTCTCCCAG|0.948;-|0.052 0.052 strong . NBPF3 55 . NM_032264 exon8 c.983_991del p.328_331del . . PASS Pindel,Atlas-Indel ING3 54556 hgsc.bcm.edu 37 7 120610847 120610849 + In_Frame_Del DEL AAC AAC - novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 AAC AAC . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 92.0 37.0 112.0 0.0 0.402 . . . none . ING3 36 . NM_019071 exon10 c.1013_1015del p.338_339del . . PASS Pindel,Atlas-Indel NAIP 4671 hgsc.bcm.edu 37 5 70281620 70281621 + Frame_Shift_Del DEL AT AT - novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 AT AT . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 205.0 32.0 214.0 0.0 0.156098 0 . . none . NAIP 38 . NM_004536 exon12 c.1256_1257del p.419_419del . . PASS Atlas-Indel ARID4B 51742 hgsc.bcm.edu 37 1 235377279 235377281 + In_Frame_Del DEL TCC TCC - rs113458177 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 TCC TCC . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 176.0 28.0 137.0 0.0 0.159 . TCC|0.967;-|0.033 0.033 strong . ARID4B 142 . NM_016374 exon17 c.1645_1647del p.549_549del . . PASS Pindel,Atlas-Indel CMA1 1215 hgsc.bcm.edu 37 14 24976605 24976605 + Frame_Shift_Del DEL T T - novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 120.0 39.0 147.0 0.0 0.325 . . . none . CMA1 21 . NM_001836 exon2 c.167delT p.I56fs . . PASS Pindel,Atlas-Indel MTFP1 51537 hgsc.bcm.edu 37 22 30824659 30824660 + Frame_Shift_Ins INS - - A rs149958301 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 75.0 27.0 72.0 0.0 0.360 . -|0.993;A|0.007 0.007 strong . MTFP1 7 . NM_001003704 exon3 c.406_407insA p.X136delinsX . . PASS Pindel,Atlas-Indel SSPO 23145 hgsc.bcm.edu 37 7 149484830 149484830 + Frame_Shift_Del DEL G G - rs137977793 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 46.0 11.0 52.0 0.0 0.239 . G|0.985;-|0.015 0.015 strong . . . . NM_198455 exon25 c.3651delC p.H1217fs . . PASS Pindel,Atlas-Indel KRTAP6-2 337967 hgsc.bcm.edu 37 21 31971075 31971076 + Frame_Shift_Ins INS - - A rs113674499 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 200.0 60.0 206.0 0.0 0.300 . -|0.990;A|0.010 0.010 strong . KRTAP6-2 24 . NM_181604 exon1 c.119_120insT p.Y40fs . . PASS Pindel,Atlas-Indel ZSCAN29 146050 hgsc.bcm.edu 37 15 43658416 43658418 + In_Frame_Del DEL CCT CCT - rs151154169 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 CCT CCT . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 74.0 25.0 61.0 0.0 0.338 . CCT|0.977;-|0.023 0.023 strong . ZSCAN29 57 . NM_152455 exon3 c.1113_1115del p.371_372del . . PASS Pindel,Atlas-Indel DCHS2 54798 hgsc.bcm.edu 37 4 155158259 155158260 + In_Frame_Ins INS - - GTT rs138652483 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 126.0 40.0 140.0 0.0 0.317 . -|0.988;GTT|0.012 0.012 strong . DCHS2 594 . NM_017639 exon25 c.6180_6181insAAC p.T2060delinsTT . . PASS Pindel,Atlas-Indel LCNL1 401562 hgsc.bcm.edu 37 9 139879427 139879428 + Frame_Shift_Ins INS - - GG novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 217.0 14.0 314.0 0.0 0.0645161 0 . . none . LCNL1 4 . NM_207510 exon3 c.459_460insGG p.S153fs . . PASS Atlas-Indel KRTAP10-10 353333 hgsc.bcm.edu 37 21 46057775 46057804 + In_Frame_Del DEL TGTGCCTGTCTGCTCTAAGTCCGTCTGCTA TGTGCCTGTCTGCTCTAAGTCCGTCTGCTA - novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 TGTGCCTGTCTGCTCTAAGTCCGTCTGCTA TGTGCCTGTCTGCTCTAAGTCCGTCTGCTA . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 167.0 45.0 151.0 0.0 0.269461 0 . . none . KRTAP10-10 37 . NM_181688 exon1 c.440_469del p.147_157del . . PASS Atlas-Indel MN1 4330 hgsc.bcm.edu 37 22 28194912 28194913 + In_Frame_Ins INS - - TGC rs75719175 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 56.0 27.0 42.0 0.0 0.482143 0 . . weak MN1,NS,carcinoma,0,1 MN1 122 1 NM_002430 exon1 c.1620_1621insGCA p.Q540delinsQQ . . PASS Atlas-Indel CLCA4 22802 hgsc.bcm.edu 37 1 87045903 87045908 + In_Frame_Del DEL CCTACT CCTACT - rs56040873 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 CCTACT CCTACT . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 181.0 46.0 146.0 0.0 0.254 . . . weak . CLCA4 131 . NM_012128 exon14 c.2634_2639del p.878_880del . . PASS Pindel,Atlas-Indel SEC63 11231 hgsc.bcm.edu 37 6 108214734 108214735 + In_Frame_Ins INS - - GTA novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 110.0 39.0 104.0 0.0 0.355 . . . none . SEC63 79 . NM_007214 exon16 c.1626_1627insTAC p.P542delinsPT . . PASS Pindel,Atlas-Indel RNF34 80196 hgsc.bcm.edu 37 12 121858078 121858080 + In_Frame_Del DEL GAT GAT - rs72059744 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 GAT GAT . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 92.0 35.0 66.0 0.0 0.380 . GAT|0.969;-|0.031 0.031 strong . RNF34 54 . NM_194271 exon5 c.669_671del p.223_224del . . PASS Pindel,Atlas-Indel TBC1D5 9779 hgsc.bcm.edu 37 3 17208285 17208286 + Frame_Shift_Del DEL CG CG - novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 CG CG . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 180.0 46.0 165.0 0.0 0.256 . . . none . TBC1D5 69 . NM_001134381 exon23 c.2134_2135del p.712_712del . . PASS Pindel,Atlas-Indel SERPINB3 6317 hgsc.bcm.edu 37 18 61323014 61323014 + Frame_Shift_Del DEL T T - rs201374310 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 182.0 49.0 209.0 0.0 0.269231 0 T|0.960;-|0.040 0.040 strong . SERPINB3 90 . NM_006919 exon8 c.1051delG p.G351fs . . PASS Atlas-Indel ORM2 5005 hgsc.bcm.edu 37 9 117095395 117095397 + In_Frame_Del DEL AGG AGG - novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 AGG AGG . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 888.0 290.0 871.0 0.0 0.326577 0 . . none . ORM2 13 . NM_000608 exon6 c.586_588del p.196_196del . . PASS Atlas-Indel TRIM16 10626 hgsc.bcm.edu 37 17 15546132 15546133 + Splice_Site INS - - A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 402.0 88.0 335.0 0.0 0.218905 0 . . none . TRIM16 45 . NM_006470 exon6 c.520-2->T . . . PASS Atlas-Indel LTF 4057 hgsc.bcm.edu 37 3 46496843 46496843 + Frame_Shift_Del DEL C C - novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 143.0 43.0 128.0 0.0 0.301 . . . none . LTF 98 . NM_002343 exon5 c.590delA p.E197fs . . PASS Pindel,Atlas-Indel ANKRD36B 57730 hgsc.bcm.edu 37 2 98129757 98129758 + Frame_Shift_Ins INS - - T rs367988895 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 678.0 61.0 1139.0 0.0 0.0899705 0 . . weak . . . . NM_025190 exon38 c.2691_2692insA p.K897fs . . PASS Atlas-Indel PROL1 58503 hgsc.bcm.edu 37 4 71275631 71275632 + Frame_Shift_Ins INS - - C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 197.0 65.0 167.0 0.0 0.330 . . . none . PROL1 46 . NM_021225 exon3 c.586_587insC p.T196fs . . PASS Pindel,Atlas-Indel LINC00471 151477 hgsc.bcm.edu 37 2 232373857 232373860 + RNA DEL TTCT TTCT - rs150545131 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 TTCT TTCT . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 251.0 69.0 237.0 0.0 0.275 . TTCT|0.994;-|0.006 0.006 strong . . . . . . . . . . PASS Pindel,Atlas-Indel OR5L2 26338 hgsc.bcm.edu 37 11 55594980 55594980 + Frame_Shift_Del DEL G G - rs144106069 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 141.0 37.0 201.0 0.0 0.262 . G|0.995;-|0.005 0.005 strong OR5L2,NS,carcinoma,+2,2 OR5L2 135 2 NM_001004739 exon1 c.285delA p.L95fs . . PASS Pindel,Atlas-Indel CEP85L 387119 hgsc.bcm.edu 37 6 118812811 118812813 + In_Frame_Del DEL TGT TGT - rs71866282 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 TGT TGT . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 70.0 30.0 77.0 0.0 0.429 . TGT|0.979;-|0.021 0.021 strong . CEP85L 26 . NM_206921 exon6 c.1474_1476del p.492_492del . . PASS Pindel,Atlas-Indel PCDHAC2 56134 hgsc.bcm.edu 37 5 140346446 140346451 + In_Frame_Del DEL TGCTGC TGCTGC - rs148181752 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 TGCTGC TGCTGC . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 80.0 17.0 90.0 0.0 0.213 . TGCTGC|0.974;-|0.026 0.026 strong . PCDHAC2 142 . NM_031883 exon1 c.94_99del p.32_33del . . PASS Pindel,Atlas-Indel ZNF594 84622 hgsc.bcm.edu 37 17 5085878 5085879 + Frame_Shift_Del DEL CT CT - rs146837771 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 CT CT . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 117.0 33.0 120.0 0.0 0.282 . CT|0.987;-|0.013 0.013 strong . ZNF594 89 . NM_032530 exon2 c.1674_1675del p.558_559del . . PASS Pindel,Atlas-Indel TNRC6A 27327 hgsc.bcm.edu 37 16 24788401 24788402 + In_Frame_Ins INS - - GCA rs112426081 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 55.0 11.0 48.0 0.0 0.2 0 -|0.500;GCA|0.500 0.500 weak TNRC6A,NS,carcinoma,0,1 TNRC6A 171 1 NM_014494 exon5 c.311_312insGCA p.P104delinsPQ . . PASS Atlas-Indel SLC4A2 6522 hgsc.bcm.edu 37 7 150763616 150763621 + In_Frame_Del DEL GGAGGC GGAGGC - rs150330052 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 GGAGGC GGAGGC . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 49.0 12.0 56.0 0.0 0.245 . GGAGGC|0.962;-|0.038 0.038 strong . SLC4A2 98 . NM_001199692 exon6 c.590_595del p.197_199del . . PASS Pindel,Atlas-Indel C8orf82 414919 hgsc.bcm.edu 37 8 145753431 145753431 + Frame_Shift_Del DEL T T - novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 57.0 28.0 51.0 0.0 0.491 . . . none C8orf82,bladder,carcinoma,0,1 C8orf82 7 1 NM_001001795 exon2 c.183delG p.K61fs . . PASS Pindel,Atlas-Indel OR52D1 390066 hgsc.bcm.edu 37 11 5510498 5510499 + Frame_Shift_Ins INS - - C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 134.0 54.0 121.0 0.0 0.402985 0 . . none . OR52D1 66 . NM_001005163 exon1 c.562_563insC p.A188fs . . PASS Atlas-Indel RBPJL 11317 hgsc.bcm.edu 37 20 43940531 43940542 + In_Frame_Del DEL CAGCGCGTCCGG CAGCGCGTCCGG - rs142744285 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 CAGCGCGTCCGG CAGCGCGTCCGG . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 118.0 45.0 127.0 0.0 0.381 . CAGCGCGTCCGG|0.987;-|0.013 0.013 strong . RBPJL 67 . NM_014276 exon5 c.380_391del p.127_131del . . PASS Pindel,Atlas-Indel ATP2C2 9914 hgsc.bcm.edu 37 16 84497336 84497337 + In_Frame_Ins INS - - AGTGGA rs149491518 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 120.0 26.0 146.0 0.0 0.217 . -|0.987;AGTGGA|0.013 0.013 strong . ATP2C2 75 . NM_014861 exon27 c.2839_2840insAGTGGA p.X947delinsX . . PASS Pindel,Atlas-Indel LRRC46 90506 hgsc.bcm.edu 37 17 45914125 45914136 + In_Frame_Del DEL AGGAGCTGGAGC AGGAGCTGGAGC - rs142960476 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 AGGAGCTGGAGC AGGAGCTGGAGC . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 131.0 35.0 184.0 0.0 0.267 . AGGAGCTGGAGC|0.978;-|0.022 0.022 strong . LRRC46 25 . NM_033413 exon8 c.604_615del p.202_205del . . PASS Pindel,Atlas-Indel UPK3BL 100134938 hgsc.bcm.edu 37 7 102281151 102281152 + Frame_Shift_Ins INS - - A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 78.0 27.0 134.0 0.0 0.346154 0 . . none . UPK3BL 6 . NM_001114403 exon2 c.182_183insT p.S61fs . . PASS Atlas-Indel ARID1A 8289 hgsc.bcm.edu 37 1 27097616 27097618 + In_Frame_Del DEL AAG AAG - novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 AAG AAG . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 79.0 16.0 81.0 0.0 0.203 . . . none . ARID1A 842 . NM_139135 exon12 c.3204_3206del p.1068_1069del . . PASS Pindel,Atlas-Indel RSPH10B 222967 hgsc.bcm.edu 37 7 6838173 6838176 + Frame_Shift_Del DEL AGAG AGAG - novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 AGAG AGAG . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 379.0 34.0 497.0 0.0 0.0897098 0 . . none . RSPH10B 28 . NM_173565 exon21 c.2611_2884del p.871_871del . . PASS Atlas-Indel ANKRD40 91369 hgsc.bcm.edu 37 17 48777220 48777221 + In_Frame_Ins INS - - TCA rs138572332 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 51.0 15.0 40.0 0.0 0.294118 0 -|0.957;TCA|0.043 0.043 strong . ANKRD40 35 . NM_052855 exon3 c.318_319insTGA p.D106delinsDD . . PASS Atlas-Indel C11orf16 56673 hgsc.bcm.edu 37 11 8942889 8942890 + Frame_Shift_Del DEL AT AT - rs10583719 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 AT AT . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 179.0 52.0 174.0 0.0 0.291 . AT|0.978;-|0.022 0.022 strong . C11orf16 43 . NM_020643 exon6 c.1378_1379del p.460_460del . . PASS Pindel,Atlas-Indel KIAA1609 57707 hgsc.bcm.edu 37 16 84529358 84529360 + In_Frame_Del DEL CTC CTC - rs200260198 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 CTC CTC . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 184.0 53.0 226.0 0.0 0.288 . CTC|0.994;-|0.006 0.006 strong . KIAA1609 39 . NM_020947 exon3 c.314_316del p.105_106del . . PASS Pindel,Atlas-Indel OR6P1 128366 hgsc.bcm.edu 37 1 158533298 158533299 + Frame_Shift_Ins INS - - A rs201077183 by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 95.0 28.0 94.0 0.0 0.295 . -|0.995;A|0.005 0.005 strong . OR6P1 47 . NM_001160325 exon1 c.97_98insT p.A33fs . . PASS Pindel,Atlas-Indel FOXD4L3 286380 hgsc.bcm.edu 37 9 70919085 70919085 + Frame_Shift_Del DEL C C - novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 931.0 76.0 668.0 0.0 0.0816327 0 . . none . FOXD4L3 7 . NM_199135 exon1 c.1217delG p.C406fs . . PASS Atlas-Indel PODXL2 50512 hgsc.bcm.edu 37 3 127379364 127379369 + In_Frame_Del DEL GAAGAG GAAGAG - rs200281996 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 GAAGAG GAAGAG . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 79.0 29.0 95.0 0.0 0.367 . GAAGAG|0.992;-|0.008 0.008 strong . PODXL2 53 . NM_015720 exon3 c.492_497del p.164_166del . . PASS Pindel,Atlas-Indel OR2T27 403239 hgsc.bcm.edu 37 1 248813309 248813310 + Frame_Shift_Ins INS - - A rs141113411 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 251.0 39.0 280.0 0.0 0.155378 0 -|0.960;A|0.040 0.040 strong . OR2T27 52 . NM_001001824 exon1 c.877_878insT p.R293_N294delinsX . . PASS Atlas-Indel CIC 23152 hgsc.bcm.edu 37 19 42794829 42794831 + In_Frame_Del DEL AAG AAG - novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 AAG AAG . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 107.0 33.0 87.0 0.0 0.308 . . . none . CIC 249 . NM_015125 exon10 c.1908_1910del p.636_637del . . PASS Pindel,Atlas-Indel SMPD2 6610 hgsc.bcm.edu 37 6 109764875 109764877 + In_Frame_Del DEL GGA GGA - rs142982624 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 GGA GGA . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 102.0 34.0 123.0 0.0 0.333 . GGA|0.957;-|0.043 0.043 strong . SMPD2 25 . NM_003080 exon10 c.1038_1040del p.346_347del . . PASS Pindel,Atlas-Indel USP34 9736 hgsc.bcm.edu 37 2 61575022 61575023 + In_Frame_Ins INS - - TGG novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 54.0 17.0 41.0 0.0 0.315 . . . none . USP34 334 . NM_014709 exon15 c.2268_2269insCCA p.H756delinsHH . . PASS Pindel,Atlas-Indel DMXL1 1657 hgsc.bcm.edu 37 5 118529595 118529597 + In_Frame_Del DEL AAT AAT - rs374810198 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 AAT AAT . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 55.0 10.0 52.0 0.0 0.182 . . . weak . DMXL1 268 . NM_005509 exon30 c.7386_7388del p.2462_2463del . . PASS Pindel,Atlas-Indel FOXD4L6 653404 hgsc.bcm.edu 37 9 69200395 69200395 + Frame_Shift_Del DEL G G - novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 1099.0 96.0 643.0 0.0 0.0873521 0 . . none . . . . NM_001085476 exon1 c.1219delT p.W407fs . . PASS Atlas-Indel SLC22A25 387601 hgsc.bcm.edu 37 11 62996774 62996775 + Frame_Shift_Ins INS - - A rs112260121 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 200.0 57.0 235.0 0.0 0.285 . -|0.990;A|0.010 0.010 strong . SLC22A25 87 . NM_199352 exon1 c.351_352insT p.V117fs . . PASS Pindel,Atlas-Indel ADRM1 11047 hgsc.bcm.edu 37 20 60883770 60883778 + In_Frame_Del DEL GACACGAAG GACACGAAG - rs202079747 by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 GACACGAAG GACACGAAG . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 243.0 56.0 250.0 0.0 0.230 . GACACGAAG|0.012;-|0.988 0.988 strong . ADRM1 28 . NM_007002 exon10 c.1176_1184del p.392_395del . . PASS Pindel,Atlas-Indel HRC 3270 hgsc.bcm.edu 37 19 49657889 49657890 + In_Frame_Ins INS - - TCCTCCTCC rs147238387 bycluster;by1000genomes;alternate_allele TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 170.0 31.0 165.0 0.0 0.182353 0 . . alt . HRC 85 . NM_002152 exon1 c.606_607insGGAGGAGGA p.E202delinsEEEE . . PASS Atlas-Indel ONECUT2 9480 hgsc.bcm.edu 37 18 55103476 55103477 + In_Frame_Ins INS - - CAC novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 66.0 11.0 63.0 0.0 0.167 . . . none . ONECUT2 42 . NM_004852 exon1 c.528_529insCAC p.P176delinsPH . . PASS Pindel,Atlas-Indel CABYR 26256 hgsc.bcm.edu 37 18 21740032 21740033 + Frame_Shift_Del DEL TG TG - rs149126027 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 TG TG . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 77.0 26.0 57.0 0.0 0.338 . TG|0.978;-|0.022 0.022 strong . CABYR 51 . NM_153769 exon5 c.1137_1138del p.379_380del . . PASS Pindel,Atlas-Indel SERPINB3 6317 hgsc.bcm.edu 37 18 61323011 61323012 + Frame_Shift_Ins INS - - GCCA rs60533853 alternate_allele TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 192.0 49.0 212.0 0.0 0.255208 0 . . alt . SERPINB3 90 . NM_006919 exon8 c.1053_1054insTGGC p.G351fs . . PASS Atlas-Indel DUPD1 338599 hgsc.bcm.edu 37 10 76803600 76803602 + In_Frame_Del DEL AGA AGA - novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 AGA AGA . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 56.0 18.0 44.0 0.0 0.321 . . . none . DUPD1 30 . NM_001003892 exon2 c.375_377del p.125_126del . . PASS Pindel,Atlas-Indel DEFB119 245932 hgsc.bcm.edu 37 20 29965208 29965211 + Frame_Shift_Del DEL ACTG ACTG - rs374993061 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 ACTG ACTG . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 88.0 36.0 110.0 0.0 0.409 . . . weak DEFB119_ENST00000376321,NS,malignant_melanoma,+1,2 DEFB119 37 2 NM_153289 exon2 c.94_97del p.32_33del . . PASS Pindel,Atlas-Indel NRAP 4892 hgsc.bcm.edu 37 10 115348749 115348751 + In_Frame_Del DEL CTT CTT - rs11575787 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 CTT CTT . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 187.0 61.0 144.0 0.0 0.326 . CTT|0.992;-|0.008 0.008 strong . NRAP 208 . NM_001261463 exon42 c.5180_5182del p.1727_1728del . . PASS Pindel,Atlas-Indel FMO2 2327 hgsc.bcm.edu 37 1 171162551 171162552 + In_Frame_Ins INS - - GAC rs2020868 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 58.0 19.0 76.0 0.0 0.328 . -|0.904;GAC|0.096 0.096 strong . FMO2 66 . NM_001460 exon3 c.210_211insGAC p.S70delinsSD . . PASS Pindel,Atlas-Indel OR2A1 346528 hgsc.bcm.edu 37 7 144015524 144015527 + Frame_Shift_Del DEL TGTT TGTT - novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 TGTT TGTT . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 1136.0 133.0 626.0 0.0 0.117077 0 . . none . OR2A1 10 . NM_001005287 exon1 c.306_309del p.102_103del . . PASS Atlas-Indel LIPM 340654 hgsc.bcm.edu 37 10 90562801 90562802 + Splice_Site INS - - T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 104.0 35.0 129.0 0.0 0.337 . . . none . LIPM 17 . NM_001128215 exon1 c.147+1->T . . . PASS Pindel,Atlas-Indel TRPM3 80036 hgsc.bcm.edu 37 9 73151130 73151133 + Frame_Shift_Del DEL TCTC TCTC - novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 TCTC TCTC . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 453.0 86.0 439.0 0.0 0.190 . . . none . TRPM3 700 . NM_001007471 exon25 c.4861_4864del p.1621_1622del . . PASS Pindel,Atlas-Indel PLIN5 440503 hgsc.bcm.edu 37 19 4529255 4529257 + In_Frame_Del DEL GAG GAG - rs140507757 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 GAG GAG . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 118.0 36.0 143.0 0.0 0.305 . GAG|0.986;-|0.014 0.014 strong . PLIN5 27 . NM_001013706 exon5 c.349_351del p.117_117del . . PASS Pindel,Atlas-Indel ADAM28 10863 hgsc.bcm.edu 37 8 24184128 24184129 + In_Frame_Ins INS - - ATC rs111491080 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 282.0 83.0 269.0 0.0 0.294 . -|0.500;ATC|0.500 0.500 weak . ADAM28 100 . NM_014265 exon10 c.952_953insATC p.Y318delinsYH . . PASS Pindel,Atlas-Indel ARID1B 57492 hgsc.bcm.edu 37 6 157099402 157099403 + In_Frame_Ins INS - - CAGCAG novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 27.0 12.0 30.0 0.0 0.444444 0 . . none . ARID1B 320 . NM_020732 exon1 c.339_340insCAGCAG p.F113delinsFQQ . . PASS Atlas-Indel FMO2 2327 hgsc.bcm.edu 37 1 171165803 171165803 + Frame_Shift_Del DEL G G - rs199532864 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 155.0 43.0 184.0 0.0 0.277 . . . weak . FMO2 66 . NM_001460 exon4 c.336delT p.S112fs . . PASS Pindel,Atlas-Indel SSPO 23145 hgsc.bcm.edu 37 7 149519007 149519007 + Frame_Shift_Del DEL G G - novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 198.0 54.0 181.0 0.0 0.273 . . . none . . . . NM_198455 exon90 c.12810delA p.G4270fs . . PASS Pindel,Atlas-Indel CDCP2 200008 hgsc.bcm.edu 37 1 54610404 54610405 + Frame_Shift_Del DEL TG TG - novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 TG TG . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 119.0 33.0 138.0 0.0 0.277 . . . none . CDCP2 52 . NM_201546 exon2 c.162_163del p.54_55del . . PASS Pindel,Atlas-Indel NOTCH1 4851 hgsc.bcm.edu 37 9 139390649 139390650 + Frame_Shift_Del DEL AG AG - novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 AG AG . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 118.0 38.0 113.0 0.0 0.322 . . . none . NOTCH1 1980 . NM_017617 exon34 c.7542_7543del p.2514_2515del . . PASS Pindel,Atlas-Indel MRM1 79922 hgsc.bcm.edu 37 17 34958760 34958761 + Frame_Shift_Ins INS - - G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 33.0 12.0 29.0 0.0 0.364 . . . none . MRM1 19 . NM_024864 exon1 c.521_522insG p.V174fs . . PASS Pindel,Atlas-Indel CCDC34 91057 hgsc.bcm.edu 37 11 27384449 27384466 + In_Frame_Del DEL TCATCCACGTCTTCCTCA TCATCCACGTCTTCCTCA - rs138931796 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 TCATCCACGTCTTCCTCA TCATCCACGTCTTCCTCA . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 215.0 39.0 294.0 0.0 0.181 . TCATCCACGTCTTCCTCA|0.966;-|0.034 0.034 strong . CCDC34 48 . NM_030771 exon1 c.277_294del p.93_98del . . PASS Pindel,Atlas-Indel ZFHX3 463 hgsc.bcm.edu 37 16 72831357 72831358 + In_Frame_Ins INS - - TTG rs372909378 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 184.0 51.0 198.0 0.0 0.277174 0 . . weak . ZFHX3 404 . NM_006885 exon9 c.5224_5225insCAA p.A1742delinsQA . . PASS Atlas-Indel PDE6H 5149 hgsc.bcm.edu 37 12 15134337 15134337 + Frame_Shift_Del DEL T T - novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 106.0 33.0 110.0 0.0 0.311 . . . none . PDE6H 13 . NM_006205 exon4 c.178delA p.I60fs . . PASS Pindel,Atlas-Indel ST6GALNAC5 81849 hgsc.bcm.edu 37 1 77334292 77334293 + In_Frame_Ins INS - - CAGCAA rs201548881 by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 136.0 63.0 93.0 0.0 0.463235 0 -|0.929;CAGCAA|0.071 0.071 strong . ST6GALNAC5 59 . NM_030965 exon2 c.126_127insCAGCAA p.Q42delinsQQQ . . PASS Atlas-Indel SUMF2 25870 hgsc.bcm.edu 37 7 56140760 56140761 + Frame_Shift_Del DEL TT TT - rs146946713 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 TT TT . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 101.0 43.0 105.0 0.0 0.426 . TT|0.993;-|0.007 0.007 strong . SUMF2 56 . NM_001130069 exon3 c.351_352del p.117_118del . . PASS Pindel,Atlas-Indel RPGR 6103 hgsc.bcm.edu 37 X 38145694 38145717 + In_Frame_Del DEL TCCTCCTCTTCCCCCTCCCCTTCC TCCTCCTCTTCCCCCTCCCCTTCC - novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 TCCTCCTCTTCCCCCTCCCCTTCC TCCTCCTCTTCCCCCTCCCCTTCC . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 120.0 24.0 100.0 0.0 0.200 . . . none . RPGR 175 . NM_001034853 exon15 c.2536_2559del p.846_853del . . PASS Pindel ZNF271 10778 hgsc.bcm.edu 37 18 32889822 32889823 + RNA INS - - ATTGGTGTCCAAAACTGACACA novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 44.0 16.0 43.0 0.0 0.364 . . . none . ZNF271 16 . . . . . . . PASS Pindel TMEM255B 348013 hgsc.bcm.edu 37 13 114503876 114503916 + Frame_Shift_Del DEL CCTGCGGGAGGTGAGGGGCACCGGGGACCCCCATATCTACA CCTGCGGGAGGTGAGGGGCACCGGGGACCCCCATATCTACA - novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 CCTGCGGGAGGTGAGGGGCACCGGGGACCCCCATATCTACA CCTGCGGGAGGTGAGGGGCACCGGGGACCCCCATATCTACA . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 138.0 25.0 199.0 0.0 0.181 . . . none . . . . NM_182614 exon6 c.499_509del p.167_170del . . PASS Pindel SERPINB3 6317 hgsc.bcm.edu 37 18 61323012 61323014 + In_Frame_Del DEL CCT CCT - rs60533853 alternate_allele TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 CCT CCT . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 190.0 42.0 211.0 0.0 0.221 . . . alt . SERPINB3 90 . NM_006919 exon8 c.1051_1053del p.351_351del . . PASS Pindel RPGR 6103 hgsc.bcm.edu 37 X 38145199 38145201 + In_Frame_Del DEL TCC TCC - rs200955614 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 TCC TCC . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 55.0 10.0 29.0 0.0 0.182 . TCC|0.992;-|0.008 0.008 strong . RPGR 175 . NM_001034853 exon15 c.3052_3054del p.1018_1018del . . PASS Pindel DMKN 93099 hgsc.bcm.edu 37 19 36002371 36002394 + In_Frame_Del DEL CCACTGCTGCCGCCACTGCTGCCG CCACTGCTGCCGCCACTGCTGCCG - novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 CCACTGCTGCCGCCACTGCTGCCG CCACTGCTGCCGCCACTGCTGCCG . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 90.0 25.0 91.0 0.0 0.278 . . . none . DMKN 116 . NM_033317 exon5 c.838_861del p.280_287del . . PASS Pindel KRTAP10-6 386674 hgsc.bcm.edu 37 21 46012225 46012226 + In_Frame_Ins INS - - CAGCAGCTGGGGGCA novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 58.0 14.0 93.0 0.0 0.241 . . . none . KRTAP10-6 57 . NM_198688 exon1 c.141_142insTGCCCCCAGCTGCTG p.C47delinsCAPSCC . . PASS Pindel GPR39 2863 hgsc.bcm.edu 37 2 133403034 133403036 + In_Frame_Del DEL AGA AGA - rs113224054 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 AGA AGA . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 23.0 10.0 26.0 0.0 0.435 . AGA|0.500;-|0.500 0.500 weak . GPR39 60 . NM_001508 exon2 c.1216_1218del p.406_406del . . PASS Pindel RPF2 84154 hgsc.bcm.edu 37 6 111310252 111310252 + Missense_Mutation SNP G G A rs6909298 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 133.0 66.0 113.0 0.0 0.496241 0 G|0.977;A|0.023 0.023 strong . RPF2 26 . NM_032194 exon3 c.G178A p.G60S CCATACGGTGTAC . PASS Atlas-SNP SEC16A 9919 hgsc.bcm.edu 37 9 139370829 139370829 + Silent SNP G G A rs114386206 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 121.0 45.0 89.0 0.0 0.371901 0 G|0.996;A|0.004 0.004 strong . SEC16A 249 . NM_014866 exon3 c.C1239T p.P413P AGGTGCGGGCGGA . PASS Atlas-SNP EIF2A 83939 hgsc.bcm.edu 37 3 150285535 150285535 + Silent SNP T T C rs376872417 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 187.0 95.0 174.0 0.0 0.508021 0 . . weak . EIF2A 59 . NM_032025 exon7 c.T531C p.P177P ATCACCTGGACCC . PASS Atlas-SNP TNPO2 30000 hgsc.bcm.edu 37 19 12813683 12813683 + Silent SNP T T C rs16978630 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 314.0 141.0 310.0 0.0 0.449045 0 T|0.866;C|0.134 0.134 strong . TNPO2 108 . NM_013433 exon20 c.A2259G p.E753E AATGATTTCCACC . PASS Atlas-SNP LRP4 4038 hgsc.bcm.edu 37 11 46917868 46917868 + Missense_Mutation SNP A A G rs7926667 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 22.0 7.0 28.0 0.0 0.318182 0 A|0.948;G|0.052 0.052 strong . LRP4 160 . NM_002334 exon9 c.T941C p.L314S TGGTCCAAGGCAC . PASS Atlas-SNP DTX4 23220 hgsc.bcm.edu 37 11 58949852 58949852 + Silent SNP C C T rs75403375 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 49.0 25.0 45.0 0.0 0.510204 0 C|0.975;T|0.025 0.025 strong . DTX4 84 . NM_015177 exon2 c.C852T p.T284T CAAGACCGGAAGG . PASS Atlas-SNP ZNF804B 219578 hgsc.bcm.edu 37 7 88965040 88965040 + Missense_Mutation SNP C C T rs56948780 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 130.0 65.0 135.0 0.0 0.5 0 C|0.964;T|0.036 0.036 strong . ZNF804B 322 . NM_181646 exon4 c.C2744T p.T915I CAAACACTGCAGA . PASS Atlas-SNP IFNA13 3447 hgsc.bcm.edu 37 9 21367519 21367519 + Missense_Mutation SNP G G C rs28383794 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 592.0 229.0 569.0 1.0 0.386824 0.00175747 G|0.832;C|0.168 0.168 strong . IFNA13 19 . NM_006900 exon1 c.C491G p.A164G TCCCAGGCACAAG . PASS Atlas-SNP ALDH16A1 126133 hgsc.bcm.edu 37 19 49969501 49969501 + Silent SNP G G A rs61732839 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 50.0 20.0 40.0 0.0 0.4 0 G|0.975;A|0.025 0.025 strong . ALDH16A1 54 . NM_153329 exon14 c.G1899A p.A633A TCGGGCGTGGGGG . PASS Atlas-SNP ZNF492 57615 hgsc.bcm.edu 37 19 22846962 22846962 + Missense_Mutation SNP G G C rs138844698 by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 160.0 119.0 281.0 2.0 0.74375 0.00711744 G|0.957;C|0.043 0.043 strong . ZNF492 129 . NM_020855 exon4 c.G491C p.S164T TTCATAGTGGAGA . PASS Atlas-SNP FAM214A 56204 hgsc.bcm.edu 37 15 52901109 52901109 + Missense_Mutation SNP T T C rs61731676 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 83.0 38.0 55.0 0.0 0.457831 0 T|0.982;C|0.018 0.018 strong . . . . NM_019600 exon6 c.A2002G p.K668E AGAATTTTGGATT . PASS Atlas-SNP WDR85 92715 hgsc.bcm.edu 37 9 140472034 140472034 + Missense_Mutation SNP G G C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 133.0 92.0 106.0 0.0 0.691729 0 . . none . WDR85 20 . NM_138778 exon2 c.C175G p.P59A CCTGAGGCTCCTT . PASS Atlas-SNP PCSK7 9159 hgsc.bcm.edu 37 11 117097931 117097931 + Silent SNP C C T rs45528535 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 79.0 28.0 78.0 0.0 0.35443 0 C|0.956;T|0.044 0.044 strong PCSK7,NS,carcinoma,-2,1 PCSK7 59 1 NM_004716 exon5 c.G711A p.A237A CACAGCCGCGATC . PASS Atlas-SNP ADRB1 153 hgsc.bcm.edu 37 10 115805057 115805057 + Missense_Mutation SNP G G T rs17875445 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 37.0 17.0 36.0 0.0 0.459459 0 G|0.994;T|0.006 0.006 strong . ADRB1 16 . NM_000684 exon1 c.G1166T p.G389V TCCAGGGACTGCT . PASS Atlas-SNP TMEM63A 9725 hgsc.bcm.edu 37 1 226050503 226050503 + Silent SNP G G A rs10915888 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 203.0 108.0 170.0 0.0 0.53202 0 G|0.956;A|0.044 0.044 strong . TMEM63A 75 . NM_014698 exon11 c.C795T p.N265N GGCCACGTTGTAG . PASS Atlas-SNP SVEP1 79987 hgsc.bcm.edu 37 9 113265448 113265448 + Silent SNP A A G rs10120982 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 202.0 59.0 186.0 0.0 0.292079 0 A|0.992;G|0.008 0.008 strong SVEP1,NS,carcinoma,-1,2 SVEP1 326 2 NM_153366 exon6 c.T1353C p.C451C TGTAGAACAGCTG . PASS Atlas-SNP ADAMTS15 170689 hgsc.bcm.edu 37 11 130318935 130318935 + Silent SNP C C A rs146878786 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 59.0 24.0 82.0 0.0 0.40678 0 C|0.997;A|0.003 0.003 strong . ADAMTS15 103 . NM_139055 exon1 c.C67A p.R23R CCAGAGCGGGAGG . PASS Atlas-SNP ALX4 60529 hgsc.bcm.edu 37 11 44286722 44286722 + Silent SNP C C T rs145904583 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 221.0 109.0 267.0 0.0 0.493213 0 C|0.991;T|0.009 0.009 strong ALX4,NS,carcinoma,0,1 ALX4 58 1 NM_021926 exon4 c.G918A p.P306P CCAGGACGGGTTC . PASS Atlas-SNP PKP2 5318 hgsc.bcm.edu 37 12 33031023 33031023 + Missense_Mutation SNP G G A rs62001016 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 97.0 47.0 85.0 0.0 0.484536 0 G|0.988;A|0.012 0.012 strong . PKP2 110 . NM_004572 exon3 c.C791T p.A264V AGCCCTGCCGTCA . PASS Atlas-SNP SSPO 23145 hgsc.bcm.edu 37 7 149488991 149488991 + Missense_Mutation SNP T T C rs893601 bycluster;byfrequency;by2hit2allele;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 83.0 40.0 95.0 0.0 0.481928 0 T|0.976;C|0.024 0.024 strong . . . . NM_198455 exon35 c.T5332C p.S1778P TGCCACTCACCCC . PASS Atlas-SNP ZNF286A 57335 hgsc.bcm.edu 37 17 15604508 15604508 + Missense_Mutation SNP C C G rs144115902 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 222.0 110.0 263.0 0.0 0.495495 0 C|0.978;G|0.022 0.022 strong . ZNF286A 58 . NM_020652 exon3 c.C80G p.T27R AGAGCACAGAAGA . PASS Atlas-SNP ITIH6 347365 hgsc.bcm.edu 37 X 54815065 54815065 + Missense_Mutation SNP G G C rs140757238 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 105.0 50.0 81.0 0.0 0.47619 0 G|0.976;C|0.024 0.024 strong . . . . NM_198510 exon5 c.C634G p.P212A TGGATGGGGGTGA . PASS Atlas-SNP SNX20 124460 hgsc.bcm.edu 37 16 50709792 50709792 + Silent SNP C C T rs35435054 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 80.0 34.0 66.0 0.0 0.425 0 C|0.981;T|0.019 0.019 strong SNX20_ENST00000300590,NS,carcinoma,-1,2 SNX20 50 2 NM_001144972 exon3 c.G171A p.T57T CTCCCGCGTGGTC . PASS Atlas-SNP IGSF22 283284 hgsc.bcm.edu 37 11 18743529 18743529 + Missense_Mutation SNP T T C rs115954314 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 71.0 30.0 50.0 0.0 0.422535 0 T|0.992;C|0.008 0.008 strong . IGSF22 211 . NM_173588 exon3 c.A169G p.S57G TTGAGCTCCGGGT . PASS Atlas-SNP LRSAM1 90678 hgsc.bcm.edu 37 9 130263362 130263362 + Silent SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 68.0 20.0 63.0 0.0 0.294118 0 . . none . LRSAM1 40 . NM_001005373 exon25 c.C1986T p.S662S GCCATCCGCTCCC . PASS Atlas-SNP ZBTB18 10472 hgsc.bcm.edu 37 1 244217662 244217662 + Silent SNP T T C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 167.0 91.0 169.0 0.0 0.54491 0 . . none . . . . NM_205768 exon2 c.T586C p.L196L ATGCGATTGCCCT . PASS Atlas-SNP EHMT1 79813 hgsc.bcm.edu 37 9 140671147 140671147 + Silent SNP C C T rs7868455 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 126.0 126.0 122.0 0.0 1 0 C|0.939;T|0.061 0.061 strong . EHMT1 196 . NM_001145527 exon12 c.C1869T p.N623N CAATAACGCCAGC . PASS Atlas-SNP ITGA11 22801 hgsc.bcm.edu 37 15 68631920 68631920 + Silent SNP C C T rs9302249 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 78.0 32.0 56.0 0.0 0.410256 0 C|0.956;T|0.044 0.044 strong ITGA11,colon,carcinoma,-1,1 ITGA11 110 1 NM_001004439 exon11 c.G1194A p.T398T GGCACTCGTCTCC . PASS Atlas-SNP DOCK11 139818 hgsc.bcm.edu 37 X 117680019 117680019 + Silent SNP G G C rs61740837 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 201.0 77.0 192.0 0.0 0.383085 0 G|0.993;C|0.007 0.007 strong . DOCK11 185 . NM_144658 exon6 c.G498C p.V166V TGGTGTGATAAAA . PASS Atlas-SNP COL28A1 340267 hgsc.bcm.edu 37 7 7410391 7410391 + Missense_Mutation SNP A A C rs76240858 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 97.0 32.0 84.0 0.0 0.329897 0 A|0.997;C|0.003 0.003 strong . COL28A1 113 . NM_001037763 exon33 c.T3031G p.S1011A GAGTAGATTCACT . PASS Atlas-SNP PLD3 23646 hgsc.bcm.edu 37 19 40882588 40882588 + Silent SNP C C T rs57187324 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 49.0 23.0 62.0 0.0 0.469388 0 C|0.990;T|0.010 0.010 strong . PLD3 71 . NM_012268 exon11 c.C1092T p.I364I GCTCATCAGCTGC . PASS Atlas-SNP ADCY9 115 hgsc.bcm.edu 37 16 4043415 4043415 + Missense_Mutation SNP T T C rs113187435 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 245.0 116.0 269.0 0.0 0.473469 0 T|0.991;C|0.009 0.009 strong . ADCY9 151 . NM_001116 exon4 c.A1981G p.S661G TGGTGCTGTTTTT . PASS Atlas-SNP DNAH9 1770 hgsc.bcm.edu 37 17 11622729 11622729 + Silent SNP C C T rs61739488 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 106.0 47.0 114.0 0.0 0.443396 0 C|0.950;T|0.050 0.050 strong . DNAH9 695 . NM_001372 exon27 c.C5631T p.T1877T CAAGACCGAGACC . PASS Atlas-SNP LUZP1 7798 hgsc.bcm.edu 37 1 23415518 23415518 + Missense_Mutation SNP C C T rs12066671 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 328.0 166.0 273.0 0.0 0.506098 0 C|0.925;T|0.075 0.075 strong . LUZP1 83 . NM_033631 exon5 c.G3101A p.S1034N TAGACACTGAGTG . PASS Atlas-SNP PRODH2 58510 hgsc.bcm.edu 37 19 36302897 36302897 + Silent SNP G G A rs145376615 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 97.0 51.0 97.0 0.0 0.525773 0 A|0.006;G|0.994;T|0.000 0.006 strong . PRODH2 68 . NM_021232 exon5 c.C792T p.P264P CCTCTCGGGGCTC . PASS Atlas-SNP MYL9 10398 hgsc.bcm.edu 37 20 35176541 35176541 + Silent SNP G G A rs11553089 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 101.0 60.0 117.0 0.0 0.594059 0 G|0.975;A|0.025 0.025 strong . MYL9 13 . NM_006097 exon3 c.G291A p.T97T CGGCACGGACCCC . PASS Atlas-SNP OR2T27 403239 hgsc.bcm.edu 37 1 248813352 248813352 + Silent SNP G G A rs147773385 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 166.0 26.0 246.0 0.0 0.156627 0 G|0.986;A|0.014 0.014 strong OR2T27,colon,carcinoma,0,1 OR2T27 52 1 NM_001001824 exon1 c.C834T p.Y278Y GATGGTGTAGAAG . scavenged Atlas-SNP LRTM1 57408 hgsc.bcm.edu 37 3 54958884 54958884 + Silent SNP A A G rs35757787 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 124.0 67.0 122.0 0.0 0.540323 0 A|0.971;G|0.029 0.029 strong . LRTM1 52 . NM_020678 exon2 c.T366C p.P122P CAGCTGAGGGAGG . PASS Atlas-SNP CAMK4 814 hgsc.bcm.edu 37 5 110820116 110820116 + Silent SNP T T G rs6886469 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 69.0 40.0 78.0 0.0 0.57971 0 T|0.991;G|0.009 0.009 strong . CAMK4 77 . NM_001744 exon11 c.T1374G p.A458A CTCTGCTGTGGGT . PASS Atlas-SNP TSSK3 81629 hgsc.bcm.edu 37 1 32829261 32829261 + Missense_Mutation SNP A A G rs35508255 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 147.0 82.0 120.0 0.0 0.557823 0 A|0.981;G|0.019 0.019 strong . TSSK3 22 . NM_052841 exon2 c.A211G p.I71V AACATCATCCAGG . PASS Atlas-SNP ERBB2 2064 hgsc.bcm.edu 37 17 37872035 37872035 + Missense_Mutation SNP G G T rs4252633 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 66.0 32.0 42.0 0.0 0.484848 0 G|0.979;T|0.021 0.021 strong . ERBB2 429 . NM_004448 exon12 c.G1356T p.W452C CAGCTGGCTGGGG . PASS Atlas-SNP ACIN1 22985 hgsc.bcm.edu 37 14 23549948 23549948 + Missense_Mutation SNP C C T rs11555803 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 92.0 48.0 102.0 0.0 0.521739 0 C|0.971;T|0.029 0.029 strong . ACIN1 147 . NM_001164814 exon6 c.G770A p.R257K AGGTTTCTGGAAG . PASS Atlas-SNP SYCE1L 100130958 hgsc.bcm.edu 37 16 77246093 77246093 + Missense_Mutation SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 123.0 67.0 73.0 0.0 0.544715 0 . . none . SYCE1L 10 . NM_001129979 exon8 c.G490A p.E164K CTCTCGGAGAGTG . PASS Atlas-SNP UGT3A2 167127 hgsc.bcm.edu 37 5 36049324 36049324 + Silent SNP G G A rs148290056 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 112.0 46.0 101.0 0.0 0.410714 0 G|0.996;A|0.004 0.004 strong . UGT3A2 117 . NM_174914 exon4 c.C510T p.F170F AGAGCCGAATGAA . PASS Atlas-SNP GPR87 53836 hgsc.bcm.edu 37 3 151017855 151017855 + Missense_Mutation SNP T T G rs141290943 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 73.0 44.0 76.0 0.0 0.60274 0 T|0.998;G|0.002 0.002 strong . GPR87 52 . NM_023915 exon2 c.A34C p.N12H GCTTACTTGGTAA . PASS Atlas-SNP MAP10 54627 hgsc.bcm.edu 37 1 232943513 232943513 + Missense_Mutation SNP A A T rs61735509 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 106.0 55.0 89.0 0.0 0.518868 0 A|0.989;T|0.011 0.011 strong . . . . NM_019090 exon1 c.A2744T p.H915L CTGTACACTCATA . PASS Atlas-SNP CLEC4F 165530 hgsc.bcm.edu 37 2 71043607 71043607 + Silent SNP G G C rs114209954 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 171.0 82.0 186.0 0.0 0.479532 0 G|0.985;C|0.015 0.015 strong . CLEC4F 95 . NM_173535 exon4 c.C906G p.T302T GGCCTGGGTCTGG . PASS Atlas-SNP TNFRSF18 8784 hgsc.bcm.edu 37 1 1141824 1141824 + Missense_Mutation SNP G G C rs11466676 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 22.0 9.0 33.0 0.0 0.409091 0 G|0.955;C|0.045 0.045 strong . TNFRSF18 13 . NM_148902 exon1 c.C128G p.T43R GTTCCCGTCCCAA . PASS Atlas-SNP KRTAP4-7 100132476 hgsc.bcm.edu 37 17 39240611 39240611 + Silent SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 176.0 35.0 113.0 0.0 0.198864 0 . . none KRTAP4-9_ENST00000377734,NS,carcinoma,+1,2 KRTAP4-7 49 2 NM_033061 exon1 c.G153A p.R51R CTGCAGGCCCCAG . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195507780 195507780 + Silent SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 183.0 52.0 336.0 0.0 0.284153 0 . . none MUC4_ENST00000463781,NS,carcinoma,-2,2 MUC4 1505 2 NM_018406 exon2 c.C10671T p.D3557D GGAAGCGTCGGTG . scavenged Atlas-SNP AHNAK2 113146 hgsc.bcm.edu 37 14 105417732 105417732 + Silent SNP G G A rs190986194 by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 258.0 105.0 363.0 0.0 0.406977 0 G|0.914;A|0.086 0.086 strong . AHNAK2 719 . NM_138420 exon7 c.C4056T p.D1352D AGACAGGTCCACG . PASS Atlas-SNP ITGAD 3681 hgsc.bcm.edu 37 16 31422071 31422071 + Missense_Mutation SNP C C G rs142278416 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 190.0 89.0 209.0 0.0 0.468421 0 C|0.991;G|0.009 0.009 strong . ITGAD 154 . NM_005353 exon12 c.C1228G p.L410V ACCGAGCTAGCCC . PASS Atlas-SNP AHNAK2 113146 hgsc.bcm.edu 37 14 105416344 105416344 + Missense_Mutation SNP T T G rs368838079 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 301.0 16.0 290.0 0.0 0.0531561 0 . . weak . AHNAK2 719 . NM_138420 exon7 c.A5444C p.D1815A GTCACATCCTTGT . PASS Atlas-SNP ZC3H12C 85463 hgsc.bcm.edu 37 11 110007834 110007834 + Silent SNP T T C rs78240010 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 54.0 24.0 91.0 0.0 0.444444 0 T|0.992;C|0.008 0.008 strong . ZC3H12C 83 . NM_033390 exon2 c.T468C p.P156P ACCACCTGATGTG . PASS Atlas-SNP PTAFR 5724 hgsc.bcm.edu 37 1 28476520 28476520 + Missense_Mutation SNP T T C rs5939 bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 151.0 68.0 121.0 0.0 0.450331 0 T|0.975;C|0.025 0.025 strong . PTAFR 30 . NM_001164723 exon3 c.A1013G p.N338S AGGGAATTGCCAG . PASS Atlas-SNP OR4D9 390199 hgsc.bcm.edu 37 11 59282651 59282651 + Missense_Mutation SNP C C T rs76276934 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 174.0 88.0 177.0 0.0 0.505747 0 C|0.979;T|0.021 0.021 strong . OR4D9 47 . NM_001004711 exon1 c.C266T p.T89I CAGAGACAAAAAC . PASS Atlas-SNP SPATC1L 84221 hgsc.bcm.edu 37 21 47588365 47588365 + Missense_Mutation SNP G G A rs73908565 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 127.0 57.0 116.0 0.0 0.448819 0 G|0.978;A|0.022 0.022 strong . . . . NM_001142854 exon3 c.C401T p.S134F AGCGGGGACAGCT . PASS Atlas-SNP CHCHD3 54927 hgsc.bcm.edu 37 7 132470419 132470419 + Silent SNP G G A rs147050556 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 324.0 186.0 329.0 0.0 0.574074 0 G|0.998;A|0.002 0.002 strong . CHCHD3 21 . NM_017812 exon8 c.C663T p.S221S AAGCATGCTCTGC . PASS Atlas-SNP NOL10 79954 hgsc.bcm.edu 37 2 10729257 10729257 + Missense_Mutation SNP T T C rs34359340 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 247.0 116.0 239.0 0.0 0.469636 0 T|0.964;C|0.036 0.036 strong . NOL10 22 . NM_024894 exon19 c.A1756G p.T586A GGACTGTCTGCTG . PASS Atlas-SNP RNF130 55819 hgsc.bcm.edu 37 5 179393867 179393867 + Silent SNP T T C rs10060093 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 182.0 82.0 148.0 0.0 0.450549 0 T|0.972;C|0.028 0.028 strong . RNF130 49 . NM_018434 exon7 c.A1089G p.S363S AAGAGGTGAGATC . PASS Atlas-SNP RIMKLB 57494 hgsc.bcm.edu 37 12 8926015 8926015 + Silent SNP C C T rs2302488 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 267.0 116.0 263.0 0.0 0.434457 0 C|0.911;T|0.089 0.089 strong . RIMKLB 47 . NM_020734 exon7 c.C796T p.L266L GATCTGCTGATGA . PASS Atlas-SNP GRM1 2911 hgsc.bcm.edu 37 6 146755561 146755561 + Missense_Mutation SNP C C G rs146753539 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 68.0 23.0 63.0 0.0 0.338235 0 C|0.993;G|0.007 0.007 strong GRM1,NS,carcinoma,-1,1 GRM1 419 1 NM_000838 exon9 c.C3214G p.P1072A CCACCTCCGCAGC . PASS Atlas-SNP TSKS 60385 hgsc.bcm.edu 37 19 50251701 50251701 + Missense_Mutation SNP C C T rs199829146 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 165.0 71.0 167.0 0.0 0.430303 0 . . weak TSKS,NS,carcinoma,+1,2 TSKS 97 2 NM_021733 exon3 c.G425A p.R142H TTGGCGCGGACCA . PASS Atlas-SNP SLC9C2 284525 hgsc.bcm.edu 37 1 173526520 173526520 + Missense_Mutation SNP C C T rs116588526 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 223.0 118.0 238.0 0.0 0.529148 0 C|0.989;T|0.011 0.011 strong . . . . NM_178527 exon10 c.G1174A p.V392I TATAAACATCAGG . PASS Atlas-SNP GPATCH2 55105 hgsc.bcm.edu 37 1 217793718 217793718 + Silent SNP A A G rs34839777 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 51.0 22.0 51.0 0.0 0.431373 0 A|0.990;G|0.010 0.010 strong . GPATCH2 53 . NM_018040 exon2 c.T180C p.P60P TTTCAGAGGGCAA . PASS Atlas-SNP CYP4F12 66002 hgsc.bcm.edu 37 19 15793282 15793282 + Silent SNP A A G rs35352350 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 395.0 56.0 326.0 0.0 0.141772 0 A|0.991;G|0.009 0.009 strong . CYP4F12 89 . NM_023944 exon6 c.A609G p.L203L CAGTCTACAGAAA . PASS Atlas-SNP SNX27 81609 hgsc.bcm.edu 37 1 151638486 151638486 + Silent SNP T T C rs150091333 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 110.0 50.0 95.0 0.0 0.454545 0 T|0.994;C|0.006 0.006 strong . SNX27 44 . NM_030918 exon6 c.T984C p.F328F CTCCTTTGGTAAG . PASS Atlas-SNP GNA14 9630 hgsc.bcm.edu 37 9 80144099 80144099 + Silent SNP G G A rs12346870 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 324.0 213.0 291.0 0.0 0.657407 0 G|0.976;A|0.024 0.024 strong . GNA14 50 . NM_004297 exon2 c.C195T p.D65D GTCTTCGTCGCTG . PASS Atlas-SNP IGSF22 283284 hgsc.bcm.edu 37 11 18735480 18735480 + Missense_Mutation SNP G G A rs111397851 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 194.0 107.0 165.0 0.0 0.551546 0 G|0.961;A|0.039 0.039 strong . IGSF22 211 . NM_173588 exon14 c.C2014T p.R672C CTTCACGCACACA . PASS Atlas-SNP ABCA3 21 hgsc.bcm.edu 37 16 2373687 2373687 + Silent SNP C C T rs74002800 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 126.0 46.0 111.0 0.0 0.365079 0 C|0.963;T|0.037 0.037 strong . ABCA3 176 . NM_001089 exon7 c.G450A p.V150V ATATTTCACCTGT . PASS Atlas-SNP INSL6 11172 hgsc.bcm.edu 37 9 5185365 5185365 + Missense_Mutation SNP A A G rs2149554 bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 117.0 61.0 84.0 1.0 0.521368 0.0119048 A|0.897;G|0.103 0.103 strong INSL6,NS,carcinoma,+2,1 INSL6 35 1 NM_007179 exon1 c.T238C p.F80L TTTCGAACTGGTA . scavenged Atlas-SNP ICAM5 7087 hgsc.bcm.edu 37 19 10404588 10404588 + Silent SNP T T C rs116688659 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 36.0 12.0 45.0 0.0 0.333333 0 T|0.995;C|0.005 0.005 strong . ICAM5 53 . NM_003259 exon7 c.T1680C p.S560S GGGCTCTGCGGCC . PASS Atlas-SNP KRTAP4-11 653240 hgsc.bcm.edu 37 17 39274360 39274360 + Missense_Mutation SNP A A T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 169.0 15.0 189.0 2.0 0.0887574 0.010582 . . none KRTAP4-11,NS,carcinoma,0,1 KRTAP4-11 94 1 NM_033059 exon1 c.T208A p.C70S AGATGCAGCATCT . scavenged Atlas-SNP DNAH14 127602 hgsc.bcm.edu 37 1 225355716 225355716 + Missense_Mutation SNP T T C rs78614986 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 279.0 131.0 271.0 0.0 0.469534 0 T|0.993;C|0.007 0.007 strong . DNAH14 300 . NM_001373 exon35 c.T5455C p.Y1819H CAGTTTTATAATC . PASS Atlas-SNP MGAM 8972 hgsc.bcm.edu 37 7 141754625 141754625 + Silent SNP C C T rs115294234 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 190.0 95.0 169.0 0.0 0.5 0 C|0.985;T|0.015 0.015 strong . MGAM 767 . NM_004668 exon27 c.C3231T p.T1077T CAGCACCCCTGAG . PASS Atlas-SNP SLC37A3 84255 hgsc.bcm.edu 37 7 140051116 140051116 + Missense_Mutation SNP G G A rs76089276 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 187.0 83.0 171.0 0.0 0.44385 0 G|0.969;A|0.031 0.031 strong . SLC37A3 80 . NM_207113 exon9 c.C839T p.A280V CTTATCGCCTTGA . PASS Atlas-SNP CLDN22 53842 hgsc.bcm.edu 37 4 184240777 184240777 + Missense_Mutation SNP A A G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 300.0 153.0 243.0 2.0 0.51 0.00823045 . . none CLDN22,NS,carcinoma,+2,1 CLDN22 20 1 NM_001111319 exon1 c.T595C p.Y199H CTGCGTAGTGGCC . scavenged Atlas-SNP NAA16 79612 hgsc.bcm.edu 37 13 41929296 41929296 + Missense_Mutation SNP A A G rs17062054 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 36.0 13.0 33.0 0.0 0.361111 0 A|0.919;G|0.081 0.081 strong . NAA16 74 . NM_001110798 exon10 c.A1031G p.E344G TCCAGGAACTTGT . PASS Atlas-SNP PELP1 27043 hgsc.bcm.edu 37 17 4586220 4586220 + Silent SNP G G A rs35109567 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 176.0 84.0 185.0 0.0 0.477273 0 G|0.974;A|0.026 0.026 strong . PELP1 102 . NM_014389 exon4 c.C448T p.L150L CGGCCAGCTCCAT . PASS Atlas-SNP AHSG 197 hgsc.bcm.edu 37 3 186338634 186338634 + Missense_Mutation SNP G G A rs77385737 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 169.0 86.0 124.0 1.0 0.508876 0.00806452 G|0.996;A|0.004 0.004 strong AHSG,NS,carcinoma,+1,1 AHSG 40 1 NM_001622 exon7 c.G1019A p.R340H AAACACGCACAGT . scavenged Atlas-SNP GEMIN4 50628 hgsc.bcm.edu 37 17 649164 649164 + Missense_Mutation SNP G G A rs34519093 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 35.0 22.0 46.0 0.0 0.628571 0 G|0.978;A|0.022 0.022 strong . GEMIN4 116 . NM_015721 exon2 c.C2119T p.R707C TGAAGCGGTCCAA . PASS Atlas-SNP INTS1 26173 hgsc.bcm.edu 37 7 1538174 1538174 + Silent SNP C C T rs143126716 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 166.0 166.0 131.0 0.0 1 0 C|0.988;T|0.012 0.012 strong INTS1,NS,carcinoma,-1,1 INTS1 145 1 NM_001080453 exon10 c.G1299A p.A433A CTTGTGCGCGCTC . PASS Atlas-SNP AWAT1 158833 hgsc.bcm.edu 37 X 69455671 69455671 + Missense_Mutation SNP G G A rs61995694 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 119.0 49.0 127.0 0.0 0.411765 0 G|0.967;A|0.033 0.033 strong . AWAT1 74 . NM_001013579 exon2 c.G182A p.R61Q CAGAGCGAGGTAA . PASS Atlas-SNP SCAF11 9169 hgsc.bcm.edu 37 12 46339033 46339033 + Silent SNP A A G rs11183245 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 90.0 42.0 97.0 0.0 0.466667 0 A|0.972;G|0.028 0.028 strong . SCAF11 145 . NM_004719 exon6 c.T462C p.H154H CTTACTATGTATC . PASS Atlas-SNP SYNE2 23224 hgsc.bcm.edu 37 14 64450479 64450479 + Missense_Mutation SNP A A G rs78191145 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 138.0 80.0 149.0 0.0 0.57971 0 A|0.996;G|0.004 0.004 strong . SYNE2 577 . NM_182914 exon18 c.A2026G p.K676E ATGATAAAAAAAC . PASS Atlas-SNP SDC3 9672 hgsc.bcm.edu 37 1 31349795 31349795 + Silent SNP G G A rs142879690 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 141.0 70.0 119.0 0.0 0.496454 0 G|0.998;A|0.002 0.002 strong . SDC3 45 . NM_014654 exon3 c.C474T p.T158T GGAGACGGTGGTG . PASS Atlas-SNP ELL 8178 hgsc.bcm.edu 37 19 18561420 18561420 + Silent SNP C C T rs34078075 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 266.0 134.0 189.0 0.0 0.503759 0 C|0.976;T|0.024 0.024 strong . ELL 52 . NM_006532 exon8 c.G1332A p.S444S GCTGCGCGAGGGG . PASS Atlas-SNP DDX27 55661 hgsc.bcm.edu 37 20 47858695 47858695 + Missense_Mutation SNP G G A rs143843778 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 133.0 56.0 139.0 0.0 0.421053 0 G|0.996;A|0.004 0.004 strong . DDX27 74 . NM_017895 exon18 c.G2161A p.A721T CGCAGAGCCAAGC . PASS Atlas-SNP OR8D2 283160 hgsc.bcm.edu 37 11 124190036 124190036 + Missense_Mutation SNP G G A rs61735123 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 66.0 28.0 61.0 0.0 0.424242 0 G|0.972;A|0.028 0.028 strong . OR8D2 65 . NM_001002918 exon1 c.C58T p.R20C CTGGGCGTTGTGT . PASS Atlas-SNP CCHCR1 54535 hgsc.bcm.edu 37 6 31118304 31118304 + Silent SNP C C T rs139910767 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 45.0 76.0 0.0 0.483871 0 C|0.999;T|0.001 0.001 strong . CCHCR1 68 . NM_001105564 exon7 c.G1140A p.A380A CAGCTCCGCGGTG . PASS Atlas-SNP LRP4 4038 hgsc.bcm.edu 37 11 46914526 46914526 + Silent SNP C C T rs61741501 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 56.0 29.0 66.0 0.0 0.517857 0 C|0.947;T|0.053 0.053 strong . LRP4 160 . NM_002334 exon13 c.G1695A p.E565E TTACCCCTCCATG . PASS Atlas-SNP CATSPER3 347732 hgsc.bcm.edu 37 5 134347241 134347241 + Silent SNP T T C rs7719874 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 83.0 39.0 77.0 0.0 0.46988 0 T|0.929;C|0.071 0.071 strong . CATSPER3 38 . NM_178019 exon8 c.T1125C p.H375H CGTGCATGTGCTG . PASS Atlas-SNP ASMTL 8623 hgsc.bcm.edu 37 X 1522330 1522330 + Silent SNP C C T rs11553057 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 189.0 98.0 154.0 0.0 0.518519 0 C|0.982;T|0.018 0.018 strong . ASMTL 56 . NM_004192 exon13 c.G1698A p.A566A GCGCTGCGCCACC . PASS Atlas-SNP ABCC1 4363 hgsc.bcm.edu 37 16 16184366 16184366 + Silent SNP G G T rs28364004 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 72.0 31.0 66.0 0.0 0.430556 0 G|0.983;T|0.017 0.017 strong . ABCC1 156 . NM_004996 exon19 c.G2565T p.L855L GGAGCTGCTGGCT . PASS Atlas-SNP MAN2B1 4125 hgsc.bcm.edu 37 19 12766624 12766624 + Missense_Mutation SNP C C A rs377104016 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 37.0 21.0 32.0 0.0 0.567568 0 . . weak MAN2B1,NS,carcinoma,0,1 MAN2B1 91 1 NM_000528 exon14 c.G1714T p.A572S CCAGGGCGGGCAG . PASS Atlas-SNP ACVR2B 93 hgsc.bcm.edu 37 3 38523754 38523754 + Silent SNP C C T rs149695736 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 277.0 141.0 218.0 1.0 0.509025 0.00458716 C|0.999;T|0.001 0.001 strong ACVR2B_ENST00000352511,caecum,carcinoma,0,2 ACVR2B 88 2 NM_001106 exon9 c.C1140T p.A380A AGATGCCTTCCTG . PASS Atlas-SNP CEP85L 387119 hgsc.bcm.edu 37 6 118791804 118791804 + Missense_Mutation SNP T T C rs7743702 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 131.0 69.0 127.0 0.0 0.526718 0 T|0.975;C|0.025 0.025 strong . CEP85L 26 . NM_001178035 exon12 c.A1927G p.M643V CTTGCATAGACTA . PASS Atlas-SNP C3orf22 152065 hgsc.bcm.edu 37 3 126272160 126272160 + Missense_Mutation SNP T T C rs146981008 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 75.0 34.0 114.0 0.0 0.453333 0 T|0.999;C|0.001 0.001 strong . C3orf22 17 . NM_152533 exon2 c.A74G p.K25R AACTTCTTGGCAA . PASS Atlas-SNP GYS2 2998 hgsc.bcm.edu 37 12 21692210 21692210 + Silent SNP T T C rs142883971 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 91.0 46.0 88.0 0.0 0.505495 0 T|0.995;C|0.005 0.005 strong GYS2,NS,carcinoma,-2,1 GYS2 110 1 NM_021957 exon15 c.A1872G p.E624E TGTTAGTTCCACA . PASS Atlas-SNP VPS13A 23230 hgsc.bcm.edu 37 9 79959197 79959197 + Silent SNP G G A rs73449933 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 81.0 57.0 69.0 0.0 0.703704 0 G|0.986;A|0.014 0.014 strong . VPS13A 735 . NM_001018038 exon51 c.G7155A p.E2385E TAACGAGGTAAGT . PASS Atlas-SNP ADAM18 8749 hgsc.bcm.edu 37 8 39581417 39581417 + Missense_Mutation SNP A A G rs76378145 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 52.0 52.0 55.0 0.0 1 0 A|0.972;G|0.028 0.028 strong . ADAM18 169 . NM_014237 exon19 c.A2168G p.E723G ATGCAGAGTATAA . PASS Atlas-SNP ST6GALNAC3 256435 hgsc.bcm.edu 37 1 76878097 76878097 + Silent SNP G G A rs17098940 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 67.0 35.0 42.0 0.0 0.522388 0 G|0.955;A|0.045 0.045 strong . ST6GALNAC3 71 . NM_001160011 exon3 c.G618A p.K206K TGGGAAGGACAGG . PASS Atlas-SNP MROH6 642475 hgsc.bcm.edu 37 8 144652780 144652780 + Silent SNP T T A rs11990485 bycluster;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 27.0 14.0 14.0 0.0 0.518519 0 T|0.989;A|0.011 0.011 strong . . . . NM_001100878 exon5 c.A768T p.G256G CGTGGCTCCCACG . PASS Atlas-SNP KIF6 221458 hgsc.bcm.edu 37 6 39688551 39688551 + Missense_Mutation SNP T T C rs114269617 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 59.0 31.0 68.0 0.0 0.525424 0 T|0.984;C|0.016 0.016 strong . KIF6 233 . NM_145027 exon2 c.A103G p.S35G CCAAGCTAGGTAT . PASS Atlas-SNP OR1E2 8388 hgsc.bcm.edu 37 17 3336723 3336723 + Missense_Mutation SNP A A G rs73296096 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 223.0 98.0 214.0 0.0 0.439462 0 A|0.975;G|0.025 0.025 strong . OR1E2 25 . NM_003554 exon1 c.T413C p.L138P TGCAGGAGGAAGC . PASS Atlas-SNP C3orf33 285315 hgsc.bcm.edu 37 3 155493497 155493497 + Silent SNP T T C rs377018605 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 55.0 111.0 0.0 0.55 0 . . weak . C3orf33 18 . NM_173657 exon4 c.A186G p.S62S TCTCAATGAAGCT . PASS Atlas-SNP COL6A3 1293 hgsc.bcm.edu 37 2 238253332 238253332 + Silent SNP G G A rs10084221 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 77.0 34.0 54.0 0.0 0.441558 0 G|0.935;A|0.065 0.065 strong . COL6A3 608 . NM_004369 exon36 c.C7329T p.A2443A CACCCGGGCCCCC . PASS Atlas-SNP FAT3 120114 hgsc.bcm.edu 37 11 92568196 92568196 + Silent SNP C C T rs374591402 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 150.0 83.0 195.0 0.0 0.553333 0 . . weak . FAT3 1822 . NM_001008781 exon14 c.C10032T p.D3344D CCAAGACGTCTAC . PASS Atlas-SNP URB2 9816 hgsc.bcm.edu 37 1 229783328 229783328 + Silent SNP G G C rs115914317 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 147.0 76.0 163.0 0.0 0.517007 0 G|0.997;C|0.003 0.003 strong . URB2 152 . NM_014777 exon7 c.G3978C p.L1326L TGTCCTGGCTGCA . PASS Atlas-SNP BIVM-ERCC5 0 hgsc.bcm.edu 37 13 103506690 103506690 + Missense_Mutation SNP G G A rs4987063 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 96.0 35.0 93.0 0.0 0.364583 0 G|0.993;A|0.007 0.007 strong . . . . NM_001204425 exon12 c.G1795A p.V599I CTCTATGTTTTGC . PASS Atlas-SNP UVSSA 57654 hgsc.bcm.edu 37 4 1374769 1374769 + Silent SNP G G A rs115722661 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 202.0 97.0 213.0 0.0 0.480198 0 G|0.995;A|0.005 0.005 strong . . . . NM_020894 exon12 c.G1854A p.E618E GCAGGAGCGCCCG . PASS Atlas-SNP FBN3 84467 hgsc.bcm.edu 37 19 8137052 8137052 + Silent SNP G G A rs10420783 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 72.0 72.0 72.0 0.0 1 0 G|0.949;A|0.051 0.051 strong . FBN3 300 . NM_032447 exon62 c.C7968T p.P2656P GGGTCCGGGGCTG . PASS Atlas-SNP NMU 10874 hgsc.bcm.edu 37 4 56475330 56475330 + Missense_Mutation SNP T T C rs35892915 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 87.0 43.0 71.0 0.0 0.494253 0 T|0.978;C|0.022 0.022 strong . NMU 17 . NM_006681 exon4 c.A236G p.E79G AGCTCCTCCAGTG . PASS Atlas-SNP NCOA6 23054 hgsc.bcm.edu 37 20 33338099 33338099 + Silent SNP G G A rs61736335 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 198.0 101.0 155.0 0.0 0.510101 0 G|0.996;A|0.004 0.004 strong . NCOA6 219 . NM_014071 exon9 c.C1899T p.G633G CATCTGGCCCTGG . PASS Atlas-SNP LIPG 9388 hgsc.bcm.edu 37 18 47088741 47088741 + Silent SNP C C T rs874566 bycluster;byfrequency;by2hit2allele;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 46.0 113.0 0.0 0.494624 0 C|0.953;T|0.047 0.047 strong . LIPG 47 . NM_006033 exon1 c.C63T p.S21S GGGGAGCCCCGTA . PASS Atlas-SNP NRXN1 9378 hgsc.bcm.edu 37 2 50280469 50280469 + Silent SNP C C T rs74714098 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 204.0 104.0 198.0 0.0 0.509804 0 C|0.983;T|0.017 0.017 strong . NRXN1 1118 . NM_001135659 exon22 c.G4188A p.T1396T CAGGGTCGTGGTA . PASS Atlas-SNP NWD1 284434 hgsc.bcm.edu 37 19 16860602 16860602 + Silent SNP T T C rs61731252 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 56.0 55.0 52.0 0.0 0.982143 0 T|0.927;C|0.073 0.073 strong . NWD1 303 . NM_001007525 exon6 c.T1149C p.R383R TGCCCGTGGCCTG . PASS Atlas-SNP IGSF5 150084 hgsc.bcm.edu 37 21 41143018 41143018 + Missense_Mutation SNP T T A rs74817033 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 70.0 35.0 64.0 0.0 0.5 0 T|0.959;A|0.041 0.041 strong . IGSF5 62 . NM_001080444 exon4 c.T594A p.S198R TCAAAGTGCAGTG . PASS Atlas-SNP FOCAD 54914 hgsc.bcm.edu 37 9 20820346 20820346 + Silent SNP A A T rs147147351 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 123.0 55.0 127.0 0.0 0.447154 0 A|1.000;T|0.000 0.000 strong KIAA1797,rectum,carcinoma,+1,1 . . 1 NM_017794 exon15 c.A1584T p.R528R TCTACGAATAATA . PASS Atlas-SNP RGS13 6003 hgsc.bcm.edu 37 1 192613522 192613522 + Missense_Mutation SNP C C T rs146420296 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 214.0 96.0 235.0 0.0 0.448598 0 C|1.000;T|0.000 0.000 weak . RGS13 31 . NM_002927 exon4 c.C58T p.P20S AGGCCCCCTTCAA . PASS Atlas-SNP MBOAT7 79143 hgsc.bcm.edu 37 19 54682538 54682538 + Silent SNP C C T rs116423748 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 121.0 61.0 100.0 0.0 0.504132 0 C|0.991;T|0.009 0.009 strong . MBOAT7 37 . NM_001146082 exon7 c.G975A p.Q325Q CCACCACTGCACC . PASS Atlas-SNP NFAM1 150372 hgsc.bcm.edu 37 22 42805444 42805444 + Missense_Mutation SNP G G C rs17003048 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 80.0 42.0 72.0 0.0 0.525 0 G|0.962;C|0.038 0.038 strong . NFAM1 12 . NM_145912 exon3 c.C561G p.N187K TACCTTGTTCCAG . PASS Atlas-SNP ATOH1 474 hgsc.bcm.edu 37 4 94750227 94750227 + Silent SNP G G A rs138388359 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 115.0 52.0 133.0 0.0 0.452174 0 A|0.001;G|0.999;T|0.000 0.001 strong . ATOH1 40 . NM_005172 exon1 c.G150A p.P50P CTACCCGCCTGAG . PASS Atlas-SNP UTP3 57050 hgsc.bcm.edu 37 4 71555656 71555656 + Missense_Mutation SNP T T G rs111975570 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 37.0 71.0 0.0 0.486842 0 T|0.994;G|0.006 0.006 strong . UTP3 40 . NM_020368 exon1 c.T1262G p.L421R GGGGACTTACTCC . PASS Atlas-SNP SRCIN1 80725 hgsc.bcm.edu 37 17 36708277 36708277 + Missense_Mutation SNP C C T rs7222929 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 124.0 62.0 90.0 1.0 0.5 0.0111111 C|0.930;T|0.070 0.070 strong SRCIN1,rectum,carcinoma,0,1 SRCIN1 66 1 NM_025248 exon14 c.G2572A p.V858M AGTCCACGCTCTT . scavenged Atlas-SNP PRSS36 146547 hgsc.bcm.edu 37 16 31151622 31151622 + Missense_Mutation SNP C C T rs61729752 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 96.0 50.0 93.0 0.0 0.520833 0 C|0.982;T|0.018 0.018 strong . PRSS36 50 . NM_173502 exon14 c.G2282A p.R761K TCACACCTGTTCT . PASS Atlas-SNP CCDC168 643677 hgsc.bcm.edu 37 13 103387667 103387667 + Missense_Mutation SNP G G A rs79455872 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 286.0 132.0 271.0 0.0 0.461538 0 G|0.970;A|0.030 0.030 strong . . . . NM_001146197 exon4 c.C15380T p.S5127L TCACTTGAAAGTT . PASS Atlas-SNP CTC1 80169 hgsc.bcm.edu 37 17 8141779 8141779 + Silent SNP T T C rs73244859 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 201.0 102.0 208.0 0.0 0.507463 0 T|0.984;C|0.016 0.016 strong . CTC1 75 . NM_025099 exon3 c.A366G p.A122A CAAGTCTGCCGAT . PASS Atlas-SNP TNXB 7148 hgsc.bcm.edu 37 6 32014190 32014190 + Silent SNP G G A rs116701346 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 79.0 47.0 82.0 0.0 0.594937 0 G|0.996;A|0.004 0.004 strong . TNXB 553 . NM_019105 exon31 c.C10362T p.T3454T AGCCACGGTCAGT . PASS Atlas-SNP NETO1 81832 hgsc.bcm.edu 37 18 70417378 70417378 + Missense_Mutation SNP G G C rs17086286 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 212.0 93.0 181.0 0.0 0.438679 0 G|0.978;C|0.022 0.022 strong . NETO1 178 . NM_001201465 exon9 c.C1460G p.A487G GCATCTGCAGCAT . PASS Atlas-SNP PRR21 643905 hgsc.bcm.edu 37 2 240982009 240982009 + Missense_Mutation SNP G G A rs202192655 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 12.0 2.0 35.0 0.0 0.166667 0 . . weak PRR21,NS,malignant_melanoma,0,2 PRR21 53 2 NM_001080835 exon1 c.C391T p.P131S CCGTGGGTGAAGA . scavenged Atlas-SNP SPOCK2 9806 hgsc.bcm.edu 37 10 73826775 73826775 + Silent SNP G G A rs7079142 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 74.0 34.0 58.0 0.0 0.459459 0 G|0.990;A|0.010 0.010 strong . SPOCK2 32 . NM_001244950 exon8 c.C813T p.A271A GATGGCGGCCAGC . PASS Atlas-SNP PGLYRP2 114770 hgsc.bcm.edu 37 19 15587067 15587067 + Silent SNP T T A rs35927052 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 109.0 59.0 116.0 0.0 0.541284 0 T|0.981;A|0.019 0.019 strong . PGLYRP2 116 . NM_052890 exon2 c.A414T p.I138I CAAATTTATGACC . PASS Atlas-SNP WDR87 83889 hgsc.bcm.edu 37 19 38377404 38377404 + Missense_Mutation SNP C C T rs201328117 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 67.0 12.0 30.0 0.0 0.179104 0 . . weak . WDR87 191 . NM_031951 exon6 c.G6790A p.E2264K CCTCCTCCCTTAC . PASS Atlas-SNP ZNF285 26974 hgsc.bcm.edu 37 19 44891748 44891748 + Missense_Mutation SNP T T C rs60800862 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 133.0 60.0 134.0 0.0 0.451128 0 T|0.983;C|0.017 0.017 strong . ZNF285 86 . NM_152354 exon4 c.A659G p.E220G CGTTTTTCAACCG . PASS Atlas-SNP COX1 5742 hgsc.bcm.edu 37 MT 6253 6253 + Missense_Mutation SNP T T C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 12.0 12.0 11.0 0.0 1 0 . . none . . . . ENST00000361624 exon1 c.T350C p.M117T CTGCTATAGTGGA . PASS Atlas-SNP BDP1 55814 hgsc.bcm.edu 37 5 70845400 70845400 + Missense_Mutation SNP A A G rs59354595 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 228.0 103.0 218.0 0.0 0.451754 0 A|0.963;G|0.037 0.037 strong . BDP1 204 . NM_018429 exon34 c.A6962G p.K2321R TGGTCAAATCAGT . PASS Atlas-SNP FCGR3A 2214 hgsc.bcm.edu 37 1 161518233 161518233 + Silent SNP C C A rs139622799 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 585.0 181.0 488.0 2.0 0.309402 0.00409836 C|0.985;A|0.015 0.015 strong FCGR3A,lower_third,carcinoma,-2,1 FCGR3A 38 1 NM_000569 exon3 c.G405T p.P135P CTGCACCGGGTCA . scavenged Atlas-SNP TLR3 7098 hgsc.bcm.edu 37 4 187004544 187004544 + Silent SNP C C T rs35111588 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 109.0 45.0 116.0 0.0 0.412844 0 C|0.949;T|0.051 0.051 strong . TLR3 83 . NM_003265 exon4 c.C1704T p.N568N CCTTAACTTGGAG . PASS Atlas-SNP ORAOV1 220064 hgsc.bcm.edu 37 11 69490001 69490001 + Missense_Mutation SNP C C T rs56107468 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 218.0 101.0 227.0 0.0 0.463303 0 C|0.978;T|0.022 0.022 strong . ORAOV1 11 . NM_153451 exon1 c.G7A p.G3S GACTGCCAGCCAT . PASS Atlas-SNP USP17L2 377630 hgsc.bcm.edu 37 8 11995276 11995276 + Missense_Mutation SNP C C T rs372605534 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 351.0 148.0 322.0 2.0 0.421652 0.00621118 . . weak USP17L2,NS,carcinoma,0,1 USP17L2 47 1 NM_201402 exon1 c.G994A p.D332N GTCCGTCGTGACA . scavenged Atlas-SNP RACGAP1 29127 hgsc.bcm.edu 37 12 50384469 50384469 + Silent SNP A A G rs56699050 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 132.0 70.0 136.0 0.0 0.530303 0 A|0.918;G|0.082 0.082 strong . RACGAP1 36 . NM_013277 exon18 c.T1821C p.P607P ATACCTAGGAGTG . PASS Atlas-SNP ZNF80 7634 hgsc.bcm.edu 37 3 113955726 113955726 + Nonsense_Mutation SNP G G A rs79892855 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 89.0 40.0 88.0 0.0 0.449438 0 G|0.987;A|0.013 0.013 strong . ZNF80 75 . NM_007136 exon1 c.C196T p.R66X GATGTCGAACAAG . PASS Atlas-SNP KRT75 9119 hgsc.bcm.edu 37 12 52822464 52822464 + Missense_Mutation SNP T T C rs2232402 bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 149.0 73.0 153.0 0.0 0.489933 0 T|0.969;C|0.031 0.031 strong KRT75,NS,carcinoma,+2,3 KRT75 75 3 NM_004693 exon6 c.A1099G p.I367V CAGAGATCTCTTG . PASS Atlas-SNP VWF 7450 hgsc.bcm.edu 37 12 6182828 6182828 + Missense_Mutation SNP A A T rs1800387 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 88.0 28.0 77.0 0.0 0.318182 0 A|0.839;T|0.161 0.161 strong . VWF 338 . NM_000552 exon8 c.T954A p.N318K CATTTCATTGATG . PASS Atlas-SNP LOXHD1 125336 hgsc.bcm.edu 37 18 44102193 44102193 + Silent SNP G G A rs187103862 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 102.0 44.0 94.0 0.0 0.431373 0 G|1.000;A|0.000 0.000 strong LOXHD1_ENST00000398722,NS,carcinoma,0,2 LOXHD1 367 2 NM_144612 exon32 c.C4956T p.I1652I CTCCCCGATGAGA . PASS Atlas-SNP TEX19 400629 hgsc.bcm.edu 37 17 80320303 80320303 + Missense_Mutation SNP G G T rs147220016 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 74.0 26.0 51.0 0.0 0.351351 0 G|0.997;T|0.003 0.003 strong . TEX19 17 . NM_207459 exon2 c.G277T p.G93W GTGCAGGGGGGCT . PASS Atlas-SNP CNGB3 54714 hgsc.bcm.edu 37 8 87680282 87680282 + Missense_Mutation SNP C C T rs16916632 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 185.0 86.0 163.0 0.0 0.464865 0 C|0.951;T|0.049 0.049 strong . CNGB3 176 . NM_019098 exon5 c.G608A p.R203Q TTAATTCGCTTTA . PASS Atlas-SNP DLK1 8788 hgsc.bcm.edu 37 14 101201206 101201206 + Silent SNP C C T rs139584149 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 26.0 16.0 30.0 0.0 0.615385 0 C|0.991;T|0.009 0.009 strong . DLK1 57 . NM_003836 exon5 c.C1125T p.S375S CTTCAGCAAGGAG . PASS Atlas-SNP WBP4 11193 hgsc.bcm.edu 37 13 41639377 41639377 + Silent SNP C C T rs61740513 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 65.0 37.0 56.0 0.0 0.569231 0 C|0.967;T|0.033 0.033 strong . WBP4 40 . NM_007187 exon4 c.C216T p.A72A AGCTGCCCTGAAA . PASS Atlas-SNP SSRP1 6749 hgsc.bcm.edu 37 11 57101000 57101000 + Silent SNP G G C rs7932705 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 111.0 63.0 144.0 0.0 0.567568 0 G|0.986;C|0.014 0.014 strong . SSRP1 75 . NM_003146 exon4 c.C255G p.L85L ATCAGAGAGTTTC . PASS Atlas-SNP PLAC4 191585 hgsc.bcm.edu 37 21 42551183 42551183 + Missense_Mutation SNP G G A rs202000983 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 297.0 158.0 263.0 1.0 0.531987 0.00380228 . . weak . . . . NM_182832 exon1 c.C373T p.P125S AGTGAGGGAGTCC . PASS Atlas-SNP ERCC4 2072 hgsc.bcm.edu 37 16 14031695 14031695 + Silent SNP A A G rs2020958 bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 81.0 41.0 70.0 0.0 0.506173 0 A|0.982;G|0.018 0.018 strong . ERCC4 100 . NM_005236 exon9 c.A1884G p.E628E AAAGGAAGCTTTT . PASS Atlas-SNP TRMT2B 79979 hgsc.bcm.edu 37 X 100278558 100278558 + Silent SNP T T C rs61745518 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 180.0 175.0 165.0 0.0 0.972222 0 T|0.979;C|0.021 0.021 strong . TRMT2B 33 . NM_001167972 exon7 c.A657G p.V219V ATGAAATACAAGG . PASS Atlas-SNP CAPN5 726 hgsc.bcm.edu 37 11 76796022 76796022 + Silent SNP C C A rs34236021 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 73.0 24.0 85.0 0.0 0.328767 0 C|0.973;A|0.027 0.027 strong . CAPN5 67 . NM_004055 exon2 c.C90A p.P30P GGACCCCCTCTTC . PASS Atlas-SNP SSR2 6746 hgsc.bcm.edu 37 1 155988108 155988108 + Silent SNP A A G rs34428308 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 66.0 37.0 61.0 0.0 0.560606 0 A|0.990;G|0.010 0.010 strong . SSR2 20 . NM_003145 exon3 c.T207C p.F69F AATGCCAAAGTCT . PASS Atlas-SNP TRIM29 23650 hgsc.bcm.edu 37 11 119996490 119996490 + Silent SNP G G A rs61753082 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 118.0 78.0 151.0 0.0 0.661017 0 G|0.979;A|0.021 0.021 strong . TRIM29 78 . NM_012101 exon4 c.C1242T p.D414D CAGGTCGTCCTTG . PASS Atlas-SNP CYP4F12 66002 hgsc.bcm.edu 37 19 15791212 15791212 + Silent SNP A A C rs61731188 byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 258.0 48.0 211.0 0.0 0.186047 0 A|0.969;C|0.031 0.031 strong . CYP4F12 89 . NM_023944 exon5 c.A408C p.I136I AGGGATACTGCTG . PASS Atlas-SNP ABCC12 94160 hgsc.bcm.edu 37 16 48145742 48145742 + Missense_Mutation SNP T T A rs34135219 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 235.0 118.0 224.0 0.0 0.502128 0 T|0.963;A|0.037 0.037 strong . ABCC12 190 . NM_033226 exon14 c.A2069T p.E690V CTCTCCTCCATTA . PASS Atlas-SNP SALL4 57167 hgsc.bcm.edu 37 20 50406892 50406892 + Silent SNP C C T rs61737143 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 158.0 55.0 171.0 0.0 0.348101 0 C|0.982;T|0.018 0.018 strong . SALL4 168 . NM_020436 exon2 c.G2130A p.T710T AAGAGGCGTGGGG . PASS Atlas-SNP CXXC11 285093 hgsc.bcm.edu 37 2 242814604 242814604 + Silent SNP G G C rs78628254 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 73.0 40.0 56.0 0.0 0.547945 0 G|0.967;C|0.033 0.033 strong . . . . NM_173821 exon2 c.G897C p.P299P CAGCCCGGTTGGC . PASS Atlas-SNP ITSN2 50618 hgsc.bcm.edu 37 2 24498674 24498674 + Silent SNP C C T rs77507357 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 201.0 104.0 172.0 0.0 0.517413 0 C|0.989;T|0.011 0.011 strong . ITSN2 224 . NM_147152 exon18 c.G1989A p.Q663Q ATAAAGCTGTTCA . PASS Atlas-SNP UBE2U 148581 hgsc.bcm.edu 37 1 64686577 64686577 + Missense_Mutation SNP C C T rs139887828 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 159.0 78.0 187.0 0.0 0.490566 0 C|0.991;T|0.009 0.009 strong . UBE2U 16 . NM_152489 exon6 c.C493T p.R165C GACCCACGTAAAT . PASS Atlas-SNP LAMB4 22798 hgsc.bcm.edu 37 7 107706208 107706208 + Silent SNP C C T rs73725316 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 108.0 51.0 118.0 0.0 0.472222 0 C|0.992;T|0.008 0.008 strong . LAMB4 253 . NM_007356 exon21 c.G2835A p.T945T CATACCCGTATAA . PASS Atlas-SNP PKD1 5310 hgsc.bcm.edu 37 16 2152850 2152850 + Silent SNP A A G rs9926309 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 68.0 24.0 80.0 0.0 0.352941 0 A|0.976;G|0.024 0.024 strong . PKD1 184 . NM_000296 exon24 c.T8913C p.A2971A GTGGTCAGCACCC . PASS Atlas-SNP WDFY4 57705 hgsc.bcm.edu 37 10 50019740 50019740 + Missense_Mutation SNP T T C rs114590878 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 123.0 69.0 112.0 0.0 0.560976 0 T|0.992;C|0.008 0.008 strong . WDFY4 205 . NM_020945 exon30 c.T5201C p.M1734T AGCTGATGGACGG . PASS Atlas-SNP CEP250 11190 hgsc.bcm.edu 37 20 34089679 34089679 + Silent SNP C C T rs224379 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 35.0 21.0 31.0 0.0 0.6 0 C|0.996;T|0.004 0.004 strong . CEP250 141 . NM_007186 exon29 c.C3906T p.S1302S GAAATCCAAGTGG . PASS Atlas-SNP NLRP14 338323 hgsc.bcm.edu 37 11 7064271 7064271 + Silent SNP T T C rs116753166 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 166.0 82.0 127.0 0.0 0.493976 0 T|0.983;C|0.017 0.017 strong . NLRP14 187 . NM_176822 exon4 c.T1014C p.Y338Y GGAGTATATTTAC . PASS Atlas-SNP ALDH16A1 126133 hgsc.bcm.edu 37 19 49965956 49965956 + Missense_Mutation SNP G G A rs10406757 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 323.0 171.0 275.0 0.0 0.529412 0 A|0.034;C|0.000;G|0.965 0.034 strong . ALDH16A1 54 . NM_153329 exon8 c.G1042A p.A348T GGGGCTGCCGCAT . PASS Atlas-SNP FGF6 2251 hgsc.bcm.edu 37 12 4554549 4554549 + Missense_Mutation SNP G G A rs17183529 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 89.0 44.0 59.0 0.0 0.494382 0 G|0.996;A|0.004 0.004 strong FGF6,colon,carcinoma,-1,2 FGF6 40 2 NM_020996 exon1 c.C188T p.A63V AGCCCGGCGCGAG . PASS Atlas-SNP IL1A 3552 hgsc.bcm.edu 37 2 113539224 113539224 + Silent SNP G G A rs20540 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 242.0 112.0 243.0 1.0 0.46281 0.00411523 G|0.980;A|0.020 0.020 strong . IL1A 19 . NM_000575 exon4 c.C276T p.I92I ATCAGTGATGGAT . PASS Atlas-SNP SUPT7L 9913 hgsc.bcm.edu 37 2 27883958 27883958 + Silent SNP C C T rs6756254 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 440.0 194.0 358.0 0.0 0.440909 0 C|0.940;T|0.060 0.060 strong . SUPT7L 36 . NM_014860 exon3 c.G312A p.S104S AGGGCACGAGGGA . PASS Atlas-SNP PREX1 57580 hgsc.bcm.edu 37 20 47295906 47295906 + Silent SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 34.0 16.0 36.0 0.0 0.470588 0 . . none . PREX1 441 . NM_020820 exon13 c.G1581A p.P527P GATCACCGGGGTG . PASS Atlas-SNP CCDC88C 440193 hgsc.bcm.edu 37 14 91770308 91770308 + Silent SNP C C T rs112741231 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 58.0 31.0 54.0 0.0 0.534483 0 C|0.983;T|0.017 0.017 strong CCDC88C_ENST00000389857,NS,carcinoma,0,2 CCDC88C 192 2 NM_001080414 exon20 c.G3372A p.T1124T ACTCAGCGTGGAG . PASS Atlas-SNP MYO7A 4647 hgsc.bcm.edu 37 11 76922208 76922208 + Silent SNP G G A rs111033209 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 62.0 24.0 83.0 0.0 0.387097 0 G|0.966;A|0.034 0.034 strong . MYO7A 164 . NM_000260 exon45 c.G6063A p.K2021K GCCCAAGTATCTC . PASS Atlas-SNP MSLN 10232 hgsc.bcm.edu 37 16 816973 816973 + Missense_Mutation SNP A A G rs35317722 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 77.0 38.0 58.0 0.0 0.493506 0 A|0.970;G|0.030 0.030 strong . MSLN 109 . NM_013404 exon14 c.A1486G p.N496D AACATGAACGGGT . PASS Atlas-SNP MEGF8 1954 hgsc.bcm.edu 37 19 42873089 42873089 + Silent SNP G G A rs10425783 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 89.0 48.0 78.0 0.0 0.539326 0 G|0.969;A|0.031 0.031 strong . MEGF8 358 . NM_001271938 exon37 c.G6576A p.T2192T CGAGACGCAGAAT . PASS Atlas-SNP SACS 26278 hgsc.bcm.edu 37 13 23914286 23914286 + Silent SNP T T C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 121.0 62.0 79.0 0.0 0.512397 0 . . none . SACS 871 . NM_014363 exon10 c.A3729G p.E1243E GTAGTCTTCATCA . PASS Atlas-SNP CLEC16A 23274 hgsc.bcm.edu 37 16 11272227 11272227 + Missense_Mutation SNP C C T rs61744103 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 77.0 46.0 73.0 0.0 0.597403 0 C|0.991;T|0.009 0.009 strong . CLEC16A 101 . NM_015226 exon23 c.C2842T p.L948F CCTCACCTTCCTG . PASS Atlas-SNP CCL18 6362 hgsc.bcm.edu 37 17 34391721 34391721 + Missense_Mutation SNP G G A rs73290772 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 150.0 74.0 115.0 0.0 0.493333 0 G|0.994;A|0.006 0.006 strong . CCL18 9 . NM_002988 exon1 c.G19A p.A7T GCAGCTGCCCTCC . PASS Atlas-SNP LMAN1L 79748 hgsc.bcm.edu 37 15 75111530 75111530 + Missense_Mutation SNP G G A rs62621375 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 225.0 224.0 236.0 0.0 0.995556 0 G|0.924;A|0.076 0.076 strong . LMAN1L 43 . NM_021819 exon6 c.G635A p.G212D ATCCAGGTGAGTT . PASS Atlas-SNP THBS2 7058 hgsc.bcm.edu 37 6 169648723 169648723 + Missense_Mutation SNP G G C rs36088849 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 110.0 60.0 84.0 0.0 0.545455 0 G|0.977;C|0.023 0.023 strong . THBS2 230 . NM_003247 exon4 c.C398G p.T133S TGCCGGGTGCCGT . PASS Atlas-SNP FGD3 89846 hgsc.bcm.edu 37 9 95768396 95768396 + Silent SNP C C T rs199786328 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 85.0 56.0 68.0 0.0 0.658824 0 C|1.000;T|0.000 0.000 strong . FGD3 116 . NM_001083536 exon6 c.C771T p.A257A CCGAGCCGTAGGG . PASS Atlas-SNP JAG1 182 hgsc.bcm.edu 37 20 10624502 10624502 + Silent SNP G G A rs56225585 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 58.0 58.0 58.0 0.0 1 0 G|0.914;A|0.086 0.086 strong . JAG1 213 . NM_000214 exon20 c.C2382T p.S794S GGTGCCGCTGTTG . PASS Atlas-SNP NEFM 4741 hgsc.bcm.edu 37 8 24771318 24771318 + Silent SNP G G A rs61735462 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 81.0 34.0 68.0 0.0 0.419753 0 G|0.992;A|0.008 0.008 strong . NEFM 115 . NM_005382 exon1 c.G12A p.T4T CTACACGTTGGAC . PASS Atlas-SNP SEC31B 25956 hgsc.bcm.edu 37 10 102262227 102262227 + Silent SNP C C G rs143541316 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 40.0 18.0 42.0 0.0 0.45 0 C|0.990;G|0.010 0.010 strong . SEC31B 84 . NM_015490 exon11 c.G1194C p.L398L AGTAACCAGCTTC . PASS Atlas-SNP PIK3C3 5289 hgsc.bcm.edu 37 18 39576682 39576682 + Silent SNP G G A rs140083392 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 163.0 65.0 186.0 1.0 0.398773 0.00537634 G|0.999;A|0.001 0.001 strong PIK3C3,NS,carcinoma,+1,1 PIK3C3 138 1 NM_002647 exon9 c.G972A p.T324T TCTTACGAATCAA . scavenged Atlas-SNP RHPN2 85415 hgsc.bcm.edu 37 19 33486992 33486992 + Missense_Mutation SNP A A C rs75351369 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 290.0 143.0 311.0 0.0 0.493103 0 A|0.973;C|0.027 0.027 strong . RHPN2 107 . NM_033103 exon11 c.T1360G p.Y454D GGGCGTACGTGAG . PASS Atlas-SNP UNC45B 146862 hgsc.bcm.edu 37 17 33475426 33475426 + Silent SNP C C T rs16970656 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 86.0 41.0 77.0 0.0 0.476744 0 C|0.975;T|0.025 0.025 strong . UNC45B 133 . NM_001267052 exon2 c.C144T p.N48N TCGGAACCGGGCA . PASS Atlas-SNP FES 2242 hgsc.bcm.edu 37 15 91434277 91434277 + Silent SNP C C T rs2229074 bycluster;byfrequency;bysubmitter;by2hit2allele;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 98.0 75.0 0.0 0.98 0 C|0.935;T|0.065 0.065 strong . FES 102 . NM_002005 exon11 c.C1386T p.H462H GTACCACGGGGCC . PASS Atlas-SNP CPXM2 119587 hgsc.bcm.edu 37 10 125651150 125651150 + Missense_Mutation SNP G G A rs112027854 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 18.0 7.0 12.0 0.0 0.388889 0 G|0.500;A|0.500 0.500 weak CPXM2,rectum,carcinoma,0,1 CPXM2 120 1 NM_198148 exon1 c.C26T p.P9L AGCGCTGGGGTAG . PASS Atlas-SNP KRT6C 286887 hgsc.bcm.edu 37 12 52865924 52865924 + Silent SNP G G A rs77218649 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 398.0 189.0 340.0 0.0 0.474874 0 G|0.976;A|0.024 0.024 strong . KRT6C 55 . NM_173086 exon2 c.C681T p.S227S GACGATGCTGTCC . PASS Atlas-SNP DSP 1832 hgsc.bcm.edu 37 6 7565596 7565596 + Missense_Mutation SNP C C T rs139509870 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 50.0 22.0 58.0 0.0 0.44 0 C|1.000;T|0.000 0.000 strong . DSP 306 . NM_004415 exon7 c.C782T p.A261V AGAAAGCGTCCTT . PASS Atlas-SNP ABCA8 10351 hgsc.bcm.edu 37 17 66928470 66928470 + Silent SNP C C T rs28385895 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 102.0 48.0 80.0 0.0 0.470588 0 C|0.959;T|0.041 0.041 strong . ABCA8 213 . NM_007168 exon6 c.G756A p.K252K CAAGGCCTTCATC . PASS Atlas-SNP KDM4C 23081 hgsc.bcm.edu 37 9 6986589 6986589 + Missense_Mutation SNP A A C rs111451391 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 174.0 89.0 162.0 1.0 0.511494 0.00617284 A|0.995;C|0.004;T|0.000 0.004 strong KDM4C,NS,carcinoma,-2,1 KDM4C 186 1 NM_001146696 exon11 c.A1666C p.S556R GTGGAGAGCCATG . scavenged Atlas-SNP MICALL2 79778 hgsc.bcm.edu 37 7 1481983 1481983 + Missense_Mutation SNP G G A rs4075307 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 76.0 86.0 0.0 1 0 G|0.965;A|0.035 0.035 strong . MICALL2 63 . NM_182924 exon7 c.C1556T p.P519L CTCAGCGGGGCTG . PASS Atlas-SNP E4F1 1877 hgsc.bcm.edu 37 16 2273676 2273676 + Missense_Mutation SNP C C A rs200831818 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 20.0 12.0 8.0 0.0 0.6 0 . . weak . E4F1 53 . NM_004424 exon1 c.C62A p.A21D CCGAAGCCGGGCG . PASS Atlas-SNP OR8J1 219477 hgsc.bcm.edu 37 11 56128226 56128226 + Silent SNP T T C rs11823483 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 161.0 73.0 146.0 0.0 0.453416 0 T|0.955;C|0.045 0.045 strong . OR8J1 87 . NM_001005205 exon1 c.T504C p.Y168Y GTCTTATTGCTCT . PASS Atlas-SNP OR6C68 403284 hgsc.bcm.edu 37 12 55887054 55887054 + Missense_Mutation SNP C C G rs56760228 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 62.0 23.0 61.0 0.0 0.370968 0 C|0.953;G|0.047 0.047 strong . OR6C68 36 . NM_001005519 exon1 c.C893G p.A298G AACAAGCCTTTCA . PASS Atlas-SNP CAMK1 8536 hgsc.bcm.edu 37 3 9804658 9804658 + Silent SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 121.0 70.0 127.0 0.0 0.578512 0 . . none . CAMK1 32 . NM_003656 exon5 c.C369T p.F123F CACCTGGAAGATG . PASS Atlas-SNP KIAA1107 23285 hgsc.bcm.edu 37 1 92646431 92646431 + Missense_Mutation SNP A A G rs7523466 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 86.0 44.0 80.0 0.0 0.511628 0 A|0.994;G|0.006 0.006 strong . KIAA1107 60 . NM_015237 exon8 c.A1877G p.D626G CAGATGATTGCGA . PASS Atlas-SNP AHNAK2 113146 hgsc.bcm.edu 37 14 105415899 105415899 + Silent SNP A A G rs11850869 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 296.0 294.0 276.0 0.0 0.993243 0 A|0.965;G|0.035 0.035 strong . AHNAK2 719 . NM_138420 exon7 c.T5889C p.A1963A CAGCTTAGCCTTC . PASS Atlas-SNP GSE1 23199 hgsc.bcm.edu 37 16 85695298 85695298 + Silent SNP C C T rs61737039 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 126.0 61.0 125.0 0.0 0.484127 0 C|0.988;T|0.012 0.012 strong . . . . NM_014615 exon9 c.C2187T p.F729F TGAGTTCCTGCAG . PASS Atlas-SNP C2orf16 84226 hgsc.bcm.edu 37 2 27803810 27803810 + Silent SNP C C T rs13408423 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 68.0 42.0 62.0 0.0 0.617647 0 C|0.986;T|0.014 0.014 strong . C2orf16 357 . NM_032266 exon1 c.C4371T p.P1457P CAAGCCCACAGAT . PASS Atlas-SNP PDZD2 23037 hgsc.bcm.edu 37 5 32087828 32087828 + Missense_Mutation SNP C C T rs36097367 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 149.0 89.0 95.0 0.0 0.597315 0 C|0.961;T|0.039 0.039 strong PDZD2,NS,carcinoma,-1,1 PDZD2 306 1 NM_178140 exon19 c.C4274T p.T1425M CTGTGACGGACAT . PASS Atlas-SNP KIAA0319 9856 hgsc.bcm.edu 37 6 24596433 24596433 + Missense_Mutation SNP A A C rs73727343 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 54.0 25.0 55.0 0.0 0.462963 0 A|0.970;C|0.030 0.030 strong . KIAA0319 117 . NM_001168377 exon3 c.T469G p.S157A CATCTGAGTACTC . PASS Atlas-SNP AHNAK 79026 hgsc.bcm.edu 37 11 62291912 62291912 + Missense_Mutation SNP C C T rs115362908 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 45.0 80.0 0.0 0.592105 0 C|0.996;T|0.004 0.004 strong . AHNAK 532 . NM_001620 exon5 c.G9977A p.S3326N TCCAAACTGGGAG . PASS Atlas-SNP NOL10 79954 hgsc.bcm.edu 37 2 10797952 10797952 + Silent SNP G G A rs61737663 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 192.0 92.0 199.0 0.0 0.479167 0 G|0.988;A|0.012 0.012 strong . NOL10 22 . NM_024894 exon11 c.C822T p.P274P CTTAATGGGCAGC . PASS Atlas-SNP DCHS2 54798 hgsc.bcm.edu 37 4 155158104 155158104 + Missense_Mutation SNP G G A rs17031279 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 178.0 90.0 162.0 0.0 0.505618 0 G|0.979;A|0.021 0.021 strong . DCHS2 594 . NM_017639 exon25 c.C6335T p.T2112M ACAAGCGTGCTTC . PASS Atlas-SNP USP2 9099 hgsc.bcm.edu 37 11 119243612 119243612 + Silent SNP T T C rs4938649 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 46.0 29.0 55.0 0.0 0.630435 0 T|0.959;C|0.041 0.041 strong . USP2 71 . NM_004205 exon2 c.A579G p.E193E CAGGTATTCAGGG . PASS Atlas-SNP CNST 163882 hgsc.bcm.edu 37 1 246755204 246755204 + Missense_Mutation SNP C C T rs116182112 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 45.0 22.0 54.0 0.0 0.488889 0 C|0.998;T|0.002 0.002 strong . CNST 73 . NM_152609 exon2 c.C340T p.P114S AGAAGTCCAAGAA . PASS Atlas-SNP MRPL23 6150 hgsc.bcm.edu 37 11 1972229 1972229 + Missense_Mutation SNP G G A rs377324983 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 70.0 37.0 64.0 0.0 0.528571 0 . . weak . MRPL23 14 . NM_021134 exon2 c.G118A p.V40M GACACCGTGCAGT . PASS Atlas-SNP FCER2 2208 hgsc.bcm.edu 37 19 7754101 7754101 + Missense_Mutation SNP G G A rs34694289 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 235.0 138.0 156.0 0.0 0.587234 0 G|0.990;A|0.010 0.010 strong . FCER2 19 . NM_002002 exon11 c.C944T p.P315L GCAGAGGGGGTGG . PASS Atlas-SNP PCSK7 9159 hgsc.bcm.edu 37 11 117089801 117089801 + Missense_Mutation SNP T T C rs61729982 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 41.0 29.0 44.0 0.0 0.707317 0 T|0.996;C|0.004 0.004 strong . PCSK7 59 . NM_004716 exon11 c.A1403G p.N468S CAGGCGTTGAGGA . PASS Atlas-SNP FTSJD1 55783 hgsc.bcm.edu 37 16 71317567 71317567 + Missense_Mutation SNP A A G rs16970857 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 180.0 88.0 178.0 0.0 0.488889 0 A|0.964;G|0.036 0.036 strong . FTSJD1 70 . NM_018348 exon3 c.T2257C p.F753L TAATGAAATGCAA . PASS Atlas-SNP KIF20A 10112 hgsc.bcm.edu 37 5 137520025 137520025 + Missense_Mutation SNP G G A rs142495138 byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 208.0 107.0 217.0 0.0 0.514423 0 G|1.000;A|0.000 0.000 strong . KIF20A 53 . NM_005733 exon12 c.G1450A p.V484M GTCAATGTGAATC . PASS Atlas-SNP OR8U1 219417 hgsc.bcm.edu 37 11 56143952 56143952 + Silent SNP T T C rs78408319 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 125.0 60.0 114.0 0.0 0.48 0 T|0.973;C|0.027 0.027 strong . OR8U1 59 . NM_001005204 exon1 c.T853C p.L285L CCCATGTTGAATC . PASS Atlas-SNP OR7C1 26664 hgsc.bcm.edu 37 19 14910900 14910900 + Missense_Mutation SNP A A T rs149561973 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 61.0 31.0 68.0 0.0 0.508197 0 A|0.994;T|0.006 0.006 strong . OR7C1 58 . NM_198944 exon1 c.T49A p.F17I CTGAAAATCCCAG . PASS Atlas-SNP ZMYM6 9204 hgsc.bcm.edu 37 1 35454115 35454115 + Silent SNP A A G rs61745582 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 229.0 112.0 245.0 0.0 0.489083 0 A|0.962;G|0.038 0.038 strong . ZMYM6 110 . NM_007167 exon16 c.T2568C p.Y856Y TACTAAATATGGT . PASS Atlas-SNP CCDC107 203260 hgsc.bcm.edu 37 9 35661057 35661057 + Missense_Mutation SNP C C G rs10441685 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 116.0 52.0 119.0 0.0 0.448276 0 C|0.929;G|0.071 0.071 strong . CCDC107 12 . NM_174923 exon5 c.C725G p.S242C CTACTTCCTGGGA . PASS Atlas-SNP SQSTM1 8878 hgsc.bcm.edu 37 5 179260661 179260661 + Silent SNP G G A rs10058037 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 82.0 36.0 82.0 0.0 0.439024 0 G|0.960;A|0.040 0.040 strong SQSTM1,NS,carcinoma,+1,1 SQSTM1 30 1 NM_003900 exon7 c.G1044A p.P348P GGACCCGTCTACA . PASS Atlas-SNP TLN1 7094 hgsc.bcm.edu 37 9 35714269 35714269 + Silent SNP G G A rs35844106 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 87.0 45.0 98.0 0.0 0.517241 0 G|0.995;A|0.005 0.005 strong . TLN1 185 . NM_006289 exon24 c.C3087T p.T1029T CAGCGCGGTGCCC . PASS Atlas-SNP ARID4B 51742 hgsc.bcm.edu 37 1 235357460 235357460 + Silent SNP A A G rs62000435 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 191.0 100.0 181.0 0.0 0.52356 0 A|0.992;G|0.008 0.008 strong . ARID4B 142 . NM_016374 exon19 c.T1993C p.L665L TGGACAAGCGCCG . PASS Atlas-SNP ATP6V0A4 50617 hgsc.bcm.edu 37 7 138417642 138417642 + Missense_Mutation SNP C C T rs73730479 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 90.0 38.0 108.0 0.0 0.422222 0 C|0.963;T|0.037 0.037 strong . ATP6V0A4 93 . NM_130841 exon16 c.G1888A p.A630T GGGGTGCGTTGGA . PASS Atlas-SNP MDN1 23195 hgsc.bcm.edu 37 6 90424458 90424458 + Silent SNP C C T rs114422841 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 64.0 35.0 71.0 0.0 0.546875 0 C|0.996;T|0.004 0.004 strong . MDN1 478 . NM_014611 exon46 c.G6873A p.S2291S ATCCATCGAGAGG . PASS Atlas-SNP FCRL5 83416 hgsc.bcm.edu 37 1 157514685 157514685 + Silent SNP G G A rs11803066 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 190.0 103.0 155.0 0.0 0.542105 0 G|0.982;A|0.018 0.018 strong . FCRL5 177 . NM_031281 exon4 c.C495T p.R165R AGTACAGCGATAT . PASS Atlas-SNP AFF2 2334 hgsc.bcm.edu 37 X 148035200 148035200 + Silent SNP G G A rs12011040 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 415.0 140.0 352.0 0.0 0.337349 0 0|0.003;A|0.180 0.180 strong . AFF2 679 . NM_002025 exon10 c.G1488A p.S496S TGAGTCGGATTCA . PASS Atlas-SNP NCOR2 9612 hgsc.bcm.edu 37 12 124821705 124821705 + Silent SNP G G A rs3741512 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 269.0 131.0 252.0 0.0 0.486989 0 G|0.966;A|0.034 0.034 strong . NCOR2 475 . NM_006312 exon40 c.C5709T p.P1903P GCGAACGGGTGAG . PASS Atlas-SNP SLC22A25 387601 hgsc.bcm.edu 37 11 62931547 62931547 + Splice_Site SNP T T C rs114205803 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 230.0 91.0 230.0 0.0 0.395652 0 T|0.996;C|0.004 0.004 strong . SLC22A25 87 . NM_199352 exon10 c.1395-2A>G . TTCCCCTTGGAGT . PASS Atlas-SNP GRM3 2913 hgsc.bcm.edu 37 7 86479694 86479694 + Silent SNP G G A rs76035289 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 156.0 82.0 162.0 0.0 0.525641 0 G|0.985;A|0.015 0.015 strong . GRM3 237 . NM_000840 exon5 c.G2400A p.T800T GCAGACGACAACC . PASS Atlas-SNP CD1E 913 hgsc.bcm.edu 37 1 158325765 158325765 + Silent SNP C C T rs61734677 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 313.0 162.0 296.0 0.0 0.517572 0 C|0.978;T|0.022 0.022 strong . CD1E 129 . NM_001042584 exon4 c.C774T p.D258D AGGGGACGTCCTG . PASS Atlas-SNP BCL2A1 597 hgsc.bcm.edu 37 15 80263111 80263111 + Missense_Mutation SNP C C A rs34080999 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 224.0 105.0 244.0 0.0 0.46875 0 C|0.968;A|0.032 0.032 strong . BCL2A1 28 . NM_001114735 exon1 c.G351T p.E117D TGAAATCTCCTTA . PASS Atlas-SNP STARD13 90627 hgsc.bcm.edu 37 13 33704346 33704346 + Silent SNP C C T rs114088950 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 43.0 18.0 33.0 0.0 0.418605 0 C|0.986;T|0.014 0.014 strong . STARD13 100 . NM_178006 exon5 c.G468A p.V156V GTCGTCCACACGA . PASS Atlas-SNP TRMT5 57570 hgsc.bcm.edu 37 14 61445981 61445981 + Missense_Mutation SNP C C T rs114005374 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 129.0 61.0 119.0 0.0 0.472868 0 C|0.999;T|0.001 0.001 strong TRMT5,caecum,carcinoma,0,1 TRMT5 44 1 NM_020810 exon2 c.G635A p.R212Q TGATCTCGAAGGT . PASS Atlas-SNP CENPJ 55835 hgsc.bcm.edu 37 13 25480616 25480616 + Silent SNP T T A rs17081368 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 118.0 60.0 88.0 0.0 0.508475 0 T|0.950;A|0.050 0.050 strong . CENPJ 116 . NM_018451 exon7 c.A1560T p.T520T ACCTTGTGTCTTA . PASS Atlas-SNP S100A3 6274 hgsc.bcm.edu 37 1 153520954 153520954 + Missense_Mutation SNP C C T rs36022742 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 48.0 22.0 45.0 0.0 0.458333 0 C|0.861;T|0.139 0.139 strong . S100A3 7 . NM_002960 exon2 c.G8A p.R3K AGAGGCCTGGCCA . PASS Atlas-SNP C2CD5 9847 hgsc.bcm.edu 37 12 22680809 22680809 + Silent SNP T T C rs12322490 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 135.0 93.0 119.0 0.0 0.688889 0 T|0.950;C|0.050 0.050 strong . . . . NM_014802 exon4 c.A195G p.L65L ATCTTGTAAGTCT . PASS Atlas-SNP CEP85 64793 hgsc.bcm.edu 37 1 26581981 26581981 + Silent SNP G G A rs34867486 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 114.0 58.0 110.0 0.0 0.508772 0 G|0.979;A|0.021 0.021 strong CEP85,NS,carcinoma,+2,1 CEP85 61 1 NM_022778 exon4 c.G528A p.A176A AGAGGCGAGGAAG . PASS Atlas-SNP HECTD2 143279 hgsc.bcm.edu 37 10 93260363 93260363 + Silent SNP C C T rs34553731 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 61.0 29.0 50.0 0.0 0.47541 0 C|0.985;T|0.015 0.015 strong . HECTD2 60 . NM_182765 exon19 c.C2055T p.D685D AACGGACTTAACT . PASS Atlas-SNP KIAA1377 57562 hgsc.bcm.edu 37 11 101829070 101829070 + Silent SNP C C T rs61742070 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 67.0 32.0 68.0 0.0 0.477612 0 C|0.989;T|0.011 0.011 strong . KIAA1377 111 . NM_020802 exon5 c.C678T p.L226L ACTCCTCGAAGAT . PASS Atlas-SNP CAPN12 147968 hgsc.bcm.edu 37 19 39234674 39234674 + Silent SNP G G A rs111831826 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 79.0 37.0 69.0 0.0 0.468354 0 G|0.998;A|0.002 0.002 strong . CAPN12 43 . NM_144691 exon1 c.C132T p.I44I GAACAGGATCCCC . PASS Atlas-SNP PREX2 80243 hgsc.bcm.edu 37 8 69104701 69104701 + Silent SNP G G A rs116570374 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 101.0 51.0 65.0 0.0 0.504951 0 G|0.993;A|0.007 0.007 strong . PREX2 614 . NM_024870 exon37 c.G4545A p.S1515S TTCCTCGGAGCTG . PASS Atlas-SNP HTR4 3360 hgsc.bcm.edu 37 5 147845463 147845463 + Missense_Mutation SNP G G A rs73266449 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 255.0 118.0 257.0 0.0 0.462745 0 G|0.967;A|0.033 0.033 strong . HTR4 161 . NM_199453 exon6 c.C1102T p.L368F GCAGGAGGAAGCT . PASS Atlas-SNP FCRL1 115350 hgsc.bcm.edu 37 1 157771979 157771979 + Silent SNP C C T rs12035302 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 136.0 65.0 134.0 0.0 0.477941 0 C|0.978;T|0.022 0.022 strong . FCRL1 164 . NM_001159397 exon5 c.G612A p.P204P AGACACCGGGACT . PASS Atlas-SNP PDHX 8050 hgsc.bcm.edu 37 11 34969150 34969150 + Silent SNP C C T rs34582941 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 70.0 33.0 36.0 0.0 0.471429 0 C|0.951;T|0.049 0.049 strong . PDHX 40 . NM_003477 exon3 c.C339T p.I113I CAAAATCGTGGTA . PASS Atlas-SNP CARD11 84433 hgsc.bcm.edu 37 7 2969689 2969689 + Missense_Mutation SNP T T G rs41515445 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 123.0 62.0 111.0 0.0 0.504065 0 T|0.972;G|0.028 0.028 strong . CARD11 339 . NM_032415 exon12 c.A1590C p.E530D CGTGCCTTCTTCC . PASS Atlas-SNP HK2 3099 hgsc.bcm.edu 37 2 75107671 75107671 + Silent SNP C C T rs28363033 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 163.0 62.0 129.0 0.0 0.380368 0 C|0.988;T|0.012 0.012 strong . HK2 85 . NM_000189 exon10 c.C1545T p.Y515Y CACCTACGTGTGT . PASS Atlas-SNP ZNF592 9640 hgsc.bcm.edu 37 15 85326315 85326315 + Missense_Mutation SNP A A C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 62.0 29.0 80.0 0.0 0.467742 0 . . none . ZNF592 95 . NM_014630 exon4 c.A409C p.T137P TTACCCACCTTCA . PASS Atlas-SNP ABHD11 83451 hgsc.bcm.edu 37 7 73151643 73151643 + Missense_Mutation SNP C C T rs61745525 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 63.0 63.0 59.0 0.0 1 0 C|0.963;T|0.037 0.037 strong . ABHD11 11 . NM_148912 exon4 c.G541A p.V181M CTGCCACATAGGT . PASS Atlas-SNP ZNF420 147923 hgsc.bcm.edu 37 19 37618157 37618157 + Silent SNP T T C rs78427535 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 148.0 72.0 141.0 0.0 0.486486 0 T|0.984;C|0.016 0.016 strong . ZNF420 71 . NM_144689 exon5 c.T264C p.D88D CAGGGATTATTTG . PASS Atlas-SNP BDNF 627 hgsc.bcm.edu 37 11 27679976 27679976 + Missense_Mutation SNP C C T rs146354977 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 131.0 61.0 139.0 0.0 0.465649 0 C|0.999;T|0.001 0.001 strong . BDNF 63 . NM_001143810 exon3 c.G382A p.V128M CATTCACGCTCTC . PASS Atlas-SNP SLC9A3 6550 hgsc.bcm.edu 37 5 491906 491906 + Silent SNP G G A rs6870920 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 83.0 43.0 81.0 0.0 0.518072 0 G|0.958;A|0.042 0.042 strong SLC9A3,head_neck,malignant_melanoma,-1,1 SLC9A3 89 1 NM_004174 exon2 c.C492T p.G164G GAAGACGCCGTAG . PASS Atlas-SNP PITPNM1 9600 hgsc.bcm.edu 37 11 67267636 67267636 + Silent SNP G G A rs59249357 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 29.0 13.0 15.0 0.0 0.448276 0 A|0.006;C|0.005;G|0.988 0.006 strong . PITPNM1 84 . NM_001130848 exon6 c.C897T p.A299A GGGGGAGGCATCT . PASS Atlas-SNP HS3ST2 9956 hgsc.bcm.edu 37 16 22826321 22826321 + Silent SNP G G A rs111703383 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 94.0 94.0 106.0 0.0 1 0 G|0.949;A|0.051 0.051 strong . HS3ST2 59 . NM_006043 exon1 c.G390A p.V130V GGCCGTGCTGGAG . PASS Atlas-SNP IGFALS 3483 hgsc.bcm.edu 37 16 1840777 1840777 + Missense_Mutation SNP G G A rs9282731 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 109.0 61.0 103.0 0.0 0.559633 0 G|0.909;A|0.091 0.091 strong . IGFALS 29 . NM_001146006 exon2 c.C1756T p.R586W AGTCCCGCAGCGC . PASS Atlas-SNP SCAMP5 192683 hgsc.bcm.edu 37 15 75305058 75305058 + Silent SNP G G T rs60910940 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 167.0 167.0 164.0 1.0 1 0.00609756 G|0.966;T|0.034 0.034 strong . SCAMP5 34 . NM_001178111 exon4 c.G48T p.P16P CATCCCGCTGAAG . PASS Atlas-SNP SFXN3 81855 hgsc.bcm.edu 37 10 102795819 102795819 + Missense_Mutation SNP A A T rs35361377 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 116.0 67.0 113.0 0.0 0.577586 0 A|0.986;T|0.014 0.014 strong . SFXN3 19 . NM_030971 exon5 c.A404T p.N135I TTGTTAACTACTC . PASS Atlas-SNP ANKRD24 170961 hgsc.bcm.edu 37 19 4216931 4216931 + Missense_Mutation SNP A A G rs61741405 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 28.0 16.0 46.0 0.0 0.571429 0 A|0.987;G|0.013 0.013 strong . ANKRD24 180 . NM_133475 exon18 c.A1774G p.T592A GAGGCCACAGGAG . PASS Atlas-SNP COPA 1314 hgsc.bcm.edu 37 1 160302298 160302298 + Missense_Mutation SNP T T C rs57425682 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 50.0 29.0 52.0 0.0 0.58 0 T|0.956;C|0.044 0.044 strong . COPA 181 . NM_001098398 exon6 c.A436G p.T146A CTTCTGTGGGGTG . PASS Atlas-SNP ELMOD1 55531 hgsc.bcm.edu 37 11 107501428 107501428 + Missense_Mutation SNP A A T rs201717101 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 152.0 58.0 122.0 0.0 0.381579 0 . . weak . ELMOD1 40 . NM_018712 exon4 c.A166T p.T56S ACAGAAACATCAC . PASS Atlas-SNP DCC 1630 hgsc.bcm.edu 37 18 50705370 50705370 + Missense_Mutation SNP A A T rs116498325 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 164.0 78.0 107.0 0.0 0.47561 0 A|0.996;T|0.004 0.004 strong . DCC 360 . NM_005215 exon9 c.A1457T p.Q486L CCCTTCAGCTCAC . PASS Atlas-SNP ETAA1 54465 hgsc.bcm.edu 37 2 67624739 67624739 + Silent SNP C C A rs182131786 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 33.0 23.0 12.0 0.0 0.69697 0 C|0.999;A|0.001 0.001 strong ETAA1,colon,carcinoma,+2,1 ETAA1 88 1 NM_019002 exon1 c.C159A p.P53P GCCTCCCGGGCCA . PASS Atlas-SNP FAT2 2196 hgsc.bcm.edu 37 5 150946444 150946444 + Silent SNP G G A rs142348925 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 220.0 98.0 132.0 0.0 0.445455 0 G|0.999;A|0.001 0.001 strong . FAT2 465 . NM_001447 exon1 c.C2049T p.I683I GTGGAGGATAGTC . PASS Atlas-SNP COX7B 1349 hgsc.bcm.edu 37 X 77158147 77158147 + Missense_Mutation SNP C C A rs61752458 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 87.0 42.0 78.0 0.0 0.482759 0 C|0.991;A|0.009 0.009 strong . COX7B 8 . NM_001866 exon2 c.C48A p.S16R TCGAAGCATTCAG . PASS Atlas-SNP ITPRIPL2 162073 hgsc.bcm.edu 37 16 19126492 19126492 + Missense_Mutation SNP T T A rs8051801 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 85.0 36.0 86.0 0.0 0.423529 0 T|0.989;A|0.011 0.011 strong . ITPRIPL2 40 . NM_001034841 exon1 c.T709A p.C237S GCCTTCTGCGTGG . PASS Atlas-SNP NOL8 55035 hgsc.bcm.edu 37 9 95077498 95077498 + Missense_Mutation SNP C C T rs58545014 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 161.0 118.0 178.0 0.0 0.732919 0 C|0.972;T|0.028 0.028 strong . NOL8 118 . NM_017948 exon7 c.G1409A p.G470E TCACCTCCTTCAG . PASS Atlas-SNP RPGR 6103 hgsc.bcm.edu 37 X 38145715 38145715 + Missense_Mutation SNP T T C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 115.0 8.0 113.0 0.0 0.0695652 0 . . none . RPGR 175 . NM_001034853 exon15 c.A2537G p.E846G TCCCCTTCCTCCT . PASS Atlas-SNP BAIAP3 8938 hgsc.bcm.edu 37 16 1391362 1391362 + Silent SNP A A G rs75271587 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 53.0 24.0 74.0 0.0 0.45283 0 A|0.988;G|0.012 0.012 strong . BAIAP3 88 . NM_003933 exon8 c.A708G p.A236A CCGTGCACAGAAG . PASS Atlas-SNP KDR 3791 hgsc.bcm.edu 37 4 55956183 55956183 + Silent SNP G G T rs145298133 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 80.0 28.0 68.0 0.0 0.35 0 G|0.999;T|0.001 0.001 strong . KDR 307 . NM_002253 exon23 c.C3132A p.I1044I GTCACAGATTTTA . PASS Atlas-SNP GH2 2689 hgsc.bcm.edu 37 17 61957610 61957610 + Missense_Mutation SNP G G T rs58696130 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 132.0 71.0 82.0 0.0 0.537879 0 G|0.983;T|0.017 0.017 strong . GH2 73 . NM_022558 exon5 c.C721A p.P241T CTGGTGGGCACTG . PASS Atlas-SNP GPC3 2719 hgsc.bcm.edu 37 X 132670269 132670269 + Silent SNP T T C rs61754631 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 193.0 119.0 172.0 0.0 0.61658 0 T|0.927;C|0.073 0.073 strong . GPC3 88 . NM_001164617 exon9 c.A1695G p.A565A CGGAGTTGCCTGC . PASS Atlas-SNP DPY19L2 283417 hgsc.bcm.edu 37 12 64057543 64057543 + Missense_Mutation SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 344.0 21.0 317.0 0.0 0.0610465 0 . . none DPY19L2,caecum,carcinoma,0,1 DPY19L2 97 1 NM_173812 exon3 c.G445A p.E149K CCATTTCAGTGCG . scavenged Atlas-SNP MTUS1 57509 hgsc.bcm.edu 37 8 17612064 17612064 + Missense_Mutation SNP A A C rs75253845 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 134.0 68.0 147.0 0.0 0.507463 0 A|0.978;C|0.022 0.022 strong . MTUS1 144 . NM_001001924 exon2 c.T1253G p.M418R ATGACCATATCAT . PASS Atlas-SNP OBSCN 84033 hgsc.bcm.edu 37 1 228461655 228461655 + Silent SNP C C T rs138055037 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 184.0 103.0 185.0 0.0 0.559783 0 C|0.996;T|0.004 0.004 strong . OBSCN 2142 . NM_001271223 exon22 c.C6447T p.H2149H CACCCACACCCTG . PASS Atlas-SNP SBF1 6305 hgsc.bcm.edu 37 22 50899103 50899103 + Silent SNP G G A rs77064034 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 96.0 43.0 96.0 0.0 0.447917 0 G|0.990;A|0.010 0.010 strong . SBF1 211 . NM_002972 exon24 c.C3006T p.D1002D GGCGCTGTCAGAC . PASS Atlas-SNP CETP 1071 hgsc.bcm.edu 37 16 57003846 57003846 + Missense_Mutation SNP C C T rs34716057 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 139.0 72.0 136.0 0.0 0.517986 0 C|0.992;T|0.008 0.008 strong . CETP 50 . NM_000078 exon5 c.C460T p.R154W AGAGTGCGGACCG . PASS Atlas-SNP NLRP6 171389 hgsc.bcm.edu 37 11 285256 285256 + Silent SNP G G A rs144727560 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 78.0 36.0 70.0 0.0 0.461538 0 G|0.995;A|0.005 0.005 strong . NLRP6 4 . NM_138329 exon8 c.G2631A p.A877A CCCAGCGCTGGAC . PASS Atlas-SNP PDLIM5 10611 hgsc.bcm.edu 37 4 95539204 95539204 + Missense_Mutation SNP C C T rs141653509 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 115.0 64.0 83.0 0.0 0.556522 0 C|0.999;T|0.001 0.001 strong PDLIM5,NS,carcinoma,-1,1 PDLIM5 76 1 NM_001256426 exon12 c.C1057T p.R353W TCCACACGGAGCA . PASS Atlas-SNP CPA3 1359 hgsc.bcm.edu 37 3 148601596 148601596 + Silent SNP G G A rs140411214 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 143.0 67.0 136.0 0.0 0.468531 0 G|0.995;A|0.005 0.005 strong . CPA3 75 . NM_001870 exon9 c.G975A p.E325E CCATGAGGACTTG . PASS Atlas-SNP MYO19 80179 hgsc.bcm.edu 37 17 34858985 34858985 + Missense_Mutation SNP A A G rs61743158 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 154.0 65.0 149.0 0.0 0.422078 0 A|0.995;G|0.005 0.005 strong . MYO19 130 . NM_001163735 exon22 c.T2032C p.C678R ATGTGCAAGGATG . PASS Atlas-SNP TPM4 7171 hgsc.bcm.edu 37 19 16186865 16186865 + Silent SNP G G A rs114042568 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 137.0 67.0 108.0 0.0 0.489051 0 G|0.989;A|0.011 0.011 strong . TPM4 28 . NM_001145160 exon2 c.G123A p.E41E GGAGGAGGAGCTG . PASS Atlas-SNP FCGRT 2217 hgsc.bcm.edu 37 19 50017191 50017191 + Silent SNP G G T rs11551281 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 162.0 88.0 170.0 0.0 0.54321 0 G|0.984;T|0.016 0.016 strong . FCGRT 23 . NM_001136019 exon3 c.G126T p.P42P TGCCCCGGGGACT . PASS Atlas-SNP MYO5B 4645 hgsc.bcm.edu 37 18 47462657 47462657 + Silent SNP G G A rs1627232 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 143.0 63.0 145.0 0.0 0.440559 0 G|0.961;A|0.039 0.039 strong . MYO5B 178 . NM_001080467 exon16 c.C1968T p.R656R GATGCAGCGGACA . PASS Atlas-SNP HLA-DMA 3108 hgsc.bcm.edu 37 6 32917126 32917126 + Missense_Mutation SNP C C T rs9469319 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 50.0 87.0 0.0 0.5 0 C|0.997;T|0.003 0.003 strong . HLA-DMA 20 . NM_006120 exon4 c.G703A p.V235M AGGCCACGCCACA . PASS Atlas-SNP HTR3A 3359 hgsc.bcm.edu 37 11 113857661 113857661 + Missense_Mutation SNP G G A rs35815285 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 119.0 69.0 119.0 1.0 0.579832 0.00840336 G|0.965;A|0.035 0.035 strong HTR3A,NS,carcinoma,+1,1 HTR3A 93 1 NM_213621 exon7 c.G1145A p.R382H GGCTGCGTCACCT . scavenged Atlas-SNP UNC79 57578 hgsc.bcm.edu 37 14 94173098 94173098 + Missense_Mutation SNP G G A rs76642035 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 96.0 48.0 104.0 0.0 0.5 0 G|0.996;A|0.004 0.004 strong . UNC79 366 . NM_020818 exon50 c.G7225A p.V2409M AACCACGTGAACC . PASS Atlas-SNP NWD1 284434 hgsc.bcm.edu 37 19 16860558 16860558 + Missense_Mutation SNP G G A rs61733271 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 63.0 63.0 61.0 0.0 1 0 G|0.927;A|0.073 0.073 strong . NWD1 303 . NM_001007525 exon6 c.G1105A p.V369I GTGACCGTCCTGC . PASS Atlas-SNP IGDCC4 57722 hgsc.bcm.edu 37 15 65681648 65681648 + Missense_Mutation SNP A A G rs144676391 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 50.0 18.0 79.0 0.0 0.36 0 A|0.995;G|0.005 0.005 strong . IGDCC4 95 . NM_020962 exon14 c.T2510C p.V837A TCCACCACAGAGC . PASS Atlas-SNP DNASE1 1773 hgsc.bcm.edu 37 16 3707262 3707262 + Silent SNP G G A rs8176920 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 115.0 115.0 120.0 0.0 1 0 G|0.970;A|0.030 0.030 strong . DNASE1 16 . NM_005223 exon7 c.G624A p.L208L CCGCCTGTGGACA . PASS Atlas-SNP TFDP3 51270 hgsc.bcm.edu 37 X 132352230 132352230 + Missense_Mutation SNP C C G rs28455963 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 170.0 116.0 186.0 0.0 0.682353 0 C|0.877;G|0.123 0.123 strong . TFDP3 92 . NM_016521 exon1 c.G58C p.E20Q GGTTCTCGTCCAT . PASS Atlas-SNP C6orf52 347744 hgsc.bcm.edu 37 6 10687325 10687325 + Silent SNP C C T rs144052767 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 116.0 53.0 121.0 1.0 0.456897 0.00826446 C|0.990;T|0.010 0.010 strong C6orf52,caecum,carcinoma,0,1 C6orf52 9 1 NM_001145020 exon3 c.G144A p.A48A CTGTCGCGCATAC . scavenged Atlas-SNP HDAC7 51564 hgsc.bcm.edu 37 12 48185449 48185449 + Missense_Mutation SNP G G A rs73291234 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 172.0 79.0 178.0 0.0 0.459302 0 G|0.989;A|0.011 0.011 strong . HDAC7 71 . NM_015401 exon15 c.C1853T p.S618L TGGACCGACTGCA . PASS Atlas-SNP SKIV2L 6499 hgsc.bcm.edu 37 6 31928039 31928039 + Silent SNP C C G rs11541400 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 116.0 53.0 113.0 0.0 0.456897 0 C|0.993;G|0.007 0.007 strong . SKIV2L 97 . NM_006929 exon4 c.C279G p.V93V GGCTGTCCTGGGA . PASS Atlas-SNP RPL37 6167 hgsc.bcm.edu 37 5 40834595 40834595 + Silent SNP G G A rs6495 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 44.0 62.0 0.0 0.44 0 G|0.996;A|0.004 0.004 strong . RPL37 7 . NM_000997 exon2 c.C117T p.Y39Y GGCAGGGTAGCCA . PASS Atlas-SNP NKD2 85409 hgsc.bcm.edu 37 5 1036482 1036482 + Missense_Mutation SNP C C A rs35679233 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 84.0 44.0 72.0 0.0 0.52381 0 C|0.994;A|0.006 0.006 strong . NKD2 39 . NM_001271082 exon9 c.C770A p.T257K ACTACACGTCCAG . PASS Atlas-SNP TRPM2 7226 hgsc.bcm.edu 37 21 45799018 45799018 + Missense_Mutation SNP G G A rs45485992 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 78.0 38.0 75.0 0.0 0.487179 0 G|0.994;A|0.006 0.006 strong . TRPM2 196 . NM_003307 exon8 c.G1153A p.V385M CTGAGCGTGTTCT . PASS Atlas-SNP MYO15A 51168 hgsc.bcm.edu 37 17 18022385 18022385 + Missense_Mutation SNP C C A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 84.0 48.0 53.0 0.0 0.571429 0 . . none . MYO15A 268 . NM_016239 exon2 c.C271A p.R91S CAGATGCGCATGG . PASS Atlas-SNP STAG1 10274 hgsc.bcm.edu 37 3 136062724 136062724 + Missense_Mutation SNP C C G rs34149860 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 160.0 87.0 136.0 0.0 0.54375 0 C|0.914;G|0.086 0.086 strong . STAG1 135 . NM_005862 exon30 c.G3396C p.Q1132H TTGAATCTGGTCT . PASS Atlas-SNP RXFP3 51289 hgsc.bcm.edu 37 5 33937215 33937215 + Silent SNP C C T rs78710898 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 139.0 76.0 111.0 0.0 0.546763 0 C|0.989;T|0.011 0.011 strong . RXFP3 114 . NM_016568 exon1 c.C370T p.L124L ACCAACCTGGCGC . PASS Atlas-SNP MED24 9862 hgsc.bcm.edu 37 17 38189659 38189659 + Missense_Mutation SNP C C T rs34585432 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 101.0 47.0 93.0 0.0 0.465347 0 C|0.993;T|0.007 0.007 strong . MED24 89 . NM_014815 exon7 c.G610A p.A204T GATTGGCCAGGAT . PASS Atlas-SNP PLXNA4 91584 hgsc.bcm.edu 37 7 131864657 131864657 + Silent SNP G G A rs374317794 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 56.0 26.0 49.0 0.0 0.464286 0 . . weak . PLXNA4 873 . NM_020911 exon20 c.C3663T p.Y1221Y CGGGGAGTACTCC . PASS Atlas-SNP KRTAP9-9 81870 hgsc.bcm.edu 37 17 39411711 39411711 + Missense_Mutation SNP C C G rs150962386 by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 85.0 43.0 39.0 0.0 0.505882 0 C|0.962;G|0.038 0.038 strong . KRTAP9-9 24 . NM_030975 exon1 c.C74G p.T25S CTGTGACCACCTG . PASS Atlas-SNP RHNO1 83695 hgsc.bcm.edu 37 12 2994562 2994562 + Silent SNP T T C rs371402573 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 162.0 94.0 178.0 0.0 0.580247 0 . . weak . . . . NM_001257098 exon2 c.T30C p.P10P CCAGCCTTCCCAG . PASS Atlas-SNP FAT3 120114 hgsc.bcm.edu 37 11 92534968 92534968 + Missense_Mutation SNP G G A rs370539148 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 90.0 49.0 98.0 0.0 0.544444 0 . . weak . FAT3 1822 . NM_001008781 exon9 c.G8789A p.R2930Q TGTACCGAGGGAA . PASS Atlas-SNP TACC1 6867 hgsc.bcm.edu 37 8 38677242 38677242 + Silent SNP G G A rs16887780 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 230.0 117.0 225.0 1.0 0.508696 0.00444444 G|0.991;A|0.009 0.009 strong . TACC1 98 . NM_006283 exon3 c.G480A p.T160T TTCCACGGATATC . PASS Atlas-SNP RERE 473 hgsc.bcm.edu 37 1 8420966 8420966 + Silent SNP G G A rs77608355 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 11.0 9.0 10.0 0.0 0.818182 0 G|0.972;A|0.028 0.028 strong . RERE 129 . NM_012102 exon19 c.C2601T p.G867G TGGGGGGCCTGGG . PASS Atlas-SNP THRAP3 9967 hgsc.bcm.edu 37 1 36752687 36752687 + Missense_Mutation SNP A A G rs58840555 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 121.0 49.0 115.0 0.0 0.404959 0 A|0.946;G|0.054 0.054 strong . THRAP3 93 . NM_005119 exon4 c.A856G p.T286A GGCTCAACTCTGC . PASS Atlas-SNP ACOX1 51 hgsc.bcm.edu 37 17 73944496 73944496 + Missense_Mutation SNP G G A rs35629489 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 39.0 12.0 58.0 0.0 0.307692 0 G|0.989;A|0.011 0.011 strong ACOX1_ENST00000301608,caecum,carcinoma,0,2 ACOX1 85 2 NM_007292 exon13 c.C1771T p.R591C TTACACGCTGGTT . PASS Atlas-SNP BIN1 274 hgsc.bcm.edu 37 2 127827598 127827598 + Silent SNP C C T rs61748158 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 64.0 32.0 67.0 0.0 0.5 0 C|0.998;T|0.002 0.002 strong . BIN1 85 . NM_139346 exon5 c.G384A p.T128T CAGGTACGTGTCC . PASS Atlas-SNP TGIF1 7050 hgsc.bcm.edu 37 18 3452262 3452262 + Silent SNP C C T rs8098291 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 22.0 14.0 16.0 0.0 0.636364 0 C|0.953;T|0.047 0.047 strong . TGIF1 41 . NM_170695 exon1 c.C285T p.S95S CCTCTCCCCGGAG . PASS Atlas-SNP PIEZO1 9780 hgsc.bcm.edu 37 16 88800122 88800122 + Silent SNP C C G rs9928479 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 64.0 21.0 54.0 0.0 0.328125 0 C|0.955;G|0.045 0.045 strong . PIEZO1 79 . NM_001142864 exon18 c.G2361C p.R787R CAGCAGCCGCTCA . PASS Atlas-SNP LGI3 203190 hgsc.bcm.edu 37 8 22009053 22009053 + Silent SNP G G A rs35142808 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 113.0 55.0 96.0 0.0 0.486726 0 G|0.968;A|0.032 0.032 strong . LGI3 44 . NM_139278 exon7 c.C778T p.L260L ACTTCAGGATGGT . PASS Atlas-SNP DCHS2 54798 hgsc.bcm.edu 37 4 155407595 155407595 + Missense_Mutation SNP C C A rs140554741 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 97.0 36.0 113.0 0.0 0.371134 0 C|0.989;A|0.011 0.011 strong DCHS2_ENST00000443500,NS,carcinoma,0,1 DCHS2 594 1 NM_001142553 exon2 c.G2130T p.X710Y GGAAATCTAGGCA . PASS Atlas-SNP TECTA 7007 hgsc.bcm.edu 37 11 121016424 121016424 + Missense_Mutation SNP A A G rs200852252 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 150.0 71.0 189.0 0.0 0.473333 0 A|1.000;G|0.000 0.000 strong . TECTA 329 . NM_005422 exon11 c.A3704G p.N1235S TGCAGAACAGCAC . PASS Atlas-SNP DNAH10 196385 hgsc.bcm.edu 37 12 124401172 124401172 + Missense_Mutation SNP G G A rs61740383 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 98.0 52.0 83.0 0.0 0.530612 0 G|0.957;A|0.043 0.043 strong . DNAH10 888 . NM_207437 exon62 c.G10537A p.D3513N CTGGGAGACAAGG . PASS Atlas-SNP DNPEP 23549 hgsc.bcm.edu 37 2 220250769 220250769 + Missense_Mutation SNP T T C rs6742404 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 210.0 111.0 182.0 0.0 0.528571 0 T|0.962;C|0.038 0.038 strong . DNPEP 40 . NM_012100 exon6 c.A511G p.I171V GAAGAATGGGCCG . PASS Atlas-SNP FLG 2312 hgsc.bcm.edu 37 1 152275559 152275559 + Missense_Mutation SNP A A G rs3126065 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 178.0 178.0 177.0 1.0 1 0.00564972 A|0.871;G|0.129 0.129 strong . FLG 900 . NM_002016 exon3 c.T11803C p.S3935P CTTGTGAAAGACT . PASS Atlas-SNP ADAMDEC1 27299 hgsc.bcm.edu 37 8 24256389 24256389 + Silent SNP A A T rs7001097 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 113.0 51.0 80.0 0.0 0.451327 0 A|0.977;T|0.023 0.023 strong . ADAMDEC1 69 . NM_014479 exon9 c.A765T p.I255I ACAGATATATAAC . PASS Atlas-SNP DLG5 9231 hgsc.bcm.edu 37 10 79556305 79556305 + Missense_Mutation SNP C C T rs74140334 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 210.0 96.0 241.0 0.0 0.457143 0 C|0.988;T|0.012 0.012 strong . DLG5 154 . NM_004747 exon28 c.G5212A p.A1738T TCAGAGCGGTGCA . PASS Atlas-SNP PIWIL4 143689 hgsc.bcm.edu 37 11 94320300 94320300 + Silent SNP C C T rs145516372 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 124.0 47.0 119.0 0.0 0.379032 0 C|0.992;T|0.008 0.008 strong . PIWIL4 70 . NM_152431 exon7 c.C801T p.V267V CAAAGTCCTCCGG . PASS Atlas-SNP BPIFA3 128861 hgsc.bcm.edu 37 20 31812949 31812949 + Silent SNP C C T rs147632261 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 162.0 84.0 136.0 0.0 0.518519 0 C|0.995;T|0.005 0.005 strong . . . . NM_178466 exon4 c.C432T p.I144I GAGCATCGTTGTG . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195511486 195511486 + Missense_Mutation SNP G G T rs202186297 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 113.0 26.0 113.0 0.0 0.230089 0 G|0.996;T|0.005 0.005 weak MUC4_ENST00000463781,NS,carcinoma,0,1 MUC4 1505 1 NM_018406 exon2 c.C6965A p.P2322H GTGACAGGAAGAG . scavenged Atlas-SNP OR8H3 390152 hgsc.bcm.edu 37 11 55889918 55889918 + Missense_Mutation SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 231.0 18.0 196.0 0.0 0.0779221 0 . . none . OR8H3 92 . NM_001005201 exon1 c.G70A p.V24I GAAGAGGTCCAGA . PASS Atlas-SNP PRR5-ARHGAP8 553158 hgsc.bcm.edu 37 22 45221404 45221404 + Missense_Mutation SNP C C T rs74393756 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 185.0 83.0 150.0 0.0 0.448649 0 C|0.978;T|0.022 0.022 strong . PRR5-ARHGAP8 53 . NM_181334 exon10 c.C893T p.P298L GGACGCCGCCTCC . PASS Atlas-SNP SIMC1 375484 hgsc.bcm.edu 37 5 175722243 175722243 + Missense_Mutation SNP A A G rs7736723 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 323.0 134.0 321.0 0.0 0.414861 0 A|1.000;|0.000 . weak . . . . NM_198567 exon2 c.A340G p.M114V GCCTACATGCTTC . PASS Atlas-SNP COL5A1 1289 hgsc.bcm.edu 37 9 137630361 137630361 + Silent SNP G G A rs61729545 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 160.0 100.0 128.0 0.0 0.625 0 G|0.937;A|0.063 0.063 strong COL5A1,NS,carcinoma,+1,1 COL5A1 323 1 NM_000093 exon10 c.G1431A p.A477A CCCCGCGGTGAGT . PASS Atlas-SNP ATP2B3 492 hgsc.bcm.edu 37 X 152830495 152830495 + Silent SNP T T C rs5986910 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 194.0 64.0 185.0 0.0 0.329897 0 T|0.920;C|0.080 0.080 strong . ATP2B3 552 . NM_001001344 exon19 c.T3276C p.H1092H CGACCATGCCGAG . PASS Atlas-SNP KRTAP4-9 100132386 hgsc.bcm.edu 37 17 39262121 39262121 + Missense_Mutation SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 151.0 17.0 129.0 0.0 0.112583 0 . . none KRTAP4-9_ENST00000377734,NS,carcinoma,0,2 KRTAP4-9 110 2 NM_001146041 exon1 c.C481T p.R161C TGCTGCCGCCCCT . scavenged Atlas-SNP PTPRJ 5795 hgsc.bcm.edu 37 11 48166642 48166642 + Silent SNP C C T rs34300475 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 198.0 100.0 206.0 0.0 0.50505 0 C|0.944;T|0.056 0.056 strong . PTPRJ 225 . NM_002843 exon14 c.C2877T p.R959R CAGTCGCTACTCA . PASS Atlas-SNP ZNF570 148268 hgsc.bcm.edu 37 19 37975400 37975400 + Silent SNP T T C rs78317808 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 61.0 36.0 68.0 0.0 0.590164 0 T|0.983;C|0.017 0.017 strong . ZNF570 58 . NM_144694 exon5 c.T876C p.H292H TCAACATCTGCGA . PASS Atlas-SNP MOAP1 64112 hgsc.bcm.edu 37 14 93649552 93649552 + Silent SNP A A G rs114256363 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 111.0 48.0 118.0 0.0 0.432432 0 A|0.982;G|0.018 0.018 strong . MOAP1 32 . NM_022151 exon3 c.T1036C p.L346L CTTCCAATATTGC . PASS Atlas-SNP WDR87 83889 hgsc.bcm.edu 37 19 38383386 38383386 + Missense_Mutation SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 248.0 133.0 225.0 0.0 0.53629 0 . . none WDR87,colon,carcinoma,0,1 WDR87 191 1 NM_031951 exon4 c.G2840A p.R947H CCTAGACGCTTCA . PASS Atlas-SNP ZDHHC23 254887 hgsc.bcm.edu 37 3 113673098 113673098 + Missense_Mutation SNP C C T rs149202494 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 168.0 84.0 151.0 0.0 0.5 0 C|1.000;T|0.000 0.000 strong . ZDHHC23 38 . NM_173570 exon3 c.C713T p.T238I GCACAACAAAGGA . PASS Atlas-SNP KRTAP10-10 353333 hgsc.bcm.edu 37 21 46057949 46057949 + Silent SNP C C T rs78352751 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 471.0 121.0 297.0 0.0 0.2569 0 C|0.982;T|0.018 0.018 strong . KRTAP10-10 37 . NM_181688 exon1 c.C615T p.P205P CGTGCCCGTCCCC . PASS Atlas-SNP CLEC16A 23274 hgsc.bcm.edu 37 16 11133642 11133642 + Silent SNP G G A rs61740101 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 46.0 89.0 0.0 0.494624 0 G|0.989;A|0.011 0.011 strong . CLEC16A 101 . NM_015226 exon13 c.G1569A p.Q523Q AATCCAGCTCCCC . PASS Atlas-SNP NCOR1 9611 hgsc.bcm.edu 37 17 16001756 16001756 + Silent SNP G G A rs79413281 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 119.0 51.0 130.0 0.0 0.428571 0 G|0.981;A|0.019 0.019 strong . NCOR1 240 . NM_001190440 exon20 c.C2793T p.L931L TGAGACGAGTATA . PASS Atlas-SNP RICTOR 253260 hgsc.bcm.edu 37 5 38950761 38950761 + Silent SNP A A G rs150422546 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 210.0 111.0 207.0 0.0 0.528571 0 A|0.999;G|0.001 0.001 strong . RICTOR 182 . NM_152756 exon31 c.T3189C p.D1063D ATTGATATCAAGG . PASS Atlas-SNP ERI1 90459 hgsc.bcm.edu 37 8 8869129 8869129 + Missense_Mutation SNP T T G rs112570397 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 75.0 45.0 51.0 0.0 0.6 0 T|0.991;G|0.009 0.009 strong . ERI1 20 . NM_153332 exon3 c.T365G p.F122C GCAATTTTGCTGA . PASS Atlas-SNP TCTE1 202500 hgsc.bcm.edu 37 6 44249939 44249939 + Silent SNP G G A rs34405945 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 183.0 98.0 135.0 0.0 0.535519 0 G|0.988;A|0.012 0.012 strong . TCTE1 77 . NM_182539 exon4 c.C1204T p.L402L CAGACAGCTCATT . PASS Atlas-SNP BOC 91653 hgsc.bcm.edu 37 3 112993412 112993412 + Silent SNP C C T rs7615578 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 215.0 104.0 169.0 0.0 0.483721 0 C|0.985;T|0.015 0.015 strong . BOC 139 . NM_033254 exon9 c.C1425T p.P475P GGCTCCCATCATC . PASS Atlas-SNP LRP12 29967 hgsc.bcm.edu 37 8 105503401 105503401 + Missense_Mutation SNP T T C rs16871494 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 189.0 93.0 170.0 0.0 0.492063 0 T|0.957;C|0.043 0.043 strong . LRP12 124 . NM_013437 exon7 c.A2080G p.S694G AGGAACTTGCACA . PASS Atlas-SNP ITGA2B 3674 hgsc.bcm.edu 37 17 42455126 42455126 + Silent SNP C C T rs114232872 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 69.0 36.0 69.0 0.0 0.521739 0 C|0.995;T|0.005 0.005 strong . ITGA2B 88 . NM_000419 exon21 c.G2127A p.K709K ATTCTCCTTCTTC . PASS Atlas-SNP EVA1C 59271 hgsc.bcm.edu 37 21 33867447 33867447 + Missense_Mutation SNP G G A rs61744983 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 159.0 88.0 145.0 0.0 0.553459 0 G|0.997;A|0.003 0.003 strong . . . . NM_058187 exon5 c.G745A p.V249M CCAGGCGTGAAAA . PASS Atlas-SNP MAK 4117 hgsc.bcm.edu 37 6 10792040 10792040 + Missense_Mutation SNP C C A rs62000445 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 150.0 73.0 133.0 0.0 0.486667 0 C|0.991;A|0.009 0.009 strong MAK,NS,carcinoma,-1,1 MAK 47 1 NM_005906 exon10 c.G1184T p.R395L CCCCAACGCCTCC . PASS Atlas-SNP HLA-DOA 3111 hgsc.bcm.edu 37 6 32975896 32975896 + Silent SNP A A G rs364950 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 88.0 39.0 78.0 0.0 0.443182 0 A|0.906;G|0.094 0.094 strong . HLA-DOA 22 . NM_002119 exon2 c.T225C p.G75G AAAGTCACCAAAC . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195511447 195511447 + Missense_Mutation SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 119.0 7.0 214.0 0.0 0.0588235 0 . . none MUC4_ENST00000463781,NS,carcinoma,0,3 MUC4 1505 3 NM_018406 exon2 c.C7004T p.T2335M AGAGGCGTGGTGT . scavenged Atlas-SNP CTTN 2017 hgsc.bcm.edu 37 11 70279759 70279759 + Missense_Mutation SNP G G A rs56162978 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 138.0 64.0 121.0 0.0 0.463768 0 G|0.941;A|0.059 0.059 strong . CTTN 162 . NM_005231 exon17 c.G1451A p.S484N AGGACAGCACCTA . PASS Atlas-SNP CCDC173 129881 hgsc.bcm.edu 37 2 170502509 170502509 + Missense_Mutation SNP G G A rs112720712 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 109.0 49.0 122.0 0.0 0.449541 0 G|0.990;A|0.010 0.010 strong . . . . NM_001085447 exon9 c.C1501T p.P501S CTCCAGGTCCTTC . PASS Atlas-SNP MARK3 4140 hgsc.bcm.edu 37 14 103941392 103941392 + Missense_Mutation SNP A A G rs56305318 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 85.0 48.0 86.0 0.0 0.564706 0 A|0.958;G|0.042 0.042 strong . MARK3 86 . NM_001128919 exon13 c.A1327G p.S443G GCAGATAGTGACC . PASS Atlas-SNP STARD13 90627 hgsc.bcm.edu 37 13 33741716 33741716 + Silent SNP C C T rs17078661 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 69.0 33.0 63.0 0.0 0.478261 0 C|0.960;T|0.040 0.040 strong STARD13,NS,carcinoma,-1,1 STARD13 100 1 NM_178006 exon2 c.G213A p.G71G CGGGAACCCGGCA . PASS Atlas-SNP ZNF506 440515 hgsc.bcm.edu 37 19 19906131 19906131 + Missense_Mutation SNP T T G rs16996376 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 50.0 22.0 66.0 0.0 0.44 0 T|0.935;G|0.065 0.065 strong . ZNF506 36 . NM_001099269 exon4 c.A565C p.T189P ATGTAGTACGGGT . PASS Atlas-SNP WNT8B 7479 hgsc.bcm.edu 37 10 102242030 102242030 + Silent SNP G G A rs9420786 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 29.0 12.0 17.0 0.0 0.413793 0 G|0.978;A|0.022 0.022 strong . WNT8B 31 . NM_003393 exon6 c.G513A p.A171A CCAGGCGGTGAAG . PASS Atlas-SNP CDC6 990 hgsc.bcm.edu 37 17 38447569 38447569 + Silent SNP T T C rs1130199 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 140.0 139.0 154.0 1.0 0.992857 0.00649351 T|0.886;C|0.114 0.114 strong . CDC6 53 . NM_001254 exon3 c.T438C p.C146C TGCATGTGTGAGA . PASS Atlas-SNP DNAJB9 4189 hgsc.bcm.edu 37 7 108213545 108213545 + Silent SNP T T C rs376971670 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 176.0 83.0 172.0 0.0 0.471591 0 . . weak DNAJB9,NS,carcinoma,+1,1 DNAJB9 25 1 NM_012328 exon3 c.T420C p.H140H AAATCATTTCCAG . PASS Atlas-SNP SELE 6401 hgsc.bcm.edu 37 1 169697218 169697218 + Silent SNP G G A rs5365 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 60.0 27.0 67.0 0.0 0.45 0 G|0.982;A|0.018 0.018 strong . SELE 84 . NM_000450 exon8 c.C1260T p.N420N CTTCTCGTTGTCC . PASS Atlas-SNP TMEM14B 81853 hgsc.bcm.edu 37 6 10751379 10751379 + Silent SNP C C T rs1046427 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 122.0 59.0 110.0 0.0 0.483607 0 C|0.979;T|0.021 0.021 strong . TMEM14B 19 . NM_030969 exon4 c.C114T p.S38S GCCGTCCCTGGCT . PASS Atlas-SNP ANKRD33 341405 hgsc.bcm.edu 37 12 52282865 52282865 + Silent SNP C C T rs35851809 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 42.0 135.0 0.0 0.451613 0 C|0.998;T|0.002 0.002 strong . ANKRD33 33 . NM_182608 exon3 c.C411T p.V137V CATGGTCGCATGC . PASS Atlas-SNP MS4A7 58475 hgsc.bcm.edu 37 11 60161273 60161273 + Missense_Mutation SNP C C T rs372900689 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 70.0 41.0 75.0 0.0 0.585714 0 . . weak . MS4A7 38 . NM_021201 exon7 c.C662T p.S221L TTTCCTCGACCCA . PASS Atlas-SNP HSPB3 8988 hgsc.bcm.edu 37 5 53751818 53751818 + Missense_Mutation SNP G G A rs35258119 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 146.0 144.0 139.0 0.0 0.986301 0 G|0.992;A|0.008 0.008 strong . HSPB3 17 . NM_006308 exon1 c.G199A p.G67S CGAGAAGGCAAAT . PASS Atlas-SNP C2orf16 84226 hgsc.bcm.edu 37 2 27804690 27804690 + Missense_Mutation SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 158.0 13.0 171.0 0.0 0.0822785 0 . . none . C2orf16 357 . NM_032266 exon1 c.C5251T p.H1751Y AGACATCACAGTC . PASS Atlas-SNP LMO7 4008 hgsc.bcm.edu 37 13 76195833 76195833 + Missense_Mutation SNP A A G rs143470231 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 28.0 13.0 33.0 0.0 0.464286 0 A|0.987;G|0.013 0.013 strong LMO7_ENST00000357063,colon,carcinoma,-2,2 LMO7 334 2 NM_005358 exon1 c.A4G p.K2E GCTATGAAGAAAA . PASS Atlas-SNP OR51I2 390064 hgsc.bcm.edu 37 11 5474894 5474894 + Missense_Mutation SNP T T C rs74049540 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 135.0 64.0 125.0 0.0 0.474074 0 T|0.937;C|0.063 0.063 strong . OR51I2 76 . NM_001004754 exon1 c.T176C p.M59T AGCCCATGTACTA . PASS Atlas-SNP RP1L1 94137 hgsc.bcm.edu 37 8 10470794 10470794 + Missense_Mutation SNP G G C rs77833234 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 21.0 9.0 33.0 0.0 0.428571 0 G|0.993;C|0.007 0.007 strong . RP1L1 453 . NM_178857 exon4 c.C814G p.P272A GCCGTGGCGTGCT . PASS Atlas-SNP SHROOM4 57477 hgsc.bcm.edu 37 X 50350751 50350751 + Missense_Mutation SNP G G C rs201290098 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 70.0 6.0 111.0 0.0 0.0857143 0 . . weak . SHROOM4 171 . NM_020717 exon6 c.C3391G p.Q1131E CCTCCTGTTGCTT . PASS Atlas-SNP EMR3 84658 hgsc.bcm.edu 37 19 14740942 14740942 + Missense_Mutation SNP G G A rs78700925 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 117.0 56.0 126.0 0.0 0.478632 0 G|0.984;A|0.016 0.016 strong . EMR3 99 . NM_032571 exon14 c.C1721T p.P574L GCAGCTGGACCCA . PASS Atlas-SNP TBC1D9B 23061 hgsc.bcm.edu 37 5 179297352 179297352 + Silent SNP A A G rs384668 bycluster;byfrequency;by2hit2allele;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 120.0 56.0 119.0 0.0 0.466667 0 A|0.890;G|0.110 0.110 strong . TBC1D9B 157 . NM_198868 exon16 c.T2628C p.C876C GGAGCCACAGGCC . PASS Atlas-SNP SPTBN1 6711 hgsc.bcm.edu 37 2 54895682 54895682 + Silent SNP C C T rs2229505 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 97.0 43.0 94.0 0.0 0.443299 0 C|0.962;T|0.038 0.038 strong . SPTBN1 378 . NM_003128 exon36 c.C7071T p.F2357F GCGGTTCAGCCTT . PASS Atlas-SNP PTPRF 5792 hgsc.bcm.edu 37 1 44019305 44019305 + Silent SNP C C T rs6684279 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 81.0 41.0 89.0 0.0 0.506173 0 C|0.964;T|0.036 0.036 strong . PTPRF 172 . NM_002840 exon4 c.C234T p.F78F GCGCTTCGAGGTG . PASS Atlas-SNP GPR55 9290 hgsc.bcm.edu 37 2 231775371 231775371 + Missense_Mutation SNP C C T rs80290067 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 47.0 20.0 43.0 0.0 0.425532 0 C|0.971;T|0.029 0.029 strong . GPR55 46 . NM_005683 exon2 c.G307A p.V103I TGCTGACGAAGTA . PASS Atlas-SNP KIAA0556 23247 hgsc.bcm.edu 37 16 27709812 27709812 + Silent SNP C C T rs61740294 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 42.0 18.0 29.0 0.0 0.428571 0 C|0.978;T|0.022 0.022 strong . KIAA0556 348 . NM_015202 exon9 c.C1104T p.S368S AGCCAGCCCACTG . PASS Atlas-SNP CDC42BPB 9578 hgsc.bcm.edu 37 14 103434985 103434985 + Silent SNP G G A rs55659700 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 98.0 47.0 106.0 0.0 0.479592 0 G|0.992;A|0.008 0.008 strong . CDC42BPB 123 . NM_006035 exon15 c.C2064T p.S688S CAGCTCGGATTTG . PASS Atlas-SNP SEMG1 6406 hgsc.bcm.edu 37 20 43837053 43837053 + Missense_Mutation SNP G G T rs2233887 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 166.0 85.0 151.0 0.0 0.512048 0 G|0.984;T|0.016 0.016 strong SEMG1,bladder,carcinoma,+1,3 SEMG1 71 3 NM_003007 exon2 c.G1115T p.R372L CCCAACGCAGTAT . PASS Atlas-SNP MUC5B 727897 hgsc.bcm.edu 37 11 1268528 1268528 + Missense_Mutation SNP C C T rs202008769 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 657.0 250.0 462.0 0.0 0.380518 0 . . weak MUC5B,colon,carcinoma,0,4 MUC5B 473 4 NM_002458 exon31 c.C10418T p.S3473L GGACTTCGGCCAC . PASS Atlas-SNP FOXRED2 80020 hgsc.bcm.edu 37 22 36902259 36902259 + Missense_Mutation SNP G G A rs56767103 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 49.0 93.0 0.0 0.526882 0 G|0.974;A|0.026 0.026 strong . FOXRED2 48 . NM_001102371 exon2 c.C211T p.R71C GGTAGCGTGTGAA . PASS Atlas-SNP CSTA 1475 hgsc.bcm.edu 37 3 122060390 122060390 + Missense_Mutation SNP G G T rs34021626 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 86.0 48.0 83.0 0.0 0.55814 0 G|0.984;T|0.016 0.016 strong . CSTA 11 . NM_005213 exon3 c.G273T p.K91N AAACAAGGATGAC . PASS Atlas-SNP NXPE1 120400 hgsc.bcm.edu 37 11 114393757 114393757 + Missense_Mutation SNP C C T rs79538449 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 166.0 99.0 145.0 0.0 0.596386 0 C|0.997;T|0.003 0.003 strong . NXPE1 8 . NM_152315 exon5 c.G526A p.G176S TATAACCACCAGG . PASS Atlas-SNP EVX2 344191 hgsc.bcm.edu 37 2 176948445 176948445 + Silent SNP C C G rs61731351 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 104.0 54.0 72.0 0.0 0.519231 0 C|0.930;G|0.070 0.070 strong EVX2,NS,carcinoma,0,1 EVX2 51 1 NM_001080458 exon1 c.G60C p.T20T GCCCGCCGTAGGG . PASS Atlas-SNP GAD1 2571 hgsc.bcm.edu 37 2 171715387 171715387 + Missense_Mutation SNP G G A rs769402 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 118.0 61.0 111.0 0.0 0.516949 0 G|0.935;A|0.065 0.065 strong . GAD1 79 . NM_000817 exon16 c.G1595A p.R532Q AACGACGGGAAAA . PASS Atlas-SNP IL18BP 10068 hgsc.bcm.edu 37 11 71711438 71711438 + Missense_Mutation SNP G G A rs376290357 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 85.0 44.0 91.0 0.0 0.517647 0 . . weak . IL18BP 15 . NM_001145057 exon3 c.G70A p.V24I CACGTCGTCACTC . PASS Atlas-SNP PTPRT 11122 hgsc.bcm.edu 37 20 41408886 41408886 + Silent SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 65.0 20.0 52.0 1.0 0.307692 0.0192308 . . none PTPRT,NS,carcinoma,0,2 PTPRT 372 2 NM_007050 exon4 c.C540T p.D180D GACCTCGTCCACG . scavenged Atlas-SNP UBXN11 91544 hgsc.bcm.edu 37 1 26620761 26620761 + Missense_Mutation SNP T T C rs6695966 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 77.0 36.0 97.0 0.0 0.467532 0 T|0.974;C|0.026 0.026 strong . UBXN11 54 . NM_183008 exon9 c.A494G p.E165G TTGCTCTCTGAGT . PASS Atlas-SNP ITIH5 80760 hgsc.bcm.edu 37 10 7628027 7628027 + Silent SNP C C T rs11255206 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 96.0 41.0 77.0 0.0 0.427083 0 C|0.983;T|0.017 0.017 strong . ITIH5 343 . NM_001001851 exon8 c.G945A p.K315K GGCATCCTTGGTC . PASS Atlas-SNP RBPJL 11317 hgsc.bcm.edu 37 20 43945487 43945487 + Missense_Mutation SNP T T C rs34078698 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 57.0 24.0 66.0 0.0 0.421053 0 T|0.986;C|0.014 0.014 strong RBPJL,colon,carcinoma,+1,1 RBPJL 67 1 NM_014276 exon12 c.T1442C p.V481A ACAGCGTGCGGCC . PASS Atlas-SNP WIPF3 644150 hgsc.bcm.edu 37 7 29924002 29924002 + Missense_Mutation SNP C C A rs371924598 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 140.0 69.0 117.0 0.0 0.492857 0 . . weak . WIPF3 46 . NM_001080529 exon5 c.C892A p.P298T CTCCCCCCTTATG . PASS Atlas-SNP NWD1 284434 hgsc.bcm.edu 37 19 16899852 16899852 + Missense_Mutation SNP G G T rs140602425 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 126.0 55.0 113.0 0.0 0.436508 0 G|1.000;T|0.000 0.000 weak . NWD1 303 . NM_001007525 exon13 c.G2791T p.D931Y TCAAAGGATTACA . PASS Atlas-SNP FUS 2521 hgsc.bcm.edu 37 16 31193948 31193948 + Silent SNP C C T rs61733962 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 183.0 94.0 193.0 0.0 0.513661 0 C|0.965;T|0.035 0.035 strong . FUS 52 . NM_001170634 exon3 c.C153T p.G51G CTATGGCCAGAGC . PASS Atlas-SNP C22orf23 84645 hgsc.bcm.edu 37 22 38341124 38341124 + Missense_Mutation SNP T T G rs35562630 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 368.0 163.0 348.0 0.0 0.442935 0 T|0.946;G|0.054 0.054 strong . C22orf23 21 . NM_032561 exon5 c.A406C p.M136L CCTCCATGTCCTT . PASS Atlas-SNP NTRK1 4914 hgsc.bcm.edu 37 1 156838432 156838432 + Missense_Mutation SNP C C T rs55909005 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 103.0 53.0 93.0 0.0 0.514563 0 C|0.987;T|0.013 0.013 strong . NTRK1 287 . NM_001012331 exon6 c.C710T p.T237M CAGCCACGGTGAT . PASS Atlas-SNP SCGB1D1 10648 hgsc.bcm.edu 37 11 61959636 61959636 + Missense_Mutation SNP C C T rs116188604 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 165.0 88.0 151.0 0.0 0.533333 0 C|0.982;T|0.018 0.018 strong SCGB1D1,NS,carcinoma,0,1 SCGB1D1 18 1 NM_006552 exon2 c.C164T p.A55V TGGAAGCTGTTGC . PASS Atlas-SNP ILDR1 286676 hgsc.bcm.edu 37 3 121712098 121712098 + Missense_Mutation SNP G G A rs34284625 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 173.0 81.0 152.0 0.0 0.468208 0 G|0.956;A|0.044 0.044 strong . ILDR1 120 . NM_001199799 exon7 c.C1498T p.H500Y GGGAGTGCGAGCC . PASS Atlas-SNP IFLTD1 160492 hgsc.bcm.edu 37 12 25672880 25672880 + Missense_Mutation SNP T T C rs34732786 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 121.0 51.0 160.0 0.0 0.421488 0 T|0.980;C|0.020 0.020 strong . IFLTD1 121 . NM_001145728 exon7 c.A928G p.T310A TAGCTGTAGATGC . PASS Atlas-SNP CCDC40 55036 hgsc.bcm.edu 37 17 78014024 78014024 + Silent SNP G G A rs2885349 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 64.0 32.0 56.0 0.0 0.5 0 G|0.968;A|0.032 0.032 strong CCDC40_ENST00000374877,rectum,carcinoma,+1,2 CCDC40 198 2 NM_017950 exon3 c.G507A p.S169S CCCGTCGGAGCAA . PASS Atlas-SNP FMNL2 114793 hgsc.bcm.edu 37 2 153475556 153475556 + Missense_Mutation SNP T T C rs11897929 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 172.0 93.0 181.0 0.0 0.540698 0 T|0.920;C|0.080 0.080 strong . FMNL2 75 . NM_052905 exon14 c.T1511C p.M504T TGTCCATGGGGTC . PASS Atlas-SNP FARP2 9855 hgsc.bcm.edu 37 2 242352768 242352768 + Missense_Mutation SNP A A C rs16843643 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 58.0 32.0 50.0 0.0 0.551724 0 A|0.960;C|0.040 0.040 strong . FARP2 92 . NM_014808 exon7 c.A555C p.K185N CCTCAAAGTGAAC . PASS Atlas-SNP ZNF385C 201181 hgsc.bcm.edu 37 17 40183707 40183707 + Silent SNP G G C rs75049227 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 358.0 172.0 352.0 0.0 0.480447 0 G|0.994;C|0.006 0.006 strong . ZNF385C 7 . NM_001242704 exon4 c.C369G p.A123A ATCCTGGGCCTGG . PASS Atlas-SNP NECAB2 54550 hgsc.bcm.edu 37 16 84027966 84027966 + Missense_Mutation SNP C C T rs79514285 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 99.0 50.0 100.0 0.0 0.50505 0 C|0.996;T|0.004 0.004 strong . NECAB2 36 . NM_019065 exon7 c.C656T p.P219L CCACTCCCGCCTC . PASS Atlas-SNP MMP20 9313 hgsc.bcm.edu 37 11 102487643 102487643 + Missense_Mutation SNP T T C rs61730848 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 223.0 91.0 222.0 0.0 0.408072 0 T|0.998;C|0.002 0.002 strong . MMP20 52 . NM_004771 exon2 c.A274G p.M92V CGTTCATTGTGGT . PASS Atlas-SNP PPP1R12C 54776 hgsc.bcm.edu 37 19 55623871 55623871 + Missense_Mutation SNP T T G rs116840455 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 38.0 122.0 0.0 0.408602 0 T|0.990;G|0.010 0.010 strong . PPP1R12C 46 . NM_017607 exon3 c.A535C p.M179L CCTCCATGGCGTC . PASS Atlas-SNP SLITRK4 139065 hgsc.bcm.edu 37 X 142717383 142717383 + Silent SNP A A G rs73577386 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 168.0 168.0 199.0 1.0 1 0.00502513 A|0.836;G|0.164 0.164 strong . SLITRK4 162 . NM_001184750 exon2 c.T1542C p.S514S GACCCCACTGACA . PASS Atlas-SNP GPR68 8111 hgsc.bcm.edu 37 14 91700319 91700319 + Missense_Mutation SNP A A G rs151219229 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 42.0 11.0 46.0 0.0 0.261905 0 A|0.995;G|0.005 0.005 strong . GPR68 32 . NM_001177676 exon2 c.T1076C p.F359S GTGGGGAACCCGC . PASS Atlas-SNP PXDNL 137902 hgsc.bcm.edu 37 8 52320786 52320786 + Missense_Mutation SNP G G A rs74731075 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 81.0 40.0 68.0 0.0 0.493827 0 G|0.973;A|0.027 0.027 strong . PXDNL 414 . NM_144651 exon17 c.C3398T p.A1133V ACGGCCGCAGAAT . PASS Atlas-SNP MAPK7 5598 hgsc.bcm.edu 37 17 19285392 19285392 + Silent SNP G G A rs2233079 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 200.0 114.0 144.0 0.0 0.57 0 G|0.959;A|0.041 0.041 strong . MAPK7 72 . NM_002749 exon5 c.G1776A p.A592A CCCAGCGCCAACG . PASS Atlas-SNP OR8J3 81168 hgsc.bcm.edu 37 11 55904422 55904422 + Missense_Mutation SNP A A G rs114758947 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 236.0 127.0 183.0 0.0 0.538136 0 A|0.983;G|0.017 0.017 strong . OR8J3 112 . NM_001004064 exon1 c.T773C p.M258T AAATACATAAATA . PASS Atlas-SNP GPR124 25960 hgsc.bcm.edu 37 8 37690615 37690615 + Silent SNP G G A rs61738775 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 17.0 15.0 14.0 0.0 0.882353 0 G|0.934;A|0.066 0.066 strong . GPR124 85 . NM_032777 exon9 c.G1185A p.P395P TGCCCCGGGCACC . PASS Atlas-SNP USP50 373509 hgsc.bcm.edu 37 15 50836846 50836846 + Silent SNP G G C rs114737323 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 86.0 43.0 53.0 0.0 0.5 0 G|0.957;C|0.043 0.043 strong . USP50 24 . NM_203494 exon2 c.C186G p.L62L GCTGCAGAGACAC . PASS Atlas-SNP PPFIBP1 8496 hgsc.bcm.edu 37 12 27829369 27829369 + Silent SNP T T C rs35150305 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 130.0 71.0 93.0 0.0 0.546154 0 T|0.978;C|0.022 0.022 strong . PPFIBP1 153 . NM_177444 exon18 c.T1470C p.A490A CAGAGCTCCGGCA . PASS Atlas-SNP KIAA0895L 653319 hgsc.bcm.edu 37 16 67210855 67210855 + Missense_Mutation SNP G G C rs61733789 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 94.0 49.0 99.0 0.0 0.521277 0 G|0.923;C|0.077 0.077 strong . KIAA0895L 32 . NM_001040715 exon7 c.C1275G p.H425Q CCGCAGGTGGTCC . PASS Atlas-SNP BANK1 55024 hgsc.bcm.edu 37 4 102965016 102965016 + Missense_Mutation SNP A A G rs140337324 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 60.0 26.0 56.0 0.0 0.433333 0 A|0.999;G|0.001 0.001 strong . BANK1 95 . NM_017935 exon11 c.A1921G p.R641G ACAGCCAGAAGAC . PASS Atlas-SNP NIM1 0 hgsc.bcm.edu 37 5 43277283 43277283 + Silent SNP G G A rs61734291 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 112.0 58.0 79.0 0.0 0.517857 0 G|0.965;A|0.035 0.035 strong . . . . NM_153361 exon3 c.G417A p.V139V CGAAGTGGTGGAG . PASS Atlas-SNP PSRC1 84722 hgsc.bcm.edu 37 1 109824361 109824361 + Silent SNP A A C rs11800211 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 146.0 83.0 126.0 0.0 0.568493 0 A|0.938;C|0.062 0.062 strong . PSRC1 12 . NM_001032291 exon4 c.T399G p.S133S CGTCAAAGAGTTC . PASS Atlas-SNP KLHL26 55295 hgsc.bcm.edu 37 19 18778879 18778879 + Silent SNP C C T rs79044993 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 71.0 32.0 41.0 0.0 0.450704 0 C|0.988;T|0.012 0.012 strong . KLHL26 43 . NM_018316 exon3 c.C672T p.I224I CGAGATCGACCTG . PASS Atlas-SNP ALPPL2 251 hgsc.bcm.edu 37 2 233271852 233271852 + Silent SNP C C T rs61730280 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 116.0 54.0 93.0 0.0 0.465517 0 C|0.990;T|0.010 0.010 strong . ALPPL2 36 . NM_031313 exon2 c.C153T p.A51A GACAGCCGCCAAG . PASS Atlas-SNP ZNF175 7728 hgsc.bcm.edu 37 19 52090671 52090671 + Missense_Mutation SNP T T A rs60097262 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 130.0 56.0 99.0 0.0 0.430769 0 T|0.983;A|0.017 0.017 strong . ZNF175 65 . NM_007147 exon5 c.T1087A p.Y363N AAGCCCTATAAAT . PASS Atlas-SNP OR2B2 81697 hgsc.bcm.edu 37 6 27879093 27879093 + Silent SNP G G A rs73392698 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 55.0 31.0 59.0 0.0 0.563636 0 G|0.984;A|0.016 0.016 strong . OR2B2 54 . NM_033057 exon1 c.C1005T p.S335S ACTTGCGGAGAAG . PASS Atlas-SNP PGLYRP2 114770 hgsc.bcm.edu 37 19 15580694 15580694 + Missense_Mutation SNP G G A rs61734899 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 61.0 24.0 71.0 0.0 0.393443 0 G|0.983;A|0.017 0.017 strong . PGLYRP2 116 . NM_052890 exon4 c.C1390T p.H464Y CCCAGTGCCAGCC . PASS Atlas-SNP SLC4A11 83959 hgsc.bcm.edu 37 20 3209254 3209254 + Silent SNP G G A rs139086376 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 153.0 72.0 184.0 0.0 0.470588 0 G|0.994;A|0.006 0.006 strong . SLC4A11 188 . NM_001174090 exon18 c.C2421T p.P807P GGGCTTGGGGATC . PASS Atlas-SNP PRMT10 90826 hgsc.bcm.edu 37 4 148575601 148575601 + Missense_Mutation SNP T T C rs17023638 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 102.0 43.0 68.0 0.0 0.421569 0 T|0.963;C|0.037 0.037 strong . PRMT10 68 . NM_138364 exon9 c.A1447G p.S483G TAAAACTTTTTGC . PASS Atlas-SNP CCDC14 64770 hgsc.bcm.edu 37 3 123633665 123633665 + Silent SNP T T C rs13319634 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 197.0 82.0 167.0 0.0 0.416244 0 T|0.970;C|0.030 0.030 strong . CCDC14 97 . NM_022757 exon12 c.A2700G p.R900R CTGGAGTCTAGCT . PASS Atlas-SNP OR10H5 284433 hgsc.bcm.edu 37 19 15904914 15904914 + Missense_Mutation SNP C C T rs150835909 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 179.0 86.0 146.0 0.0 0.480447 0 C|0.990;T|0.010 0.010 strong . OR10H5 49 . NM_001004466 exon1 c.C56T p.A19V TCTCTGCCTTCCC . PASS Atlas-SNP NOC2L 26155 hgsc.bcm.edu 37 1 889421 889421 + Missense_Mutation SNP C C T rs3828050 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 275.0 143.0 288.0 1.0 0.52 0.00347222 C|0.999;T|0.001 0.001 strong NOC2L,NS,carcinoma,0,1 NOC2L 42 1 NM_015658 exon7 c.G740A p.R247H TCCACACGAAGCT . PASS Atlas-SNP AGBL4 84871 hgsc.bcm.edu 37 1 49005351 49005351 + Missense_Mutation SNP C C T rs60977321 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 129.0 57.0 109.0 0.0 0.44186 0 C|0.961;T|0.039 0.039 strong . AGBL4 54 . NM_032785 exon12 c.G1327A p.V443M CAACCACGGGGTT . PASS Atlas-SNP C5orf42 65250 hgsc.bcm.edu 37 5 37115116 37115116 + Missense_Mutation SNP C C T rs7702892 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 74.0 39.0 64.0 0.0 0.527027 0 C|0.970;T|0.030 0.030 strong C5orf42_ENST00000425232,bladder,carcinoma,+1,2 C5orf42 422 2 NM_023073 exon50 c.G9184A p.G3062R TGGCTCCACCAGC . PASS Atlas-SNP NIPBL 25836 hgsc.bcm.edu 37 5 36985751 36985751 + Silent SNP A A G rs293756 bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 185.0 101.0 169.0 0.0 0.545946 0 A|0.961;G|0.039 0.039 strong . NIPBL 513 . NM_015384 exon10 c.A2469G p.K823K ACAAAAATCAGAT . PASS Atlas-SNP ATPBD4 89978 hgsc.bcm.edu 37 15 35830665 35830665 + Missense_Mutation SNP C C T rs34907758 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 103.0 49.0 117.0 0.0 0.475728 0 C|0.972;T|0.028 0.028 strong . ATPBD4 30 . NM_001141972 exon3 c.G122A p.G41E TCAGACCCCACTG . PASS Atlas-SNP OR7D2 162998 hgsc.bcm.edu 37 19 9297196 9297196 + Missense_Mutation SNP G G A rs61739064 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 70.0 33.0 66.0 0.0 0.471429 0 G|0.983;A|0.017 0.017 strong . OR7D2 55 . NM_175883 exon1 c.G739A p.V247I CTCTCCGTCGTTT . PASS Atlas-SNP UPP2 151531 hgsc.bcm.edu 37 2 158977928 158977928 + Silent SNP A A C rs10186677 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 303.0 185.0 382.0 0.0 0.610561 0 A|0.980;C|0.020 0.020 strong . UPP2 60 . NM_001135098 exon7 c.A633C p.A211A GATTGCACCAGGG . PASS Atlas-SNP IGSF5 150084 hgsc.bcm.edu 37 21 41142958 41142958 + Silent SNP C C T rs61737685 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 53.0 30.0 47.0 0.0 0.566038 0 C|0.957;T|0.043 0.043 strong . IGSF5 62 . NM_001080444 exon4 c.C534T p.L178L GGAGCTCGGTCTC . PASS Atlas-SNP INMT 11185 hgsc.bcm.edu 37 7 30795419 30795419 + Silent SNP C C T rs35221354 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 71.0 30.0 78.0 0.0 0.422535 0 C|0.947;T|0.053 0.053 strong INMT,NS,carcinoma,+1,1 INMT 38 1 NM_006774 exon3 c.C744T p.A248A TGCTGCCAACAAT . PASS Atlas-SNP PCDHA10 56139 hgsc.bcm.edu 37 5 140237094 140237094 + Silent SNP C C G rs60872775 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 309.0 157.0 365.0 0.0 0.508091 0 C|0.989;G|0.011 0.011 strong . PCDHA10 358 . NM_031859 exon1 c.C1461G p.A487A GAACGCCCTGGTG . PASS Atlas-SNP SYCP2 10388 hgsc.bcm.edu 37 20 58496438 58496438 + Missense_Mutation SNP A A G rs61730337 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 193.0 101.0 165.0 0.0 0.523316 0 A|0.979;G|0.021 0.021 strong . SYCP2 204 . NM_014258 exon3 c.T95C p.I32T ATATCAATTTGCA . PASS Atlas-SNP UBTF 7343 hgsc.bcm.edu 37 17 42284951 42284951 + Silent SNP A A G rs113823176 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 223.0 118.0 177.0 0.0 0.529148 0 A|0.990;G|0.010 0.010 strong . UBTF 65 . NM_014233 exon20 c.T2040C p.D680D TTCATCATCCTCC . PASS Atlas-SNP KIAA0146 23514 hgsc.bcm.edu 37 8 48511729 48511729 + Silent SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 101.0 41.0 102.0 0.0 0.405941 0 . . none . KIAA0146 64 . NM_001080394 exon10 c.C1515T p.S505S GGCCAGCTCAGGA . PASS Atlas-SNP ZSCAN25 221785 hgsc.bcm.edu 37 7 99226981 99226981 + Missense_Mutation SNP C C G rs10239632 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 58.0 35.0 52.0 0.0 0.603448 0 C|0.966;G|0.034 0.034 strong . . . . NM_145115 exon8 c.C973G p.P325A GGGCTTCCTCCTC . PASS Atlas-SNP BMX 660 hgsc.bcm.edu 37 X 15555339 15555339 + Silent SNP G G A rs376617024 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 217.0 100.0 177.0 0.0 0.460829 0 . . weak . BMX 73 . NM_001721 exon14 c.G1305A p.K435K GGGCAAGTGGAAG . PASS Atlas-SNP GPR110 266977 hgsc.bcm.edu 37 6 46977894 46977894 + Missense_Mutation SNP C C T rs115292676 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 178.0 100.0 180.0 0.0 0.561798 0 C|0.989;T|0.011 0.011 strong GPR110,colon,carcinoma,-1,2 GPR110 102 2 NM_153840 exon11 c.G1277A p.R426Q AATTTCCGAGAAA . PASS Atlas-SNP SLC26A11 284129 hgsc.bcm.edu 37 17 78201686 78201686 + Silent SNP C C T rs61011315 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 45.0 23.0 39.0 0.0 0.511111 0 C|0.944;T|0.056 0.056 strong . SLC26A11 60 . NM_173626 exon7 c.C663T p.H221H GGACCACGTGCCT . PASS Atlas-SNP RACGAP1 29127 hgsc.bcm.edu 37 12 50384542 50384542 + Missense_Mutation SNP T T C rs140590023 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 167.0 67.0 159.0 0.0 0.401198 0 T|0.998;C|0.002 0.002 strong . RACGAP1 36 . NM_013277 exon18 c.A1748G p.H583R AGCTGATGTTCAG . PASS Atlas-SNP KRTAP10-6 386674 hgsc.bcm.edu 37 21 46011406 46011406 + Silent SNP G G T rs374116165 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 258.0 46.0 362.0 0.0 0.178295 0 . . weak . KRTAP10-6 57 . NM_198688 exon1 c.C960A p.V320V GGAGGGGACGGGC . PASS Atlas-SNP AKIRIN2 55122 hgsc.bcm.edu 37 6 88385579 88385579 + Silent SNP G G A rs63749091 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 133.0 61.0 107.0 0.0 0.458647 0 G|0.968;A|0.032 0.032 strong . AKIRIN2 13 . NM_018064 exon4 c.C600T p.S200S CTTACAGCTAGCA . PASS Atlas-SNP TOX 9760 hgsc.bcm.edu 37 8 59727966 59727966 + Missense_Mutation SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 334.0 166.0 274.0 0.0 0.497006 0 . . none . TOX 83 . NM_014729 exon7 c.G1323A p.M441I CTGCTGCATGGTG . PASS Atlas-SNP SSPO 23145 hgsc.bcm.edu 37 7 149489048 149489048 + Missense_Mutation SNP C C T rs893602 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 77.0 37.0 60.0 0.0 0.480519 0 C|0.979;T|0.021 0.021 strong . . . . NM_198455 exon35 c.C5389T p.R1797C AGCACCCGCCAGA . PASS Atlas-SNP NRIP1 8204 hgsc.bcm.edu 37 21 16337448 16337448 + Silent SNP C C A rs28707654 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 78.0 43.0 48.0 0.0 0.551282 0 C|0.978;A|0.022 0.022 strong . NRIP1 103 . NM_003489 exon4 c.G3066T p.G1022G TCTAGACCCTGCA . PASS Atlas-SNP PCNXL4 64430 hgsc.bcm.edu 37 14 60585282 60585282 + Missense_Mutation SNP G G A rs144345462 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 323.0 148.0 294.0 1.0 0.458204 0.00340136 G|0.991;A|0.009 0.009 strong . . . . NM_022495 exon6 c.G1112A p.R371Q TTCCCCGACCTAT . PASS Atlas-SNP KCNK17 89822 hgsc.bcm.edu 37 6 39267315 39267315 + Missense_Mutation SNP C C T rs2758910 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 165.0 80.0 151.0 0.0 0.484848 0 C|0.989;T|0.011 0.011 strong KCNK17,NS,carcinoma,-1,1 KCNK17 61 1 NM_031460 exon5 c.G887A p.R296Q GGCTCCCGGTCAG . PASS Atlas-SNP DNAH1 25981 hgsc.bcm.edu 37 3 52365223 52365223 + Missense_Mutation SNP G G A rs55931436 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 194.0 91.0 150.0 0.0 0.469072 0 G|0.984;A|0.016 0.016 strong . DNAH1 534 . NM_015512 exon7 c.G931A p.D311N GACTACGACGAGG . PASS Atlas-SNP OGFOD1 55239 hgsc.bcm.edu 37 16 56496469 56496469 + Missense_Mutation SNP G G A rs147797412 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 56.0 27.0 95.0 0.0 0.482143 0 G|1.000;A|0.000 0.000 weak . OGFOD1 31 . NM_018233 exon4 c.G371A p.R124Q ATTTCCGGTCCTG . PASS Atlas-SNP MUC5B 727897 hgsc.bcm.edu 37 11 1272246 1272246 + Silent SNP G G A rs115045504 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 520.0 253.0 551.0 2.0 0.486538 0.00362976 G|0.988;A|0.012 0.012 strong MUC5B,colon,carcinoma,+1,2 MUC5B 473 2 NM_002458 exon31 c.G14136A p.T4712T CAGCACGGCCACC . PASS Atlas-SNP ZNF799 90576 hgsc.bcm.edu 37 19 12502155 12502155 + Missense_Mutation SNP T T G rs201335235 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 111.0 8.0 91.0 0.0 0.0720721 0 . . weak . ZNF799 111 . NM_001080821 exon4 c.A1057C p.K353Q GACTTTTCAGTGA . PASS Atlas-SNP UQCC 55245 hgsc.bcm.edu 37 20 33971876 33971876 + Missense_Mutation SNP T T C rs114745625 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 218.0 104.0 217.0 0.0 0.477064 0 T|0.997;C|0.003 0.003 strong . UQCC 41 . NM_018244 exon3 c.A190G p.I64V GCTGTATGTCTAT . PASS Atlas-SNP LOXHD1 125336 hgsc.bcm.edu 37 18 44157797 44157797 + Silent SNP G G T rs112463030 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 95.0 49.0 81.0 0.0 0.515789 0 G|0.994;T|0.006 0.006 strong . LOXHD1 367 . NM_144612 exon14 c.C1843A p.R615R CATTCCGCATGGT . PASS Atlas-SNP TTN 7273 hgsc.bcm.edu 37 2 179430224 179430224 + Missense_Mutation SNP G G T rs79926414 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 151.0 90.0 199.0 1.0 0.596026 0.00502513 G|0.976;T|0.024 0.024 strong . TTN 18412 . NM_001267550 exon326 c.C80635A p.Q26879K TAGGCTGTATAGT . PASS Atlas-SNP FOXRED2 80020 hgsc.bcm.edu 37 22 36886178 36886178 + Silent SNP A A G rs73409777 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 81.0 39.0 68.0 0.0 0.481481 0 A|0.975;G|0.025 0.025 strong . FOXRED2 48 . NM_001102371 exon9 c.T1932C p.Y644Y GGGGGCATAGTCC . PASS Atlas-SNP IPO13 9670 hgsc.bcm.edu 37 1 44422367 44422367 + Silent SNP A A G rs36061711 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 164.0 83.0 129.0 0.0 0.506098 0 A|0.964;G|0.036 0.036 strong . IPO13 86 . NM_014652 exon4 c.A1098G p.T366T GTACACACTGCAG . PASS Atlas-SNP SPAG8 26206 hgsc.bcm.edu 37 9 35811749 35811749 + Silent SNP C C T rs79261709 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 44.0 80.0 0.0 0.578947 0 C|0.988;T|0.012 0.012 strong . SPAG8 67 . NM_001039592 exon2 c.G294A p.A98A GGGTCCCGCACAG . PASS Atlas-SNP CPPED1 55313 hgsc.bcm.edu 37 16 12798724 12798724 + Missense_Mutation SNP C C T rs145004672 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 83.0 45.0 94.0 1.0 0.542169 0.0106383 C|0.988;T|0.012 0.012 strong CPPED1,rectum,carcinoma,0,1 CPPED1 41 1 NM_018340 exon3 c.G472A p.V158I ACAGGACGCCCCC . scavenged Atlas-SNP ABCB8 11194 hgsc.bcm.edu 37 7 150730712 150730712 + Missense_Mutation SNP G G A rs6975981 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 107.0 49.0 118.0 0.0 0.457944 0 G|0.973;A|0.027 0.027 strong . ABCB8 65 . NM_007188 exon2 c.G116A p.S39N ACCGCAGCTCCTC . PASS Atlas-SNP SYNE2 23224 hgsc.bcm.edu 37 14 64461914 64461914 + Silent SNP A A G rs34001379 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 158.0 78.0 171.0 0.0 0.493671 0 A|0.995;G|0.005 0.005 strong SYNE2,rectum,carcinoma,+2,1 SYNE2 577 1 NM_182914 exon23 c.A2934G p.E978E CAAAGAACATGAG . PASS Atlas-SNP ERO1L 30001 hgsc.bcm.edu 37 14 53133134 53133134 + Silent SNP A A G rs34388088 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 199.0 84.0 230.0 0.0 0.422111 0 A|0.985;G|0.015 0.015 strong . ERO1L 35 . NM_014584 exon7 c.T588C p.A196A TTTCCAAGCATCT . PASS Atlas-SNP KLC3 147700 hgsc.bcm.edu 37 19 45848946 45848946 + Silent SNP G G A rs114640964 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 42.0 22.0 42.0 0.0 0.52381 0 G|0.990;A|0.010 0.010 strong . KLC3 37 . NM_177417 exon2 c.G147A p.A49A CCTGGCGGAGGCC . PASS Atlas-SNP KALRN 8997 hgsc.bcm.edu 37 3 124374487 124374487 + Silent SNP T T C rs55750661 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 140.0 67.0 138.0 0.0 0.478571 0 T|0.998;C|0.002 0.002 strong . KALRN 556 . NM_001024660 exon39 c.T5832C p.Y1944Y AGACTATGTCAAG . PASS Atlas-SNP KIAA0226L 80183 hgsc.bcm.edu 37 13 46919719 46919719 + Missense_Mutation SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 47.0 25.0 48.0 0.0 0.531915 0 . . none . KIAA0226L 63 . NM_025113 exon13 c.G1648A p.E550K CCTGCTCGAACTC . PASS Atlas-SNP TREM1 54210 hgsc.bcm.edu 37 6 41243926 41243926 + Missense_Mutation SNP G G C rs2234245 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 102.0 48.0 90.0 0.0 0.470588 0 G|0.979;C|0.021 0.021 strong . TREM1 38 . NM_018643 exon4 c.C642G p.F214L ACTCAGGAATCCA . PASS Atlas-SNP PTX4 390667 hgsc.bcm.edu 37 16 1536117 1536117 + Silent SNP G G A rs58192896 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 79.0 36.0 73.0 0.0 0.455696 0 G|0.941;A|0.059 0.059 strong . PTX4 46 . NM_001013658 exon3 c.C1245T p.F415F CCCCACGAAGGCC . PASS Atlas-SNP MYO18B 84700 hgsc.bcm.edu 37 22 26168333 26168333 + Silent SNP C C T rs185388626 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 94.0 53.0 82.0 0.0 0.56383 0 C|0.998;T|0.002 0.002 strong . MYO18B 322 . NM_032608 exon7 c.C1725T p.D575D CGAGGACCTGGCC . PASS Atlas-SNP LTF 4057 hgsc.bcm.edu 37 3 46501308 46501308 + Silent SNP T T C rs61740461 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 120.0 65.0 135.0 0.0 0.541667 0 T|0.931;C|0.069 0.069 strong . LTF 98 . NM_002343 exon2 c.A45G p.G15G ACACAGTCCTGGG . PASS Atlas-SNP ULK1 8408 hgsc.bcm.edu 37 12 132404110 132404110 + Silent SNP C C T rs113954208 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 69.0 41.0 90.0 0.0 0.594203 0 C|0.994;T|0.006 0.006 strong . ULK1 92 . NM_003565 exon25 c.C2778T p.L926L CAAGCTCTGCCTG . PASS Atlas-SNP MUC16 94025 hgsc.bcm.edu 37 19 8996460 8996460 + Missense_Mutation SNP A A C rs115933306 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 170.0 170.0 204.0 0.0 1 0 A|0.974;C|0.026 0.026 strong . MUC16 4315 . NM_024690 exon61 c.T41112G p.D13704E GATGGCATCCACT . PASS Atlas-SNP CXCR2 3579 hgsc.bcm.edu 37 2 218999798 218999798 + Silent SNP T T C rs142747099 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 238.0 109.0 249.0 1.0 0.457983 0.00401606 T|0.999;C|0.001 0.001 strong . CXCR2 54 . NM_001168298 exon4 c.T274C p.L92L CTAGCCTTGGCCG . PASS Atlas-SNP PPP1R3F 89801 hgsc.bcm.edu 37 X 49142987 49142987 + Missense_Mutation SNP C C T rs372361395 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 110.0 54.0 89.0 0.0 0.490909 0 . . weak . PPP1R3F 56 . NM_033215 exon4 c.C1835T p.T612M TAGCCACGATGGG . PASS Atlas-SNP ADAMTS1 9510 hgsc.bcm.edu 37 21 28214238 28214238 + Silent SNP T T C rs77718820 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 131.0 67.0 146.0 0.0 0.51145 0 T|0.990;C|0.010 0.010 strong . ADAMTS1 131 . NM_006988 exon3 c.A1149G p.R383R GCAGCTTCTGCTC . PASS Atlas-SNP NWD1 284434 hgsc.bcm.edu 37 19 16860001 16860001 + Missense_Mutation SNP A A T rs76739123 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 143.0 79.0 115.0 0.0 0.552448 0 A|0.975;T|0.025 0.025 strong . NWD1 303 . NM_001007525 exon6 c.A548T p.Q183L GGGAACAGGGAGC . PASS Atlas-SNP ZNF286B 729288 hgsc.bcm.edu 37 17 18566386 18566386 + Missense_Mutation SNP G G A rs143643706 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 353.0 137.0 390.0 0.0 0.388102 0 G|0.945;A|0.055 0.055 strong . ZNF286B 75 . NM_001145045 exon5 c.C433T p.R145W TATTCCGTGTCAG . PASS Atlas-SNP KRTAP27-1 643812 hgsc.bcm.edu 37 21 31709935 31709935 + Missense_Mutation SNP G G A rs149814034 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 211.0 94.0 192.0 0.0 0.445498 0 G|0.997;A|0.003 0.003 strong . KRTAP27-1 53 . NM_001077711 exon1 c.C52T p.L18F CAGAGAGTGGTGG . PASS Atlas-SNP KRTAP19-6 337973 hgsc.bcm.edu 37 21 31914019 31914019 + Missense_Mutation SNP C C T rs77807247 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 97.0 43.0 94.0 0.0 0.443299 0 C|0.969;T|0.031 0.031 strong . KRTAP19-6 16 . NM_181612 exon1 c.G134A p.R45H GATGGGCGGCAGC . PASS Atlas-SNP PCSK5 5125 hgsc.bcm.edu 37 9 78506181 78506181 + Silent SNP C C A rs34813806 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 104.0 77.0 74.0 0.0 0.740385 0 C|0.990;A|0.010 0.010 strong . PCSK5 329 . NM_006200 exon1 c.C84A p.P28P GCTCCCCGTGTGT . PASS Atlas-SNP VNN1 8876 hgsc.bcm.edu 37 6 133013576 133013576 + Missense_Mutation SNP G G T rs34535050 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 67.0 33.0 63.0 0.0 0.492537 0 G|0.975;T|0.025 0.025 strong . VNN1 69 . NM_004666 exon5 c.C974A p.A325E GAGAGCGCTTCTA . PASS Atlas-SNP PDE4C 5143 hgsc.bcm.edu 37 19 18330144 18330144 + Missense_Mutation SNP C C T rs34503849 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 94.0 55.0 81.0 0.0 0.585106 0 C|0.982;T|0.018 0.018 strong . PDE4C 80 . NM_000923 exon9 c.G866A p.R289Q CTGATCCGGGACA . PASS Atlas-SNP PAN3 255967 hgsc.bcm.edu 37 13 28750683 28750683 + Silent SNP A A G rs142608239 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 123.0 72.0 86.0 0.0 0.585366 0 A|0.995;G|0.005 0.005 strong . PAN3 123 . NM_175854 exon3 c.A606G p.P202P CAAGCCATATTCA . PASS Atlas-SNP ECHDC3 79746 hgsc.bcm.edu 37 10 11797484 11797484 + Silent SNP A A G rs34878615 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 53.0 104.0 0.0 0.53 0 A|0.981;G|0.019 0.019 strong . ECHDC3 12 . NM_024693 exon4 c.A468G p.Q156Q CTGTCAACTGGTT . PASS Atlas-SNP GPD2 2820 hgsc.bcm.edu 37 2 157425931 157425931 + Missense_Mutation SNP A A C rs35096779 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 120.0 55.0 85.0 0.0 0.458333 0 A|0.963;C|0.037 0.037 strong . GPD2 59 . NM_001083112 exon11 c.A1357C p.K453Q GCTGTCAAAACTC . PASS Atlas-SNP HEPACAM 220296 hgsc.bcm.edu 37 11 124794763 124794763 + Silent SNP T T G rs36089266 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 111.0 57.0 127.0 0.0 0.513514 0 T|0.994;G|0.006 0.006 strong HEPACAM,NS,carcinoma,-1,4 HEPACAM 64 4 NM_152722 exon2 c.A288C p.R96R ACGGTCTCGATAG . PASS Atlas-SNP BCAT1 586 hgsc.bcm.edu 37 12 25031515 25031515 + Silent SNP T T C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 106.0 9.0 112.0 0.0 0.0849057 0 . . none . BCAT1 44 . NM_001178093 exon5 c.A495G p.P165P TGAATATGGGACC . PASS Atlas-SNP CST4 1472 hgsc.bcm.edu 37 20 23669488 23669488 + Missense_Mutation SNP T T C rs73902130 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 274.0 144.0 217.0 0.0 0.525547 0 T|0.964;C|0.036 0.036 strong CST4,colon,carcinoma,-1,1 CST4 37 1 NM_001899 exon1 c.A119G p.N40S TCATCATTGAGGT . PASS Atlas-SNP ENPP2 5168 hgsc.bcm.edu 37 8 120575112 120575112 + Silent SNP G G A rs61740048 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 121.0 61.0 101.0 0.0 0.504132 0 G|0.997;A|0.003 0.003 strong ENPP2_ENST00000522826,colon,carcinoma,0,7 ENPP2 254 7 NM_006209 exon25 c.C2562T p.N854N CTCCTCGTTGTCA . PASS Atlas-SNP ALK 238 hgsc.bcm.edu 37 2 29445425 29445425 + Silent SNP G G A rs56146053 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 138.0 57.0 125.0 0.0 0.413043 0 G|0.970;A|0.030 0.030 strong ALK,colon,carcinoma,0,1 ALK 533 1 NM_004304 exon21 c.C3408T p.S1136S CATTCCGGACACC . PASS Atlas-SNP TMEM132B 114795 hgsc.bcm.edu 37 12 125900104 125900104 + Silent SNP A A T rs143188464 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 156.0 81.0 157.0 0.0 0.519231 0 A|0.994;T|0.006 0.006 strong . TMEM132B 207 . NM_052907 exon3 c.A972T p.I324I GAAGATAACGGCA . PASS Atlas-SNP CYFIP2 26999 hgsc.bcm.edu 37 5 156742033 156742033 + Silent SNP C C T rs17054446 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 104.0 49.0 116.0 0.0 0.471154 0 C|0.993;T|0.007 0.007 strong . CYFIP2 354 . NM_001037332 exon13 c.C1287T p.G429G TCCTGGCACCGCG . PASS Atlas-SNP BTK 695 hgsc.bcm.edu 37 X 100617218 100617218 + Silent SNP A A G rs148358153 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 101.0 46.0 126.0 0.0 0.455446 0 A|0.993;G|0.007 0.007 strong . BTK 87 . NM_000061 exon7 c.T531C p.P177P ACTCCCAGGTTTT . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195513425 195513425 + Missense_Mutation SNP C C G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 468.0 61.0 523.0 0.0 0.130342 0 . . none MUC4_ENST00000463781,rectum,carcinoma,0,1 MUC4 1505 1 NM_018406 exon2 c.G5026C p.G1676R CGTGACCGGTGGA . scavenged Atlas-SNP KRTAP10-12 386685 hgsc.bcm.edu 37 21 46117746 46117746 + Silent SNP C C T rs112431728 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 81.0 44.0 83.0 0.0 0.54321 0 C|0.994;T|0.006 0.006 strong . KRTAP10-12 21 . NM_198699 exon1 c.C630T p.P210P CGTGCCCGTCCCC . PASS Atlas-SNP NIPBL 25836 hgsc.bcm.edu 37 5 36986297 36986297 + Silent SNP A A G rs1669445 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 45.0 22.0 33.0 0.0 0.488889 0 A|0.961;G|0.039 0.039 strong . NIPBL 513 . NM_015384 exon10 c.A3015G p.L1005L TGTGCTACAAAAA . PASS Atlas-SNP KPRP 448834 hgsc.bcm.edu 37 1 152732998 152732998 + Missense_Mutation SNP C C T rs140912923 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 110.0 55.0 72.0 0.0 0.5 0 C|0.994;T|0.006 0.006 strong KPRP,NS,carcinoma,0,3 KPRP 152 3 NM_001025231 exon2 c.C934T p.R312C CCTCGCCGCCCCA . PASS Atlas-SNP COL6A5 256076 hgsc.bcm.edu 37 3 130095598 130095598 + Missense_Mutation SNP A A G rs115250607 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 175.0 73.0 165.0 0.0 0.417143 0 A|0.983;G|0.017 0.017 strong . COL6A5 205 . NM_153264 exon3 c.A586G p.S196G GACCTCAGCACAT . PASS Atlas-SNP GPKOW 27238 hgsc.bcm.edu 37 X 48970655 48970655 + Silent SNP C C T rs34057359 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 207.0 102.0 231.0 0.0 0.492754 0 C|0.873;T|0.127 0.127 strong . GPKOW 38 . NM_015698 exon11 c.G1335A p.R445R CAAAGCCCGGCTC . PASS Atlas-SNP POC5 134359 hgsc.bcm.edu 37 5 75001590 75001590 + Missense_Mutation SNP T T A rs77025299 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 55.0 19.0 67.0 0.0 0.345455 0 T|0.965;A|0.035 0.035 strong . POC5 82 . NM_001099271 exon4 c.A246T p.E82D TGCAGTTTCTCTT . PASS Atlas-SNP PTGIR 5739 hgsc.bcm.edu 37 19 47124742 47124742 + Missense_Mutation SNP G G C rs28590598 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 115.0 59.0 114.0 0.0 0.513043 0 G|0.973;C|0.027 0.027 strong . PTGIR 31 . NM_000960 exon3 c.C956G p.S319W GTCTGCGAGTCTC . PASS Atlas-SNP SOWAHC 65124 hgsc.bcm.edu 37 2 110372688 110372688 + Missense_Mutation SNP C C G rs72938294 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 83.0 40.0 68.0 0.0 0.481928 0 C|0.983;G|0.017 0.017 strong . . . . NM_023016 exon1 c.C622G p.L208V CGTGACCTGGTGA . PASS Atlas-SNP UCP3 7352 hgsc.bcm.edu 37 11 73717263 73717263 + Silent SNP G G A rs2229706 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 70.0 39.0 66.0 0.0 0.557143 0 G|0.991;A|0.009 0.009 strong . UCP3 31 . NM_003356 exon3 c.C288T p.I96I GAGGCCGATGCGG . PASS Atlas-SNP DPY19L4 286148 hgsc.bcm.edu 37 8 95746883 95746883 + Silent SNP G G A rs113391412 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 114.0 67.0 90.0 0.0 0.587719 0 G|0.988;A|0.012 0.012 strong . DPY19L4 60 . NM_181787 exon3 c.G153A p.K51K TGCAAAGATTTTC . PASS Atlas-SNP LRRC73 221424 hgsc.bcm.edu 37 6 43475195 43475195 + Silent SNP G G A rs61746927 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 52.0 25.0 50.0 0.0 0.480769 0 G|0.980;A|0.020 0.020 strong . . . . NM_001012974 exon5 c.C879T p.S293S CTTACCGCTGGGG . PASS Atlas-SNP PER3 8863 hgsc.bcm.edu 37 1 7880585 7880585 + Silent SNP A A T rs17031601 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 213.0 113.0 183.0 0.0 0.530516 0 A|0.985;T|0.015 0.015 strong . PER3 95 . NM_016831 exon15 c.A1818T p.I606I GTCCATAGACACA . PASS Atlas-SNP MARVELD2 153562 hgsc.bcm.edu 37 5 68715576 68715576 + Missense_Mutation SNP G G A rs140764671 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 88.0 43.0 69.0 0.0 0.488636 0 G|0.995;A|0.005 0.005 strong . MARVELD2 49 . NM_001244734 exon2 c.G364A p.A122T TCTCCAGCAAGAC . PASS Atlas-SNP KRTAP10-10 353333 hgsc.bcm.edu 37 21 46057943 46057943 + Silent SNP C C T rs77446663 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 456.0 117.0 293.0 0.0 0.256579 0 C|0.982;T|0.018 0.018 strong KRTAP10-10,NS,carcinoma,+2,1 KRTAP10-10 37 1 NM_181688 exon1 c.C609T p.C203C CTGCTGCGTGCCC . PASS Atlas-SNP APP 351 hgsc.bcm.edu 37 21 27326977 27326977 + Silent SNP A A G rs45537238 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 153.0 81.0 140.0 0.0 0.529412 0 A|0.977;G|0.023 0.023 strong . APP 90 . NM_000484 exon13 c.T1614C p.Y538Y GCGCTCATAAATC . PASS Atlas-SNP PCDHA5 56143 hgsc.bcm.edu 37 5 140202418 140202418 + Missense_Mutation SNP C C A rs61735511 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 168.0 86.0 161.0 0.0 0.511905 0 C|0.940;A|0.060 0.060 strong PCDHA5_ENST00000529859,NS,carcinoma,-1,2 PCDHA5 361 2 NM_018908 exon1 c.C1058A p.T353N TAACCACCCTTTT . PASS Atlas-SNP GGN 199720 hgsc.bcm.edu 37 19 38876944 38876944 + Missense_Mutation SNP C C T rs151268424 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 32.0 10.0 33.0 0.0 0.3125 0 C|0.996;T|0.004 0.004 strong . GGN 50 . NM_152657 exon3 c.G958A p.E320K ACCCTTCGCCGTC . PASS Atlas-SNP DBH 1621 hgsc.bcm.edu 37 9 136521749 136521749 + Silent SNP G G A rs78516399 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 31.0 18.0 52.0 0.0 0.580645 0 G|0.993;A|0.007 0.007 strong . DBH 86 . NM_000787 exon10 c.G1539A p.Q513Q CCTGCAGAAGTAC . PASS Atlas-SNP OTOL1 131149 hgsc.bcm.edu 37 3 161221262 161221262 + Silent SNP T T A rs113998122 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 107.0 60.0 108.0 0.0 0.560748 0 T|0.990;A|0.010 0.010 strong . OTOL1 63 . NM_001080440 exon4 c.T966A p.T322T CCCCACTGGGAAG . PASS Atlas-SNP PROK2 60675 hgsc.bcm.edu 37 3 71821933 71821933 + Missense_Mutation SNP G G T rs60239864 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 152.0 94.0 121.0 0.0 0.618421 0 G|0.994;T|0.006 0.006 strong . PROK2 13 . NM_001126128 exon4 c.C332A p.P111Q AAGCCTGGCAGAC . PASS Atlas-SNP CCDC168 643677 hgsc.bcm.edu 37 13 103386496 103386496 + Silent SNP T T G rs7988702 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 263.0 129.0 227.0 0.0 0.490494 0 T|0.974;G|0.026 0.026 strong . . . . NM_001146197 exon4 c.A16551C p.P5517P TGACATTGGTGAA . PASS Atlas-SNP SLC22A5 6584 hgsc.bcm.edu 37 5 131729935 131729935 + Missense_Mutation SNP C C T rs11568525 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 139.0 55.0 168.0 0.0 0.395683 0 C|0.972;T|0.028 0.028 strong . SLC22A5 34 . NM_003060 exon10 c.C1645T p.P549S GAAAGGCCCACAA . PASS Atlas-SNP OBSCN 84033 hgsc.bcm.edu 37 1 228473959 228473959 + Missense_Mutation SNP T T G rs202022683 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 204.0 101.0 192.0 2.0 0.495098 0.0104167 . . weak OBSCN_ENST00000570156,NS,haematopoietic_neoplasm,0,4 OBSCN 2142 4 NM_001271223 exon39 c.T10472G p.V3491G ACCACGTGCTGAC . scavenged Atlas-SNP PLK4 10733 hgsc.bcm.edu 37 4 128808620 128808620 + Silent SNP A A T rs112831813 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 482.0 238.0 406.0 0.0 0.493776 0 A|0.993;T|0.007 0.007 strong . PLK4 65 . NM_014264 exon6 c.A1428T p.V476V AACCGTACAACAG . PASS Atlas-SNP MN1 4330 hgsc.bcm.edu 37 22 28193097 28193097 + Silent SNP C C T rs45471598 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 38.0 18.0 22.0 0.0 0.473684 0 C|0.962;T|0.038 0.038 strong MN1,colon,carcinoma,0,1 MN1 122 1 NM_002430 exon1 c.G3435A p.P1145P GGGTGGCGGGGCG . PASS Atlas-SNP DPF2 5977 hgsc.bcm.edu 37 11 65113459 65113459 + Silent SNP G G T rs61736579 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 103.0 51.0 78.0 0.0 0.495146 0 G|0.989;T|0.011 0.011 strong . DPF2 54 . NM_006268 exon8 c.G834T p.G278G CCTGGGGGACTCA . PASS Atlas-SNP ZNF98 148198 hgsc.bcm.edu 37 19 22575504 22575504 + Missense_Mutation SNP C C G rs116270361 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 287.0 152.0 280.0 0.0 0.529617 0 C|0.976;G|0.024 0.024 strong . ZNF98 230 . NM_001098626 exon4 c.G533C p.G178A TTCTTTCCAGTAT . PASS Atlas-SNP KALRN 8997 hgsc.bcm.edu 37 3 124174062 124174062 + Silent SNP C C T rs61747979 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 104.0 51.0 108.0 0.0 0.490385 0 C|0.969;T|0.031 0.031 strong . KALRN 556 . NM_003947 exon22 c.C3585T p.A1195A GCTGGCCGATAGC . PASS Atlas-SNP ADARB2 105 hgsc.bcm.edu 37 10 1405835 1405835 + Silent SNP G G A rs35398040 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 115.0 114.0 74.0 0.0 0.991304 0 G|0.981;A|0.019 0.019 strong . ADARB2 95 . NM_018702 exon3 c.C465T p.V155V CGCGAAGACCGGG . PASS Atlas-SNP SYNGR3 9143 hgsc.bcm.edu 37 16 2042086 2042086 + Missense_Mutation SNP G G A rs199784173 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 11.0 10.0 5.0 0.0 0.909091 0 G|0.994;A|0.006 0.006 strong . SYNGR3 10 . NM_004209 exon2 c.G211A p.G71S CGCTTCGGCGTCG . PASS Atlas-SNP C17orf64 124773 hgsc.bcm.edu 37 17 58506785 58506785 + Silent SNP G G T rs9913666 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 127.0 62.0 104.0 0.0 0.488189 0 G|0.912;T|0.088 0.088 strong . C17orf64 19 . NM_181707 exon5 c.G492T p.L164L CAGTCTGCCCAAG . PASS Atlas-SNP ENTPD4 9583 hgsc.bcm.edu 37 8 23299225 23299225 + Missense_Mutation SNP C C T rs34849865 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 59.0 39.0 55.0 0.0 0.661017 0 C|0.993;T|0.007 0.007 strong . ENTPD4 56 . NM_004901 exon8 c.G739A p.V247I CCACAACGGCCTC . PASS Atlas-SNP IPO13 9670 hgsc.bcm.edu 37 1 44424525 44424525 + Silent SNP G G A rs74073335 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 166.0 96.0 165.0 0.0 0.578313 0 G|0.991;A|0.009 0.009 strong . IPO13 86 . NM_014652 exon11 c.G1992A p.E664E CCCTGAGCTTCGG . PASS Atlas-SNP BAALC 79870 hgsc.bcm.edu 37 8 104240275 104240275 + Missense_Mutation SNP G G C rs34542607 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 81.0 47.0 72.0 0.0 0.580247 0 G|0.971;C|0.029 0.029 strong . BAALC 15 . NM_024812 exon3 c.G386C p.S129T CAGATAGCATCCA . PASS Atlas-SNP BHLHB9 80823 hgsc.bcm.edu 37 X 102004046 102004046 + Silent SNP G G A rs17003869 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 412.0 145.0 322.0 0.0 0.351942 0 0|0.003;A|0.015 0.015 strong . BHLHB9 60 . NM_001142530 exon2 c.G123A p.R41R GACCAGGGCCAAA . PASS Atlas-SNP ZBTB40 9923 hgsc.bcm.edu 37 1 22816687 22816687 + Silent SNP A A G rs115103344 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 122.0 62.0 107.0 0.0 0.508197 0 A|0.993;G|0.007 0.007 strong . ZBTB40 87 . NM_001083621 exon3 c.A246G p.K82K GGGCAAACTACCT . PASS Atlas-SNP FAM124A 220108 hgsc.bcm.edu 37 13 51855114 51855114 + Missense_Mutation SNP G G T rs74087446 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 111.0 51.0 113.0 0.0 0.459459 0 G|0.975;T|0.026 0.026 strong . FAM124A 61 . NM_145019 exon5 c.G1471T p.A491S CACTGGGCAGCTC . PASS Atlas-SNP TTN 7273 hgsc.bcm.edu 37 2 179560847 179560847 + Missense_Mutation SNP C C T rs73038324 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 234.0 119.0 242.0 0.0 0.508547 0 C|0.968;T|0.032 0.032 strong . TTN 18412 . NM_001267550 exon114 c.G30952A p.E10318K GTTCTTCGAAAGA . PASS Atlas-SNP UACA 55075 hgsc.bcm.edu 37 15 70968850 70968850 + Silent SNP A A G rs61741196 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 52.0 30.0 50.0 0.0 0.576923 0 A|0.989;G|0.011 0.011 strong . UACA 235 . NM_018003 exon13 c.T1113C p.N371N AAATCTATTTTTC . PASS Atlas-SNP DDX60L 91351 hgsc.bcm.edu 37 4 169342926 169342926 + Silent SNP G G A rs73863330 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 106.0 62.0 110.0 0.0 0.584906 0 G|0.994;A|0.006 0.006 strong DDX60L,NS,carcinoma,-1,1 DDX60L 116 1 NM_001012967 exon17 c.C2379T p.Y793Y TGCAACGTACACA . PASS Atlas-SNP DAW1 164781 hgsc.bcm.edu 37 2 228750106 228750106 + Missense_Mutation SNP C C T rs11894733 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 67.0 28.0 70.0 0.0 0.41791 0 C|0.939;T|0.061 0.061 strong . . . . NM_178821 exon2 c.C80T p.T27I TAAAGACTAAGTC . PASS Atlas-SNP ZBTB11 27107 hgsc.bcm.edu 37 3 101370091 101370091 + Silent SNP C C T rs34525894 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 221.0 95.0 209.0 0.0 0.429864 0 C|0.948;T|0.052 0.052 strong . ZBTB11 77 . NM_014415 exon11 c.G3081A p.Q1027Q TCCTTGCTGTTGT . PASS Atlas-SNP MCF2L 23263 hgsc.bcm.edu 37 13 113729414 113729414 + Missense_Mutation SNP C C T rs74926660 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 83.0 41.0 81.0 0.0 0.493976 0 C|0.990;T|0.010 0.010 strong . MCF2L 182 . NM_001112732 exon11 c.C1219T p.R407W GAGCTCCGGCACC . PASS Atlas-SNP SPHK2 56848 hgsc.bcm.edu 37 19 49132646 49132646 + Silent SNP G G A rs75629654 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 56.0 56.0 29.0 0.0 1 0 G|0.940;A|0.060 0.060 strong . SPHK2 62 . NM_020126 exon7 c.G1581A p.L527L CCCGCTGCCCCCA . PASS Atlas-SNP GRIK5 2901 hgsc.bcm.edu 37 19 42560893 42560893 + Missense_Mutation SNP G G A rs139340543 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 122.0 54.0 126.0 0.0 0.442623 0 G|0.999;A|0.001 0.001 strong . GRIK5 220 . NM_002088 exon7 c.C824T p.P275L TAGAAGGGGTGGG . PASS Atlas-SNP MST1L 11223 hgsc.bcm.edu 37 1 17087509 17087509 + Silent SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 896.0 71.0 713.0 0.0 0.0792411 0 . . none . . . . NM_001271733 exon2 c.G156A p.Q52Q ATCCTCCTGCCAA . PASS Atlas-SNP TAF1 6872 hgsc.bcm.edu 37 X 70627477 70627477 + Silent SNP G G A rs7050748 bycluster;byfrequency;by2hit2allele;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 316.0 136.0 316.0 0.0 0.43038 0 0|0.003;A|0.098 0.098 strong . TAF1 439 . NM_004606 exon27 c.G4221A p.S1407S GCTGTCGTCCATC . PASS Atlas-SNP KIT 3815 hgsc.bcm.edu 37 4 55602765 55602765 + Silent SNP G G C rs3733542 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 95.0 31.0 106.0 0.0 0.326316 0 G|0.828;C|0.172 0.172 strong KIT,colon,carcinoma,0,10 KIT 7396 10 NM_000222 exon18 c.G2586C p.L862L GGAGCTGTTCTCT . PASS Atlas-SNP ZNF74 7625 hgsc.bcm.edu 37 22 20760106 20760106 + Silent SNP C C T rs2229316 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 42.0 42.0 39.0 0.0 1 0 C|0.982;T|0.018 0.018 strong . ZNF74 54 . NM_003426 exon5 c.C783T p.S261S GAGCTCCTCCCTC . PASS Atlas-SNP PLEKHA5 54477 hgsc.bcm.edu 37 12 19440471 19440471 + Missense_Mutation SNP A A G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 160.0 83.0 175.0 0.0 0.51875 0 . . none . PLEKHA5 198 . NM_001256470 exon13 c.A1844G p.Q615R GTCCCCAGAGCCT . PASS Atlas-SNP C3orf43 255798 hgsc.bcm.edu 37 3 196234777 196234777 + Missense_Mutation SNP A A G rs187809363 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 208.0 97.0 187.0 0.0 0.466346 0 A|0.999;G|0.001 0.001 strong C3orf43,NS,malignant_melanoma,+1,1 C3orf43 25 1 NM_001077657 exon3 c.T626C p.I209T GATGGTATCAACT . PASS Atlas-SNP DNA2 1763 hgsc.bcm.edu 37 10 70218890 70218890 + Silent SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 103.0 5.0 91.0 0.0 0.0485437 0 . . none DNA2L,NS,carcinoma,-1,4 DNA2 76 4 NM_001080449 exon5 c.G690A p.S230S GTCAGTCGAAGTG . PASS Atlas-SNP C5orf42 65250 hgsc.bcm.edu 37 5 37173977 37173977 + Silent SNP A A G rs61746147 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 90.0 43.0 85.0 0.0 0.477778 0 A|0.974;G|0.026 0.026 strong . C5orf42 422 . NM_023073 exon32 c.T6051C p.A2017A TTGTGAAGCAACA . PASS Atlas-SNP GSN 2934 hgsc.bcm.edu 37 9 124091256 124091256 + Missense_Mutation SNP G G T rs9696578 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 49.0 25.0 38.0 0.0 0.510204 0 G|0.993;T|0.007 0.007 strong . GSN 81 . NM_000177 exon14 c.G2003T p.R668L CTCCTCGCCTCTT . PASS Atlas-SNP KRT73 319101 hgsc.bcm.edu 37 12 53005004 53005004 + Missense_Mutation SNP T T C rs607426 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 211.0 97.0 218.0 0.0 0.459716 0 T|0.980;C|0.020 0.020 strong . KRT73 101 . NM_175068 exon6 c.A1094G p.E365G ACACTCTCAATCT . PASS Atlas-SNP TM7SF3 51768 hgsc.bcm.edu 37 12 27148324 27148324 + Missense_Mutation SNP G G C rs34735713 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 119.0 61.0 80.0 0.0 0.512605 0 G|0.971;C|0.029 0.029 strong . TM7SF3 41 . NM_016551 exon5 c.C536G p.P179R TCACATGGTGGGG . PASS Atlas-SNP SPATC1L 84221 hgsc.bcm.edu 37 21 47581508 47581508 + Missense_Mutation SNP C C A rs74518516 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 99.0 57.0 67.0 0.0 0.575758 0 C|0.971;A|0.029 0.029 strong . . . . NM_001142854 exon5 c.G808T p.V270L GGTGCACGTCGCG . PASS Atlas-SNP SSBP3 23648 hgsc.bcm.edu 37 1 54747176 54747176 + Missense_Mutation SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 105.0 35.0 80.0 0.0 0.333333 0 . . none . SSBP3 65 . NM_145716 exon5 c.G301A p.V101M CAAGCACGGGGCT . PASS Atlas-SNP AKNA 80709 hgsc.bcm.edu 37 9 117129921 117129921 + Missense_Mutation SNP G G C rs62640865 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 32.0 72.0 0.0 0.421053 0 G|0.957;C|0.043 0.043 strong . AKNA 119 . NM_030767 exon6 c.C1630G p.L544V ACCCCAGGGTGGG . PASS Atlas-SNP TSSK1B 83942 hgsc.bcm.edu 37 5 112770054 112770054 + Silent SNP G G A rs111560230 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 80.0 36.0 81.0 0.0 0.45 0 G|0.500;A|0.500 0.500 strong . TSSK1B 89 . NM_032028 exon1 c.C483T p.C161C CCGCAGGCAGCGC . PASS Atlas-SNP MBOAT4 619373 hgsc.bcm.edu 37 8 29990075 29990075 + Missense_Mutation SNP C C T rs16876563 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 136.0 64.0 125.0 0.0 0.470588 0 C|0.952;T|0.048 0.048 strong MBOAT4_ENST00000320542,NS,carcinoma,+1,1 MBOAT4 31 1 NM_001100916 exon3 c.G692A p.G231E GTCAGTCCCGCTC . PASS Atlas-SNP MACC1 346389 hgsc.bcm.edu 37 7 20199835 20199835 + Missense_Mutation SNP G G A rs17142503 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 69.0 36.0 56.0 0.0 0.521739 0 G|0.982;A|0.018 0.018 strong MACC1,colon,carcinoma,-1,1 MACC1 99 1 NM_182762 exon5 c.C149T p.P50L GCATCCGGCCAAT . PASS Atlas-SNP COBL 23242 hgsc.bcm.edu 37 7 51096992 51096992 + Missense_Mutation SNP G G A rs61737866 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 249.0 112.0 207.0 0.0 0.449799 0 G|0.974;A|0.026 0.026 strong . COBL 167 . NM_015198 exon10 c.C1801T p.H601Y CGGGGTGCAGGGC . PASS Atlas-SNP C1orf177 163747 hgsc.bcm.edu 37 1 55272743 55272743 + Missense_Mutation SNP A A G rs115158797 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 159.0 78.0 157.0 0.0 0.490566 0 A|0.989;G|0.011 0.011 strong . C1orf177 36 . NM_001110533 exon2 c.A179G p.Y60C CGCGTTATTCTAC . PASS Atlas-SNP TBC1D17 79735 hgsc.bcm.edu 37 19 50386253 50386253 + Silent SNP C C T rs61741174 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 113.0 62.0 99.0 0.0 0.548673 0 C|0.989;T|0.011 0.011 strong . TBC1D17 39 . NM_024682 exon9 c.C951T p.R317R GCGGCGCGAGGCC . PASS Atlas-SNP CDK6 1021 hgsc.bcm.edu 37 7 92462572 92462572 + Silent SNP G G A rs189208543 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 94.0 45.0 67.0 0.0 0.478723 0 G|0.998;A|0.002 0.002 strong . CDK6 30 . NM_001259 exon2 c.C66T p.G22G ATAGGCGCCCTCC . PASS Atlas-SNP OR8H2 390151 hgsc.bcm.edu 37 11 55873401 55873401 + Missense_Mutation SNP A A G rs115405120 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 111.0 61.0 121.0 0.0 0.54955 0 A|0.991;G|0.009 0.009 strong . OR8H2 117 . NM_001005200 exon1 c.A883G p.K295E AGAAACAAAGAGG . PASS Atlas-SNP RGS14 10636 hgsc.bcm.edu 37 5 176798996 176798996 + Missense_Mutation SNP G G A rs149981884 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 80.0 44.0 66.0 0.0 0.55 0 G|0.995;A|0.005 0.005 strong . RGS14 34 . NM_006480 exon15 c.G1621A p.E541K AGCTCCGAGGAGA . PASS Atlas-SNP POTEG 404785 hgsc.bcm.edu 37 14 19553494 19553494 + Missense_Mutation SNP G G C rs200256710 byfrequency;alternate_allele TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 2158.0 285.0 1363.0 1.0 0.132067 0.000733676 G|0.996;A|0.004 . alt POTEG,NS,carcinoma,0,1 POTEG 118 1 NM_001005356 exon1 c.G78C p.K26N GGGCAAGTGGTGC . scavenged Atlas-SNP CLU 1191 hgsc.bcm.edu 37 8 27457507 27457507 + Silent SNP G G C rs9331937 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 86.0 38.0 84.0 0.0 0.44186 0 G|0.973;C|0.027 0.027 strong . CLU 54 . NM_001831 exon7 c.C954G p.P318P CTGGGAGGGGTTG . PASS Atlas-SNP ZBTB42 100128927 hgsc.bcm.edu 37 14 105268701 105268701 + Silent SNP G G A rs61734768 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 97.0 50.0 89.0 0.0 0.515464 0 G|0.959;A|0.041 0.041 strong . ZBTB42 10 . NM_001137601 exon2 c.G1167A p.P389P GAAGCCGCATGCC . PASS Atlas-SNP ZNF689 115509 hgsc.bcm.edu 37 16 30616488 30616488 + Silent SNP G G A rs9937653 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 120.0 51.0 125.0 0.0 0.425 0 G|0.972;A|0.028 0.028 strong . ZNF689 48 . NM_138447 exon3 c.C600T p.S200S CTCGCCGGAGTGT . PASS Atlas-SNP EXOC8 149371 hgsc.bcm.edu 37 1 231472916 231472916 + Silent SNP G G A rs73116365 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 108.0 53.0 95.0 0.0 0.490741 0 G|0.983;A|0.017 0.017 strong . EXOC8 42 . NM_175876 exon1 c.C576T p.Y192Y CGCATCGTATTCC . PASS Atlas-SNP MMP13 4322 hgsc.bcm.edu 37 11 102818662 102818662 + Missense_Mutation SNP T T C rs17860568 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 89.0 32.0 85.0 0.0 0.359551 0 T|0.991;C|0.009 0.009 strong . MMP13 75 . NM_002427 exon8 c.A1169G p.D390G CCTGTATCCTCAA . PASS Atlas-SNP LRIT2 340745 hgsc.bcm.edu 37 10 85982075 85982075 + Silent SNP A A G rs7901410 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 78.0 41.0 56.0 0.0 0.525641 0 A|0.945;G|0.055 0.055 strong . LRIT2 81 . NM_001017924 exon3 c.T1254C p.Y418Y CACAGCATAAGTA . PASS Atlas-SNP MBTPS1 8720 hgsc.bcm.edu 37 16 84097021 84097021 + Missense_Mutation SNP C C G rs35417190 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 120.0 53.0 123.0 0.0 0.441667 0 C|0.997;G|0.003 0.003 strong . MBTPS1 85 . NM_003791 exon19 c.G2461C p.V821L CAACAACTGCTGT . PASS Atlas-SNP MYO10 4651 hgsc.bcm.edu 37 5 16754991 16754991 + Silent SNP C C T rs61736777 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 78.0 33.0 71.0 0.0 0.423077 0 C|0.973;T|0.027 0.027 strong . MYO10 198 . NM_012334 exon19 c.G1875A p.T625T GCTTAGCGTTGCC . PASS Atlas-SNP PRF1 5551 hgsc.bcm.edu 37 10 72358407 72358407 + Missense_Mutation SNP C C T rs140787739 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 68.0 35.0 74.0 0.0 0.514706 0 C|0.999;T|0.001 0.001 strong PRF1,caecum,carcinoma,-1,1 PRF1 64 1 NM_001083116 exon3 c.G1070A p.R357Q GCCTCCCGCCGCG . PASS Atlas-SNP LRRC56 115399 hgsc.bcm.edu 37 11 549949 549949 + Missense_Mutation SNP G G A rs371135949 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 75.0 27.0 79.0 0.0 0.36 0 . . weak . LRRC56 23 . NM_198075 exon7 c.G374A p.R125H TGGCTCGCTGTGG . PASS Atlas-SNP MAGI3 260425 hgsc.bcm.edu 37 1 113933814 113933814 + Silent SNP C C T rs182574963 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 35.0 26.0 26.0 0.0 0.742857 0 C|0.994;T|0.006 0.006 strong . MAGI3 181 . NM_152900 exon1 c.C159T p.G53G GCCCGGCGGGGGC . PASS Atlas-SNP RBMXL1 494115 hgsc.bcm.edu 37 1 89449168 89449168 + Silent SNP T T A rs59048247 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 338.0 150.0 394.0 0.0 0.443787 0 T|0.940;A|0.060 0.060 strong . . . . NM_001162536 exon3 c.A342T p.G114G ACTTCCTCCTCTT . PASS Atlas-SNP IFNA4 3441 hgsc.bcm.edu 37 9 21187146 21187146 + Missense_Mutation SNP C C T rs201186279 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 736.0 68.0 513.0 2.0 0.0923913 0.00389864 . . weak IFNA4,NS,carcinoma,0,1 IFNA4 34 1 NM_021068 exon1 c.G385A p.V129M CTTCCACCCCAAC . scavenged Atlas-SNP YTHDC2 64848 hgsc.bcm.edu 37 5 112871458 112871458 + Silent SNP C C G rs77052070 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 109.0 41.0 96.0 0.0 0.376147 0 C|0.984;G|0.016 0.016 strong . YTHDC2 118 . NM_022828 exon7 c.C1065G p.L355L AAATCTCTTTATA . PASS Atlas-SNP NOL8 55035 hgsc.bcm.edu 37 9 95076833 95076833 + Missense_Mutation SNP C C G rs373764183 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 97.0 65.0 76.0 0.0 0.670103 0 . . weak . NOL8 118 . NM_017948 exon7 c.G2074C p.G692R CAAAGCCTATGTT . PASS Atlas-SNP KRTAP9-9 81870 hgsc.bcm.edu 37 17 39412125 39412125 + Missense_Mutation SNP G G C rs144403228 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 263.0 129.0 262.0 1.0 0.490494 0.00381679 G|0.987;C|0.013 0.013 strong . KRTAP9-9 24 . NM_030975 exon1 c.G488C p.C163S CCAGCTGCTGCCA . PASS Atlas-SNP IKBKE 9641 hgsc.bcm.edu 37 1 206666601 206666601 + Silent SNP C C A rs144382861 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 95.0 47.0 93.0 0.0 0.494737 0 C|0.999;A|0.001 0.001 strong . IKBKE 77 . NM_014002 exon20 c.C1935A p.L645L GCAGCTCCTGGAA . PASS Atlas-SNP MYO7B 4648 hgsc.bcm.edu 37 2 128367433 128367433 + Missense_Mutation SNP G G A rs61741454 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 203.0 105.0 207.0 1.0 0.517241 0.00483092 G|0.993;A|0.007 0.007 strong . MYO7B 359 . NM_001080527 exon24 c.G3034A p.V1012I GCCCTGGTCATAT . PASS Atlas-SNP CLU 1191 hgsc.bcm.edu 37 8 27468005 27468005 + Silent SNP G G A rs9331892 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 138.0 53.0 116.0 0.0 0.384058 0 G|0.944;A|0.056 0.056 strong . CLU 54 . NM_001831 exon2 c.C84T p.D28D CTCATTGTCTGAG . PASS Atlas-SNP INF2 64423 hgsc.bcm.edu 37 14 105180977 105180977 + Missense_Mutation SNP G G A rs9672065 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 39.0 26.0 44.0 0.0 0.666667 0 G|0.978;A|0.022 0.022 strong . INF2 148 . NM_022489 exon21 c.G3478A p.G1160S AGCCGTGGTGCCA . PASS Atlas-SNP TTC4 7268 hgsc.bcm.edu 37 1 55197320 55197320 + Silent SNP G G A rs1062700 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 29.0 83.0 0.0 0.381579 0 G|0.946;A|0.054 0.054 strong . TTC4 21 . NM_004623 exon7 c.G843A p.L281L CTTTCTGTACCCA . PASS Atlas-SNP KIAA0556 23247 hgsc.bcm.edu 37 16 27689137 27689137 + Missense_Mutation SNP G G T rs147094899 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 124.0 54.0 89.0 0.0 0.435484 0 G|0.993;T|0.007 0.007 strong . KIAA0556 348 . NM_015202 exon7 c.G628T p.D210Y GAGGAAGACATAC . PASS Atlas-SNP KIT 3815 hgsc.bcm.edu 37 4 55561862 55561862 + Silent SNP G G T rs56411694 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 98.0 46.0 112.0 0.0 0.469388 0 G|0.981;T|0.019 0.019 strong . KIT 7396 . NM_000222 exon2 c.G252T p.T84T GATCACGGAAAAG . PASS Atlas-SNP PSMD2 5708 hgsc.bcm.edu 37 3 184023918 184023918 + Silent SNP A A G rs34477849 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 362.0 189.0 284.0 1.0 0.522099 0.00352113 A|0.976;G|0.024 0.024 strong . PSMD2 56 . NM_002808 exon14 c.A1779G p.T593T CAACACACTGGTG . PASS Atlas-SNP SLC19A2 10560 hgsc.bcm.edu 37 1 169446639 169446639 + Silent SNP C C A rs150548640 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 82.0 50.0 76.0 0.0 0.609756 0 C|0.996;A|0.004 0.004 strong . SLC19A2 35 . NM_006996 exon2 c.G561T p.L187L GCTGAACAGCGAC . PASS Atlas-SNP UBAP2 55833 hgsc.bcm.edu 37 9 33927880 33927880 + Missense_Mutation SNP C C G rs16935295 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 142.0 88.0 140.0 0.0 0.619718 0 C|0.965;G|0.035 0.035 strong . UBAP2 82 . NM_018449 exon20 c.G2286C p.M762I GGTGTTCATGCTA . PASS Atlas-SNP CD33 945 hgsc.bcm.edu 37 19 51738465 51738465 + Missense_Mutation SNP G G A rs58981829 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 224.0 121.0 212.0 0.0 0.540179 0 G|0.955;A|0.045 0.045 strong CD33,NS,carcinoma,0,1 CD33 55 1 NM_001772 exon5 c.G799A p.V267I GCTGGTGTTACAG . PASS Atlas-SNP DLK1 8788 hgsc.bcm.edu 37 14 101200780 101200780 + Silent SNP T T C rs2295660 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 46.0 15.0 39.0 0.0 0.326087 0 T|0.981;C|0.019 0.019 strong . DLK1 57 . NM_003836 exon5 c.T699C p.C233C CGAGTGTCTGTGC . PASS Atlas-SNP KIAA0196 9897 hgsc.bcm.edu 37 8 126079867 126079867 + Silent SNP T T C rs10429323 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 150.0 72.0 132.0 0.0 0.48 0 T|0.971;C|0.029 0.029 strong . KIAA0196 90 . NM_014846 exon10 c.A1245G p.L415L AGTATCTAACAGC . PASS Atlas-SNP DMD 1756 hgsc.bcm.edu 37 X 32716110 32716110 + Silent SNP C C T rs1800265 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 150.0 77.0 121.0 0.0 0.513333 0 C|0.852;T|0.148 0.148 strong . DMD 2127 . NM_004006 exon9 c.G837A p.T279T ACTGACCGTGATC . PASS Atlas-SNP GLRA4 441509 hgsc.bcm.edu 37 X 102962343 102962343 + Missense_Mutation SNP T T C rs61744012 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 136.0 84.0 116.0 0.0 0.617647 0 T|0.990;C|0.010 0.010 strong . GLRA4 86 . NM_001024452 exon9 c.A1183G p.I395V TATAAATGCCAGA . PASS Atlas-SNP CXorf38 159013 hgsc.bcm.edu 37 X 40496354 40496354 + Missense_Mutation SNP T T C rs17145855 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 323.0 155.0 319.0 0.0 0.479876 0 0|0.003;C|0.018 0.018 strong . CXorf38 29 . NM_144970 exon4 c.A526G p.T176A GCCACGTAGAAGA . PASS Atlas-SNP ZNF814 730051 hgsc.bcm.edu 37 19 58385987 58385987 + Missense_Mutation SNP C C G rs111291730 by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 257.0 126.0 234.0 1.0 0.490272 0.0042735 C|0.998;G|0.002 0.002 strong . ZNF814 93 . NM_001144989 exon3 c.G771C p.L257F ATTACTCAAGCTA . PASS Atlas-SNP GAS6 2621 hgsc.bcm.edu 37 13 114526504 114526504 + Silent SNP G G A rs74118435 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 95.0 54.0 86.0 0.0 0.568421 0 G|0.971;A|0.029 0.029 strong . GAS6 75 . NM_000820 exon13 c.C1497T p.V499V AGTCCCGACGTCC . PASS Atlas-SNP TTC3 7267 hgsc.bcm.edu 37 21 38524226 38524226 + Silent SNP A A G rs2835632 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 192.0 105.0 193.0 0.0 0.546875 0 A|0.931;G|0.069 0.069 strong . TTC3 182 . NM_001001894 exon26 c.A2310G p.K770K CAAAAAATTGAAG . PASS Atlas-SNP HMCN1 83872 hgsc.bcm.edu 37 1 186057347 186057347 + Silent SNP A A T rs61745374 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 73.0 50.0 71.0 0.0 0.684932 0 A|0.953;T|0.047 0.047 strong . HMCN1 797 . NM_031935 exon62 c.A9516T p.T3172T ATTAACATGTGAT . PASS Atlas-SNP ALKBH8 91801 hgsc.bcm.edu 37 11 107427616 107427616 + Silent SNP C C G rs17107135 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 152.0 152.0 158.0 1.0 1 0.00632911 C|0.896;G|0.104 0.104 strong . ALKBH8 88 . NM_138775 exon3 c.G243C p.P81P TGAGTACGGCTTG . PASS Atlas-SNP RUFY4 285180 hgsc.bcm.edu 37 2 218953991 218953991 + Missense_Mutation SNP T T G rs201137688 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 183.0 74.0 141.0 0.0 0.404372 0 T|0.999;G|0.001 0.001 weak . RUFY4 59 . NM_198483 exon12 c.T1519G p.W507G CGCCTGTGGCAGA . PASS Atlas-SNP ADAMDEC1 27299 hgsc.bcm.edu 37 8 24261518 24261518 + Silent SNP G G A rs61731545 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 121.0 61.0 113.0 0.0 0.504132 0 G|0.979;A|0.021 0.021 strong . ADAMDEC1 69 . NM_014479 exon13 c.G1323A p.E441E GAAGGAGTGTACC . PASS Atlas-SNP CARD9 64170 hgsc.bcm.edu 37 9 139264827 139264827 + Silent SNP C C T rs115057256 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 91.0 71.0 87.0 0.0 0.78022 0 C|0.989;T|0.011 0.011 strong CARD9,NS,NS,-1,1 CARD9 47 1 NM_052813 exon6 c.G870A p.A290A CCGCAGCGCCTGC . PASS Atlas-SNP ATF4 468 hgsc.bcm.edu 37 22 39918323 39918323 + Missense_Mutation SNP C C G rs1803323 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 329.0 178.0 303.0 0.0 0.541033 0 C|0.987;G|0.013 0.013 strong . ATF4 27 . NM_001675 exon2 c.C772G p.P258A GCCCGTCCCAAAC . PASS Atlas-SNP SPEM1 374768 hgsc.bcm.edu 37 17 7324340 7324340 + Missense_Mutation SNP G G A rs61741352 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 165.0 74.0 134.0 0.0 0.448485 0 G|0.962;A|0.038 0.038 strong . SPEM1 41 . NM_199339 exon3 c.G346A p.G116S CGTCGAGGCTCTC . PASS Atlas-SNP DIDO1 11083 hgsc.bcm.edu 37 20 61525488 61525488 + Silent SNP A A G rs112062101 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 79.0 39.0 82.0 0.0 0.493671 0 A|0.994;G|0.006 0.006 strong DIDO1,NS,carcinoma,-1,1 DIDO1 321 1 NM_080797 exon12 c.T2631C p.S877S CTTAACAGAAGCT . PASS Atlas-SNP GPRIN3 285513 hgsc.bcm.edu 37 4 90169025 90169025 + Missense_Mutation SNP C C T rs17015286 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 176.0 92.0 169.0 0.0 0.522727 0 C|0.933;T|0.067 0.067 strong . GPRIN3 90 . NM_198281 exon2 c.G2237A p.R746K CTTCCTCTGAGCT . PASS Atlas-SNP GSDMC 56169 hgsc.bcm.edu 37 8 130762732 130762732 + Missense_Mutation SNP T T C rs76700535 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 117.0 47.0 101.0 0.0 0.401709 0 T|0.985;C|0.015 0.015 strong . GSDMC 71 . NM_031415 exon11 c.A1028G p.Y343C ATACTGTAGAACA . PASS Atlas-SNP APOBEC3B 9582 hgsc.bcm.edu 37 22 39381957 39381957 + Silent SNP C C T rs150187552 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 323.0 112.0 306.0 0.0 0.346749 0 C|0.998;T|0.002 0.002 strong . APOBEC3B 32 . NM_004900 exon3 c.C315T p.A105A GCTGGCCGAATTC . PASS Atlas-SNP CILP 8483 hgsc.bcm.edu 37 15 65496624 65496624 + Missense_Mutation SNP C C G rs140625947 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 164.0 75.0 137.0 0.0 0.457317 0 C|0.999;G|0.001 0.001 strong . CILP 124 . NM_003613 exon6 c.G901C p.A301P ACTCTGCCTTGAT . PASS Atlas-SNP ELOVL5 60481 hgsc.bcm.edu 37 6 53159233 53159233 + Silent SNP G G A rs9474477 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 139.0 76.0 124.0 0.0 0.546763 0 G|0.973;A|0.027 0.027 strong . ELOVL5 25 . NM_001242831 exon3 c.C115T p.L39L GCTGTAGCCATCC . PASS Atlas-SNP RFX7 64864 hgsc.bcm.edu 37 15 56387421 56387421 + Silent SNP T T C rs34255389 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 172.0 82.0 137.0 0.0 0.476744 0 T|0.996;C|0.004 0.004 strong . RFX7 170 . NM_022841 exon9 c.A2505G p.L835L GCTATGTAGCTGC . PASS Atlas-SNP SVEP1 79987 hgsc.bcm.edu 37 9 113149612 113149612 + Missense_Mutation SNP T T C rs114581956 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 241.0 80.0 247.0 0.0 0.33195 0 T|0.987;C|0.013 0.013 strong . SVEP1 326 . NM_153366 exon42 c.A10013G p.H3338R GTGCAGTGTGCCT . PASS Atlas-SNP CAPN14 440854 hgsc.bcm.edu 37 2 31417290 31417290 + Missense_Mutation SNP T T C rs76523220 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 73.0 37.0 64.0 0.0 0.506849 0 T|0.964;C|0.036 0.036 strong . CAPN14 36 . NM_001145122 exon9 c.A935G p.N312S CCGTCATTGTCTT . PASS Atlas-SNP FBLIM1 54751 hgsc.bcm.edu 37 1 16091700 16091700 + Silent SNP G G A rs61733331 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 123.0 67.0 117.0 0.0 0.544715 0 G|0.988;A|0.012 0.012 strong . FBLIM1 46 . NM_001024215 exon2 c.G222A p.P74P AGTGCCGGCTGCA . PASS Atlas-SNP SLC16A6 9120 hgsc.bcm.edu 37 17 66267734 66267734 + Silent SNP T T C rs61740584 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 119.0 54.0 134.0 0.0 0.453782 0 T|0.969;C|0.031 0.031 strong . SLC16A6 56 . NM_001174166 exon6 c.A567G p.L189L TAACTGTAGTAGG . PASS Atlas-SNP CHD1L 9557 hgsc.bcm.edu 37 1 146763171 146763171 + Missense_Mutation SNP T T A rs61756300 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 378.0 182.0 383.0 0.0 0.481481 0 T|0.984;A|0.016 0.016 strong . CHD1L 72 . NM_004284 exon20 c.T2328A p.S776R CCTGAGTTTGGGA . PASS Atlas-SNP MIPEP 4285 hgsc.bcm.edu 37 13 24463414 24463414 + Missense_Mutation SNP C C A rs112735196 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 18.0 17.0 4.0 0.0 0.944444 0 C|0.994;A|0.006 0.006 strong . MIPEP 53 . NM_005932 exon1 c.G46T p.A16S GCAGAGCTGCTGC . PASS Atlas-SNP FTSJ3 117246 hgsc.bcm.edu 37 17 61902011 61902011 + Silent SNP C C T rs9910549 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 207.0 103.0 209.0 0.0 0.497585 0 C|0.976;T|0.024 0.024 strong . FTSJ3 63 . NM_017647 exon10 c.G903A p.G301G CTTGCGCCCCAAC . PASS Atlas-SNP ZNF628 89887 hgsc.bcm.edu 37 19 55994975 55994975 + Silent SNP G G T rs114065657 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 50.0 72.0 0.0 0.537634 0 G|0.980;T|0.020 0.020 strong . ZNF628 75 . NM_033113 exon3 c.G2415T p.V805V GAATGTGGGGGGT . PASS Atlas-SNP GPRASP1 9737 hgsc.bcm.edu 37 X 101912465 101912465 + Silent SNP G G T rs1124050 bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 293.0 107.0 280.0 1.0 0.365188 0.00357143 0|0.003;A|0.000;G|0.981;T|0.016 0.016 strong . GPRASP1 140 . NM_001099411 exon3 c.G3624T p.P1208P TTATCCGTCCTCC . PASS Atlas-SNP RBBP8NL 140893 hgsc.bcm.edu 37 20 60989243 60989243 + Silent SNP T T C rs34446012 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 65.0 33.0 61.0 0.0 0.507692 0 T|0.996;C|0.004 0.004 strong . . . . NM_080833 exon10 c.A1164G p.L388L GACTGGTAGGGAG . PASS Atlas-SNP NT5E 4907 hgsc.bcm.edu 37 6 86195098 86195098 + Silent SNP C C T rs35478984 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 109.0 47.0 109.0 0.0 0.431193 0 C|0.977;T|0.023 0.023 strong . NT5E 56 . NM_001204813 exon4 c.C897T p.N299N AGGAAACGTCATC . PASS Atlas-SNP GHITM 27069 hgsc.bcm.edu 37 10 85902479 85902479 + Silent SNP A A T rs146877821 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 97.0 46.0 61.0 0.0 0.474227 0 A|0.995;T|0.005 0.005 strong . GHITM 30 . NM_014394 exon3 c.A198T p.A66A GGCAGCATTGGAA . PASS Atlas-SNP RHPN1 114822 hgsc.bcm.edu 37 8 144464073 144464073 + Missense_Mutation SNP G G A rs34746679 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 139.0 79.0 125.0 0.0 0.568345 0 G|0.989;A|0.011 0.011 strong RHPN1_ENST00000289013,NS,carcinoma,-1,2 RHPN1 76 2 NM_052924 exon14 c.G1732A p.A578T AAGGCTGCGGGAG . PASS Atlas-SNP BPI 671 hgsc.bcm.edu 37 20 36954790 36954790 + Missense_Mutation SNP G G A rs5743524 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 123.0 52.0 143.0 0.0 0.422764 0 G|0.949;A|0.051 0.051 strong . BPI 67 . NM_001725 exon10 c.G1129A p.V377I TTTGCCGTCCTCC . PASS Atlas-SNP TG 7038 hgsc.bcm.edu 37 8 133953740 133953740 + Missense_Mutation SNP A A C rs61744749 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 311.0 147.0 292.0 1.0 0.472669 0.00342466 A|0.964;C|0.036 0.036 strong TG,NS,carcinoma,+1,1 TG 416 1 NM_003235 exon26 c.A5186C p.D1729A CATGCGACCGTGA . PASS Atlas-SNP ZNF790 388536 hgsc.bcm.edu 37 19 37309790 37309790 + Missense_Mutation SNP T T A rs4369791 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 41.0 19.0 48.0 0.0 0.463415 0 T|0.995;A|0.005 0.005 strong . ZNF790 89 . NM_206894 exon5 c.A1456T p.T486S AAAAGGTCTTTCC . PASS Atlas-SNP SPRYD3 84926 hgsc.bcm.edu 37 12 53467230 53467230 + Missense_Mutation SNP G G T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 54.0 22.0 53.0 0.0 0.407407 0 . . none . SPRYD3 29 . NM_032840 exon6 c.C533A p.S178Y TCTGGGGACATGG . PASS Atlas-SNP BPHL 670 hgsc.bcm.edu 37 6 3152760 3152760 + Missense_Mutation SNP T T C rs2231370 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 168.0 84.0 146.0 0.0 0.5 0 T|0.949;C|0.051 0.051 strong . BPHL 32 . NM_004332 exon7 c.T827C p.L276S TGCATTTGCGTTT . PASS Atlas-SNP HOXD3 3232 hgsc.bcm.edu 37 2 177034130 177034130 + Silent SNP G G A rs77818566 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 116.0 56.0 141.0 0.0 0.482759 0 G|0.949;A|0.051 0.051 strong . HOXD3 65 . NM_006898 exon2 c.G288A p.G96G CACTGGGAACAGC . PASS Atlas-SNP COL15A1 1306 hgsc.bcm.edu 37 9 101816873 101816873 + Missense_Mutation SNP A A G rs35642150 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 134.0 94.0 131.0 0.0 0.701493 0 A|0.988;G|0.012 0.012 strong . COL15A1 211 . NM_001855 exon32 c.A2966G p.K989R GAGAGAAAGGATC . PASS Atlas-SNP FTO 79068 hgsc.bcm.edu 37 16 53922838 53922838 + Missense_Mutation SNP C C T rs16952624 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 326.0 156.0 299.0 0.0 0.478528 0 C|0.988;T|0.012 0.012 strong FTO,NS,carcinoma,-1,1 FTO 51 1 NM_001080432 exon7 c.C1214T p.A405V TGGAAGCACTGTG . PASS Atlas-SNP PIEZO1 9780 hgsc.bcm.edu 37 16 88801457 88801457 + Silent SNP G G A rs115016757 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 88.0 36.0 85.0 0.0 0.409091 0 G|0.966;A|0.034 0.034 strong . PIEZO1 79 . NM_001142864 exon14 c.C1674T p.P558P CCGCGTGGGCTCT . PASS Atlas-SNP NCAPD3 23310 hgsc.bcm.edu 37 11 134048592 134048592 + Missense_Mutation SNP G G T rs34739733 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 138.0 66.0 106.0 0.0 0.478261 0 G|0.995;T|0.005 0.005 strong . NCAPD3 141 . NM_015261 exon22 c.C2719A p.P907T GGGGGGGTGGCTG . PASS Atlas-SNP RGS13 6003 hgsc.bcm.edu 37 1 192628623 192628623 + Missense_Mutation SNP G G C rs16834603 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 181.0 94.0 156.0 0.0 0.519337 0 G|0.955;C|0.045 0.045 strong . RGS13 31 . NM_002927 exon7 c.G450C p.L150F ACTTTTGAAAACT . PASS Atlas-SNP OR1E2 8388 hgsc.bcm.edu 37 17 3336699 3336699 + Missense_Mutation SNP C C G rs78339092 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 228.0 96.0 225.0 0.0 0.421053 0 C|0.987;G|0.013 0.013 strong OR1E2,right_upper_lobe,carcinoma,+1,1 OR1E2 25 1 NM_003554 exon1 c.G437C p.S146T ATGGGGCTCATGA . PASS Atlas-SNP TMPRSS11B 132724 hgsc.bcm.edu 37 4 69098115 69098115 + Silent SNP A A G rs10018067 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 158.0 80.0 114.0 0.0 0.506329 0 A|0.973;G|0.027 0.027 strong . TMPRSS11B 66 . NM_182502 exon6 c.T489C p.S163S CATTTCAGAAGCA . PASS Atlas-SNP SNAI1 6615 hgsc.bcm.edu 37 20 48600475 48600475 + Missense_Mutation SNP C C T rs34261470 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 50.0 19.0 43.0 0.0 0.38 0 C|0.979;T|0.021 0.021 strong . SNAI1 28 . NM_005985 exon2 c.C197T p.A66V TCCTGGCGCCCCA . PASS Atlas-SNP ADAM19 8728 hgsc.bcm.edu 37 5 156964944 156964944 + Missense_Mutation SNP G G C rs11134804 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 91.0 44.0 91.0 0.0 0.483516 0 G|0.965;C|0.035 0.035 strong . ADAM19 216 . NM_033274 exon4 c.C307G p.Q103E TGGTTTGAGGGTT . PASS Atlas-SNP NOTCH2NL 388677 hgsc.bcm.edu 37 1 145281413 145281413 + Missense_Mutation SNP G G A rs76765512 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 1480.0 388.0 1344.0 2.0 0.262162 0.0014881 G|0.980;A|0.020 0.020 strong . NOTCH2NL 100 . NM_203458 exon4 c.G343A p.A115T CCCTGTGCAAATG . PASS Atlas-SNP ARSK 153642 hgsc.bcm.edu 37 5 94936744 94936744 + Silent SNP G G A rs61733083 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 130.0 56.0 112.0 0.0 0.430769 0 G|0.990;A|0.010 0.010 strong . ARSK 29 . NM_198150 exon7 c.G1290A p.S430S CTATTCGGATGGT . PASS Atlas-SNP GPRIN2 9721 hgsc.bcm.edu 37 10 46999385 46999385 + Missense_Mutation SNP C C T rs113256776 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 70.0 15.0 37.0 0.0 0.214286 0 C|0.975;T|0.025 0.025 strong . GPRIN2 94 . NM_014696 exon3 c.C505T p.P169S CAGGCCCCTGCAG . PASS Atlas-SNP SLC2A8 29988 hgsc.bcm.edu 37 9 130162230 130162230 + Silent SNP C C G rs36057295 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 108.0 32.0 155.0 0.0 0.296296 0 C|0.975;G|0.025 0.025 strong . SLC2A8 27 . NM_014580 exon4 c.C471G p.L157L GTTGCTCGGCTCC . PASS Atlas-SNP NARS2 79731 hgsc.bcm.edu 37 11 78279744 78279744 + Silent SNP T T C rs60510975 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 193.0 97.0 185.0 0.0 0.502591 0 T|0.960;C|0.040 0.040 strong NARS2,lower_third,carcinoma,-2,1 NARS2 62 1 NM_024678 exon3 c.A306G p.P102P TTTGGATGGACTT . PASS Atlas-SNP MDN1 23195 hgsc.bcm.edu 37 6 90461235 90461235 + Missense_Mutation SNP T T C rs115558420 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 186.0 90.0 165.0 0.0 0.483871 0 T|0.997;C|0.003 0.003 strong MDN1,NS,carcinoma,+2,1 MDN1 478 1 NM_014611 exon23 c.A3142G p.K1048E GCTCCTTGTCTCC . PASS Atlas-SNP TTN 7273 hgsc.bcm.edu 37 2 179594590 179594590 + Silent SNP T T A rs66523653 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 237.0 118.0 253.0 0.0 0.49789 0 T|0.984;A|0.016 0.016 strong . TTN 18412 . NM_001267550 exon63 c.A18390T p.T6130T AGTGCCTGTTATT . PASS Atlas-SNP TJP2 9414 hgsc.bcm.edu 37 9 71851080 71851080 + Silent SNP C C T rs12340440 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 57.0 36.0 54.0 1.0 0.631579 0.0185185 C|0.983;T|0.017 0.017 strong TJP2,colon,carcinoma,0,1 TJP2 120 1 NM_001170416 exon13 c.C2010T p.D670D GTATGACGGCAAG . scavenged Atlas-SNP ZNF598 90850 hgsc.bcm.edu 37 16 2050151 2050151 + Silent SNP A A G rs114023844 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 43.0 19.0 35.0 0.0 0.44186 0 A|0.978;G|0.022 0.022 strong . ZNF598 55 . NM_178167 exon11 c.T1399C p.L467L GCGCCAACCCCAC . PASS Atlas-SNP MAP1B 4131 hgsc.bcm.edu 37 5 71489695 71489695 + Silent SNP C C T rs2227915 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 49.0 28.0 52.0 0.0 0.571429 0 C|0.968;T|0.032 0.032 strong . MAP1B 243 . NM_005909 exon5 c.C513T p.I171I CCAGATCGGGGAG . PASS Atlas-SNP ARL11 115761 hgsc.bcm.edu 37 13 50205165 50205165 + Missense_Mutation SNP G G C rs35835937 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 160.0 91.0 167.0 0.0 0.56875 0 G|0.993;C|0.007 0.007 strong . ARL11 26 . NM_138450 exon2 c.G582C p.K194N CAGCAAGAGATCT . PASS Atlas-SNP ZPBP2 124626 hgsc.bcm.edu 37 17 38028635 38028635 + Silent SNP T T C rs61737283 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 89.0 48.0 76.0 0.0 0.539326 0 T|0.868;C|0.132 0.132 strong . ZPBP2 33 . NM_199321 exon5 c.T519C p.S173S GGATAGTCTAATT . PASS Atlas-SNP DNAH6 1768 hgsc.bcm.edu 37 2 84924783 84924783 + Missense_Mutation SNP G G C rs73943384 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 75.0 37.0 77.0 0.0 0.493333 0 G|0.989;C|0.011 0.011 strong . DNAH6 194 . NM_001370 exon47 c.G7609C p.E2537Q GAACTGGAGCAGG . PASS Atlas-SNP GABRB1 2560 hgsc.bcm.edu 37 4 47408850 47408850 + Silent SNP C C T rs115114447 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 235.0 235.0 222.0 0.0 1 0 C|0.982;T|0.018 0.018 strong GABRB1,colon,carcinoma,+1,1 GABRB1 107 1 NM_000812 exon8 c.C987T p.Y329Y AAATTACATCTTC . PASS Atlas-SNP DNAH10 196385 hgsc.bcm.edu 37 12 124417989 124417989 + Missense_Mutation SNP C C T rs61746561 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 105.0 43.0 76.0 0.0 0.409524 0 C|0.991;T|0.009 0.009 strong . DNAH10 888 . NM_207437 exon76 c.C13054T p.R4352C CTGGACCGCTCCA . PASS Atlas-SNP KRTAP10-10 353333 hgsc.bcm.edu 37 21 46057635 46057635 + Missense_Mutation SNP G G A rs114397261 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 273.0 120.0 204.0 0.0 0.43956 0 G|0.928;A|0.072 0.072 strong . KRTAP10-10 37 . NM_181688 exon1 c.G301A p.V101M TGCTGTGTGCCCG . PASS Atlas-SNP UNC5B 219699 hgsc.bcm.edu 37 10 73039594 73039594 + Silent SNP C C T rs80333477 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 177.0 97.0 147.0 0.0 0.548023 0 C|0.987;T|0.013 0.013 strong . UNC5B 123 . NM_001244889 exon2 c.C96T p.S32S TGGCAGCGAGGTG . PASS Atlas-SNP C5orf42 65250 hgsc.bcm.edu 37 5 37245935 37245935 + Missense_Mutation SNP C C T rs73750959 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 74.0 36.0 87.0 0.0 0.486486 0 C|0.980;T|0.020 0.020 strong . C5orf42 422 . NM_023073 exon3 c.G94A p.V32I GAAAAACGGCTTC . PASS Atlas-SNP N4BP2 55728 hgsc.bcm.edu 37 4 40122377 40122377 + Missense_Mutation SNP G G A rs78767806 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 240.0 104.0 250.0 0.0 0.433333 0 G|0.975;A|0.025 0.025 strong . N4BP2 166 . NM_018177 exon9 c.G2646A p.M882I CATTATGGGTGAC . PASS Atlas-SNP FANCA 2175 hgsc.bcm.edu 37 16 89857880 89857880 + Silent SNP C C T rs1800332 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 96.0 37.0 86.0 0.0 0.385417 0 C|0.967;T|0.033 0.033 strong FANCA,NS,lymphoid_neoplasm,-1,1 FANCA 99 1 NM_000135 exon14 c.G1290A p.A430A CAGGAACGCAGTG . PASS Atlas-SNP COL28A1 340267 hgsc.bcm.edu 37 7 7571420 7571420 + Silent SNP T T C rs17168526 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 318.0 131.0 283.0 0.0 0.41195 0 T|0.969;C|0.031 0.031 strong . COL28A1 113 . NM_001037763 exon3 c.A240G p.Q80Q AGTCAATTGGAAA . PASS Atlas-SNP FAM214A 56204 hgsc.bcm.edu 37 15 52901887 52901887 + Silent SNP A A G rs75512966 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 58.0 29.0 47.0 0.0 0.5 0 A|0.981;G|0.019 0.019 strong . . . . NM_019600 exon6 c.T1224C p.L408L CCGGAAAAGTTTT . PASS Atlas-SNP TTC40 54777 hgsc.bcm.edu 37 10 134622046 134622046 + Missense_Mutation SNP C C T rs73387072 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 123.0 72.0 94.0 0.0 0.585366 0 C|0.975;T|0.025 0.025 strong . TTC40 100 . NM_001200049 exon58 c.G8027A p.R2676H CCCCGACGCAGAC . PASS Atlas-SNP OR2K2 26248 hgsc.bcm.edu 37 9 114089883 114089883 + Silent SNP G G A rs61748722 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 171.0 123.0 167.0 0.0 0.719298 0 G|0.982;A|0.018 0.018 strong . OR2K2 77 . NM_205859 exon1 c.C831T p.Y277Y CACTCCGTAAAGC . PASS Atlas-SNP ATP10A 57194 hgsc.bcm.edu 37 15 25928508 25928508 + Silent SNP C C T rs142960034 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 148.0 73.0 142.0 0.0 0.493243 0 C|0.996;T|0.004 0.004 strong . ATP10A 270 . NM_024490 exon17 c.G3417A p.G1139G CAGCACCCCAGTC . PASS Atlas-SNP PCDHA6 56142 hgsc.bcm.edu 37 5 140209429 140209429 + Missense_Mutation SNP C C G rs60309716 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 274.0 141.0 210.0 0.0 0.514599 0 C|0.940;G|0.060 0.060 strong . PCDHA6 442 . NM_018909 exon1 c.C1753G p.L585V CGGTCACTGGGTG . PASS Atlas-SNP EIF4G3 8672 hgsc.bcm.edu 37 1 21177800 21177800 + Missense_Mutation SNP A A T rs2230572 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 197.0 101.0 172.0 0.0 0.51269 0 A|0.995;T|0.005 0.005 strong EIF4G3_ENST00000374937,NS,carcinoma,-2,2 EIF4G3 300 2 NM_001198801 exon26 c.T3663A p.D1221E CTCCACATCCACA . PASS Atlas-SNP C21orf2 755 hgsc.bcm.edu 37 21 45750725 45750725 + Missense_Mutation SNP G G A rs148023924 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 160.0 79.0 166.0 0.0 0.49375 0 G|0.997;A|0.003 0.003 strong . C21orf2 10 . NM_004928 exon6 c.C623T p.S208L CTGCTCGAGGCAT . PASS Atlas-SNP SEC14L5 9717 hgsc.bcm.edu 37 16 5050678 5050678 + Silent SNP C C T rs61745575 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 104.0 50.0 125.0 0.0 0.480769 0 C|0.975;T|0.025 0.025 strong SEC14L5,NS,carcinoma,+2,1 SEC14L5 79 1 NM_014692 exon9 c.C993T p.L331L CATCCTCCGCCTG . PASS Atlas-SNP TRIM67 440730 hgsc.bcm.edu 37 1 231298970 231298970 + Silent SNP T T C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 17.0 5.0 11.0 0.0 0.294118 0 . . none . TRIM67 160 . NM_001004342 exon1 c.T255C p.A85A TGCAGCTGGCGGC . PASS Atlas-SNP SGMS2 166929 hgsc.bcm.edu 37 4 108816880 108816880 + Silent SNP G G A rs150784082 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 98.0 52.0 101.0 0.0 0.530612 0 G|0.996;A|0.004 0.004 strong . SGMS2 39 . NM_001136257 exon2 c.G171A p.P57P GTACCCGGACTAT . PASS Atlas-SNP ADAMDEC1 27299 hgsc.bcm.edu 37 8 24259600 24259600 + Missense_Mutation SNP C C T rs76707982 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 61.0 39.0 53.0 0.0 0.639344 0 C|0.983;T|0.017 0.017 strong ADAMDEC1_ENST00000256412,NS,malignant_melanoma,-1,1 ADAMDEC1 69 1 NM_014479 exon12 c.C1315T p.P439S GGCTCTCCTAAGG . PASS Atlas-SNP AMN 81693 hgsc.bcm.edu 37 14 103395212 103395212 + Missense_Mutation SNP G G T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 54.0 45.0 0.0 0.580645 0 . . none . AMN 13 . NM_030943 exon5 c.G413T p.R138L CCTGCCGCCACGA . PASS Atlas-SNP ROGDI 79641 hgsc.bcm.edu 37 16 4849726 4849726 + Missense_Mutation SNP G G C rs143095485 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 129.0 59.0 119.0 0.0 0.457364 0 G|0.980;C|0.020 0.020 strong . ROGDI 11 . NM_024589 exon6 c.C393G p.D131E GCTCTGGTCCCGG . PASS Atlas-SNP HOXB8 3218 hgsc.bcm.edu 37 17 46690623 46690623 + Missense_Mutation SNP G G C rs112046402 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 141.0 65.0 143.0 0.0 0.460993 0 G|0.977;C|0.023 0.023 strong . HOXB8 26 . NM_024016 exon2 c.C673G p.L225V GCTCCAGCTTCTG . PASS Atlas-SNP GABRG3 2567 hgsc.bcm.edu 37 15 27222266 27222266 + Silent SNP A A G rs35752220 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 122.0 53.0 105.0 0.0 0.434426 0 A|0.970;G|0.030 0.030 strong . GABRG3 115 . NM_001270873 exon2 c.A171G p.E57E AAGAGAATATGAT . PASS Atlas-SNP KIAA1199 57214 hgsc.bcm.edu 37 15 81172064 81172064 + Silent SNP G G A rs35541581 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 125.0 62.0 112.0 0.0 0.496 0 G|0.928;A|0.072 0.072 strong . KIAA1199 118 . NM_018689 exon4 c.G249A p.L83L CAAGCTGGTCATT . PASS Atlas-SNP CYB561 1534 hgsc.bcm.edu 37 17 61513509 61513509 + Silent SNP C C T rs35447397 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 35.0 85.0 0.0 0.460526 0 C|0.989;T|0.011 0.011 strong . CYB561 15 . NM_001915 exon3 c.G207A p.L69L AACCAGCAGGGCT . PASS Atlas-SNP ATF6B 1388 hgsc.bcm.edu 37 6 32093922 32093922 + Silent SNP G G A rs204894 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 132.0 70.0 120.0 0.0 0.530303 0 G|0.945;A|0.055 0.055 strong . ATF6B 40 . NM_004381 exon5 c.C450T p.N150N GATAACGTTGATC . PASS Atlas-SNP CDK12 51755 hgsc.bcm.edu 37 17 37682200 37682200 + Missense_Mutation SNP A A G rs61747430 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 239.0 106.0 202.0 0.0 0.443515 0 A|0.989;G|0.011 0.011 strong . CDK12 161 . NM_016507 exon13 c.A3391G p.I1131V CTGAGCATCCCTC . PASS Atlas-SNP NR1I2 8856 hgsc.bcm.edu 37 3 119530546 119530546 + Silent SNP T T C rs12721611 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 89.0 48.0 83.0 0.0 0.539326 0 T|0.981;C|0.019 0.019 strong . NR1I2 44 . NM_022002 exon4 c.T609C p.T203T TGACACTACCTTC . PASS Atlas-SNP PCDHB2 56133 hgsc.bcm.edu 37 5 140475514 140475514 + Missense_Mutation SNP C C A rs73793576 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 138.0 72.0 135.0 0.0 0.521739 0 C|0.991;A|0.009 0.009 strong . PCDHB2 163 . NM_018936 exon1 c.C1140A p.N380K AGACAACGGAAGG . PASS Atlas-SNP KIF5C 3800 hgsc.bcm.edu 37 2 149861927 149861927 + Silent SNP G G A rs184488465 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 66.0 44.0 69.0 0.0 0.666667 0 G|0.999;A|0.001 0.001 strong . KIF5C 166 . NM_004522 exon22 c.G2394A p.L798L GACACTGCACAAC . PASS Atlas-SNP BRD7 29117 hgsc.bcm.edu 37 16 50368670 50368670 + Missense_Mutation SNP C C A rs113038433 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 192.0 59.0 136.0 0.0 0.307292 0 C|0.988;A|0.012 0.012 strong . BRD7 61 . NM_013263 exon7 c.G839T p.G280V GCATCTCCAGAGT . PASS Atlas-SNP PPP1R12C 54776 hgsc.bcm.edu 37 19 55607447 55607447 + Silent SNP G G A rs35641913 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 40.0 20.0 29.0 0.0 0.5 0 G|0.976;A|0.024 0.024 strong PPP1R12C,NS,carcinoma,0,1 PPP1R12C 46 1 NM_017607 exon8 c.C1125T p.D375D ATCCTCGTCCTGG . PASS Atlas-SNP ANGPT4 51378 hgsc.bcm.edu 37 20 854973 854973 + Silent SNP T T G rs62641668 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 216.0 103.0 176.0 0.0 0.476852 0 T|0.983;G|0.017 0.017 strong ANGPT4,bladder,carcinoma,-1,1 ANGPT4 77 1 NM_015985 exon8 c.A1305C p.S435S GTTGTCTGAGTCA . PASS Atlas-SNP ARHGEF10 9639 hgsc.bcm.edu 37 8 1808343 1808343 + Silent SNP C C T rs147914724 byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 95.0 41.0 67.0 0.0 0.431579 0 C|0.999;T|0.001 0.001 strong ARHGEF10_ENST00000398564,colon,carcinoma,0,1 ARHGEF10 255 1 NM_014629 exon4 c.C474T p.D158D CCTGGACGAAGAA . PASS Atlas-SNP CCNG2 901 hgsc.bcm.edu 37 4 78079768 78079768 + Missense_Mutation SNP A A G rs4150051 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 125.0 61.0 132.0 0.0 0.488 0 A|0.996;G|0.004 0.004 strong . CCNG2 27 . NM_004354 exon2 c.A83G p.E28G AACAAGAAGAGAG . PASS Atlas-SNP SPPL2C 162540 hgsc.bcm.edu 37 17 43922535 43922535 + Missense_Mutation SNP C C T rs116482551 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 87.0 47.0 84.0 0.0 0.54023 0 C|0.995;T|0.005 0.005 strong . . . . NM_175882 exon1 c.C263T p.P88L AGCGGCCCCTCCG . PASS Atlas-SNP GBGT1 26301 hgsc.bcm.edu 37 9 136029474 136029474 + Silent SNP C C T rs35808997 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 118.0 69.0 88.0 0.0 0.584746 0 C|0.934;T|0.066 0.066 strong . GBGT1 25 . NM_021996 exon7 c.G534A p.E178E GGATGTCTCCTCC . PASS Atlas-SNP SYT8 90019 hgsc.bcm.edu 37 11 1858076 1858076 + Missense_Mutation SNP C C T rs115217397 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 57.0 21.0 55.0 0.0 0.368421 0 C|0.991;T|0.009 0.009 strong . SYT8 29 . NM_138567 exon7 c.C817T p.R273C GGCCTGCGTCCAG . PASS Atlas-SNP SMARCA4 6597 hgsc.bcm.edu 37 19 11094903 11094903 + Missense_Mutation SNP G G A rs145867502 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 36.0 58.0 0.0 0.473684 0 G|0.999;A|0.001 0.001 strong . SMARCA4 502 . NM_003072 exon2 c.G76A p.A26T CCTGGAGCCATGC . PASS Atlas-SNP TSSK2 23617 hgsc.bcm.edu 37 22 19118992 19118992 + Missense_Mutation SNP A A G rs3747052 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 95.0 60.0 107.0 0.0 0.631579 0 A|0.959;G|0.041 0.041 strong . TSSK2 29 . NM_053006 exon1 c.A80G p.K27R AAGTCAAATCTGC . PASS Atlas-SNP DHRS2 10202 hgsc.bcm.edu 37 14 24114490 24114490 + Silent SNP G G A rs7150155 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 71.0 39.0 61.0 1.0 0.549296 0.0163934 G|0.966;A|0.034 0.034 strong DHRS2_ENST00000344777,NS,carcinoma,+1,1 DHRS2 78 1 NM_182908 exon9 c.G882A p.V294V AGCTGTGGTCCCA . scavenged Atlas-SNP GFM1 85476 hgsc.bcm.edu 37 3 158372389 158372389 + Missense_Mutation SNP A A C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 127.0 62.0 110.0 0.0 0.488189 0 . . none . GFM1 83 . NM_024996 exon8 c.A1052C p.H351P ATTCCCACCCATT . PASS Atlas-SNP USP10 9100 hgsc.bcm.edu 37 16 84778261 84778261 + Silent SNP G G A rs77170713 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 145.0 77.0 119.0 0.0 0.531034 0 G|0.997;A|0.003 0.003 strong . USP10 51 . NM_001272075 exon5 c.G186A p.E62E AATTGAGTTTGGT . PASS Atlas-SNP NUP88 4927 hgsc.bcm.edu 37 17 5291126 5291126 + Missense_Mutation SNP T T C rs149760662 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 119.0 61.0 86.0 0.0 0.512605 0 T|0.998;C|0.002 0.002 strong . NUP88 47 . NM_002532 exon12 c.A1742G p.D581G GCCAAGTCCTGTT . PASS Atlas-SNP ATF7IP2 80063 hgsc.bcm.edu 37 16 10527404 10527404 + Missense_Mutation SNP G G A rs141089693 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 159.0 81.0 152.0 0.0 0.509434 0 G|0.999;A|0.001 0.001 strong . ATF7IP2 40 . NM_024997 exon4 c.G858A p.M286I GAGGATGTTTTCA . PASS Atlas-SNP IL4R 3566 hgsc.bcm.edu 37 16 27356271 27356271 + Silent SNP T T C rs112497527 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 111.0 50.0 127.0 0.0 0.45045 0 T|0.988;C|0.012 0.012 strong . IL4R 70 . NM_000418 exon5 c.T291C p.D97D TGCGGATAACTAT . PASS Atlas-SNP MRPL28 10573 hgsc.bcm.edu 37 16 417691 417691 + Missense_Mutation SNP C C G rs114486517 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 134.0 69.0 119.0 0.0 0.514925 0 C|0.937;G|0.063 0.063 strong . MRPL28 15 . NM_006428 exon6 c.G755C p.R252T CTGGCTCTCTTCT . PASS Atlas-SNP EIF3M 10480 hgsc.bcm.edu 37 11 32622233 32622233 + Splice_Site SNP A A T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 108.0 12.0 86.0 0.0 0.111111 0 . . none . EIF3M 37 . NM_006360 exon9 c.800-2A>T . TTTTCTAGGCCTG . PASS Atlas-SNP TMEM232 642987 hgsc.bcm.edu 37 5 109904249 109904249 + Missense_Mutation SNP C C T rs61734250 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 201.0 97.0 213.0 0.0 0.482587 0 C|0.977;T|0.023 0.023 strong TMEM232_ENST00000455884,rectum,carcinoma,0,2 TMEM232 57 2 NM_001039763 exon11 c.G1354A p.E452K GTTCTTCGTCTCC . PASS Atlas-SNP LHFPL2 10184 hgsc.bcm.edu 37 5 77784810 77784810 + Silent SNP A A C rs35110604 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 167.0 83.0 163.0 0.0 0.497006 0 A|0.982;C|0.018 0.018 strong . LHFPL2 9 . NM_005779 exon5 c.T597G p.A199A GAAGACAGCACAG . PASS Atlas-SNP ABL1 25 hgsc.bcm.edu 37 9 133761001 133761001 + Silent SNP A A G rs1056171 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 122.0 122.0 141.0 1.0 1 0.0070922 A|0.391;G|0.609 0.609 strong ABL1,scalp,carcinoma,+2,1 ABL1 1632 1 NM_007313 exon11 c.A3381G p.P1127P TGGTCCAGCGGCC . PASS Atlas-SNP AKTIP 64400 hgsc.bcm.edu 37 16 53526366 53526366 + Silent SNP T T C rs16952272 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 184.0 87.0 180.0 0.0 0.472826 0 T|0.990;C|0.010 0.010 strong . AKTIP 16 . NM_022476 exon10 c.A837G p.S279S CTGTACTGAGCCA . PASS Atlas-SNP SLC9A4 389015 hgsc.bcm.edu 37 2 103148868 103148868 + Silent SNP G G A rs59687519 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 102.0 59.0 80.0 0.0 0.578431 0 G|0.981;A|0.019 0.019 strong . SLC9A4 115 . NM_001011552 exon12 c.G2118A p.E706E GCAAGAGGCACAA . PASS Atlas-SNP TRPS1 7227 hgsc.bcm.edu 37 8 116631902 116631902 + Silent SNP C C A rs7823278 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 110.0 110.0 97.0 0.0 1 0 C|0.873;A|0.127 0.127 strong TRPS1_ENST00000395715,NS,carcinoma,-1,2 TRPS1 516 2 NM_014112 exon3 c.G423T p.P141P TCTTTGCGGAGAC . PASS Atlas-SNP PIDD 55367 hgsc.bcm.edu 37 11 800186 800186 + Missense_Mutation SNP C C T rs148849040 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 60.0 41.0 61.0 0.0 0.683333 0 C|1.000;T|0.000 0.000 weak . PIDD 76 . NM_145886 exon14 c.G2219A p.R740Q CTCTGCCGGGCAG . PASS Atlas-SNP FREM2 341640 hgsc.bcm.edu 37 13 39265558 39265558 + Silent SNP T T A rs41292757 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 128.0 61.0 101.0 0.0 0.476562 0 T|0.972;A|0.028 0.028 strong . FREM2 385 . NM_207361 exon1 c.T4077A p.G1359G TACTGGTGCCTTT . PASS Atlas-SNP C4orf22 255119 hgsc.bcm.edu 37 4 81866010 81866010 + Missense_Mutation SNP A A C rs201959026 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 328.0 148.0 282.0 1.0 0.451219 0.0035461 . . weak . C4orf22 35 . NM_001206997 exon6 c.A574C p.N192H AGTCCCAACTATC . PASS Atlas-SNP DNAH14 127602 hgsc.bcm.edu 37 1 225152298 225152298 + Missense_Mutation SNP A A T rs79645812 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 97.0 47.0 134.0 0.0 0.484536 0 A|0.995;T|0.005 0.005 strong . DNAH14 300 . NM_144989 exon5 c.A485T p.K162M TTCAGAAGATTAC . PASS Atlas-SNP PEPD 5184 hgsc.bcm.edu 37 19 33968991 33968991 + Missense_Mutation SNP T T A rs61748998 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 157.0 80.0 194.0 0.0 0.509554 0 T|0.978;A|0.022 0.022 strong . PEPD 48 . NM_000285 exon7 c.A509T p.E170V TTGACTTCGAACC . PASS Atlas-SNP LRGUK 136332 hgsc.bcm.edu 37 7 133881794 133881794 + Silent SNP T T C rs35258804 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 98.0 54.0 135.0 0.0 0.55102 0 T|0.963;C|0.037 0.037 strong . LRGUK 113 . NM_144648 exon13 c.T1482C p.N494N ATTAAATAGGGAC . PASS Atlas-SNP SPTBN5 51332 hgsc.bcm.edu 37 15 42179424 42179424 + Missense_Mutation SNP C C T rs890499 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 274.0 140.0 231.0 0.0 0.510949 0 C|0.929;T|0.071 0.071 strong . SPTBN5 171 . NM_016642 exon6 c.G770A p.R257K AGTCTCCTCTGGA . PASS Atlas-SNP URB2 9816 hgsc.bcm.edu 37 1 229783361 229783361 + Silent SNP C C T rs137900306 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 142.0 74.0 168.0 0.0 0.521127 0 C|0.999;T|0.001 0.001 strong . URB2 152 . NM_014777 exon7 c.C4011T p.I1337I GGCCATCGGCAAC . PASS Atlas-SNP TNXB 7148 hgsc.bcm.edu 37 6 32032689 32032689 + Silent SNP C C T rs35206129 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 133.0 64.0 128.0 0.0 0.481203 0 C|0.995;T|0.005 0.005 strong . TNXB 553 . NM_019105 exon19 c.G6750A p.S2250S CAGGCCCGAGATG . PASS Atlas-SNP RXRB 6257 hgsc.bcm.edu 37 6 33162507 33162507 + Silent SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 90.0 42.0 60.0 0.0 0.466667 0 . . none RXRB,colon,carcinoma,0,1 RXRB 34 1 NM_001270401 exon10 c.C1566T p.I522I GGTGTCGATGGGG . PASS Atlas-SNP NSFL1C 55968 hgsc.bcm.edu 37 20 1433171 1433171 + Missense_Mutation SNP T T C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 96.0 34.0 99.0 0.0 0.354167 0 . . none . NSFL1C 38 . NM_016143 exon7 c.A752G p.K251R AAGGCTTTGAAGG . PASS Atlas-SNP AP4E1 23431 hgsc.bcm.edu 37 15 51233881 51233881 + Missense_Mutation SNP A A G rs58909326 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 128.0 62.0 114.0 0.0 0.484375 0 A|0.982;G|0.018 0.018 strong . AP4E1 78 . NM_007347 exon10 c.A1085G p.Y362C TTACCTATGTTAT . PASS Atlas-SNP SLCO4A1 28231 hgsc.bcm.edu 37 20 61292475 61292475 + Missense_Mutation SNP C C T rs201057493 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 62.0 25.0 40.0 0.0 0.403226 0 C|1.000;T|0.000 0.000 strong SLCO4A1,uveal_tract,malignant_melanoma,0,1 SLCO4A1 65 1 NM_016354 exon5 c.C1069T p.R357C AGCAGCCGTGGGG . PASS Atlas-SNP GPR144 347088 hgsc.bcm.edu 37 9 127230864 127230864 + Missense_Mutation SNP G G A rs7854446 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 121.0 119.0 174.0 1.0 0.983471 0.00574713 G|0.967;A|0.033 0.033 strong . GPR144 33 . NM_001161808 exon14 c.G2221A p.V741M ATGCTGGTGGAGG . PASS Atlas-SNP CASP4 837 hgsc.bcm.edu 37 11 104819333 104819333 + Missense_Mutation SNP C C A rs55901059 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 141.0 86.0 147.0 0.0 0.609929 0 C|0.979;A|0.021 0.021 strong . CASP4 57 . NM_001225 exon6 c.G852T p.E284D TAGGTTCTCAGAT . PASS Atlas-SNP BRDT 676 hgsc.bcm.edu 37 1 92445179 92445179 + Missense_Mutation SNP G G A rs114276662 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 206.0 92.0 195.0 0.0 0.446602 0 G|0.995;A|0.005 0.005 strong . BRDT 133 . NM_001242806 exon8 c.G1164A p.M388I GAGTATGCCTTTA . PASS Atlas-SNP UBA5 79876 hgsc.bcm.edu 37 3 132384704 132384704 + Missense_Mutation SNP G G A rs61748106 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 99.0 44.0 102.0 0.0 0.444444 0 G|0.999;A|0.001 0.001 strong UBA5,colon,carcinoma,0,1 UBA5 33 1 NM_024818 exon2 c.G199A p.D67N GTAAGCGACTATG . PASS Atlas-SNP PXDNL 137902 hgsc.bcm.edu 37 8 52321293 52321293 + Missense_Mutation SNP T T A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 103.0 54.0 106.0 0.0 0.524272 0 . . none . PXDNL 414 . NM_144651 exon17 c.A2891T p.H964L GCCAGATGCTCGT . PASS Atlas-SNP ND4L 0 hgsc.bcm.edu 37 MT 10688 10688 + Silent SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 9.0 9.0 11.0 0.0 1 0 . . none . . . . ENST00000361335 exon1 c.G219A p.V73V AGCGGTGGGCCTA . PASS Atlas-SNP PKMYT1 9088 hgsc.bcm.edu 37 16 3023185 3023185 + Missense_Mutation SNP G G A rs150931982 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 108.0 48.0 65.0 0.0 0.444444 0 G|0.995;A|0.005 0.005 strong . PKMYT1 23 . NM_004203 exon8 c.C1342T p.R448W CAGTCCGGGCCAG . PASS Atlas-SNP IGF2R 3482 hgsc.bcm.edu 37 6 160482929 160482929 + Missense_Mutation SNP C C G rs8191844 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 152.0 73.0 156.0 0.0 0.480263 0 C|0.991;G|0.009 0.009 strong . IGF2R 251 . NM_000876 exon25 c.C3551G p.T1184S TCTCCACCAGGAT . PASS Atlas-SNP DNAH5 1767 hgsc.bcm.edu 37 5 13841066 13841066 + Silent SNP G G A rs6880264 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 141.0 63.0 127.0 0.0 0.446809 0 G|0.985;A|0.015 0.015 strong . DNAH5 868 . NM_001369 exon34 c.C5658T p.Y1886Y AGTCTCGTATTTC . PASS Atlas-SNP LRRFIP2 9209 hgsc.bcm.edu 37 3 37154417 37154417 + Missense_Mutation SNP T T C rs34902788 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 46.0 16.0 43.0 0.0 0.347826 0 T|0.987;C|0.013 0.013 strong . LRRFIP2 71 . NM_006309 exon9 c.A427G p.K143E GGTCTTTATGAGA . PASS Atlas-SNP NR1D1 9572 hgsc.bcm.edu 37 17 38253469 38253469 + Silent SNP G G A rs9905506 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 176.0 84.0 153.0 0.0 0.477273 0 G|0.979;A|0.021 0.021 strong . NR1D1 45 . NM_021724 exon2 c.C219T p.P73P CAGGCTGGGTGGA . PASS Atlas-SNP DDX51 317781 hgsc.bcm.edu 37 12 132625884 132625884 + Missense_Mutation SNP C C T rs142395492 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 28.0 18.0 13.0 0.0 0.642857 0 C|0.992;T|0.008 0.008 strong . DDX51 33 . NM_175066 exon8 c.G1186A p.E396K GGTCCTCGCTCTG . PASS Atlas-SNP NCAM2 4685 hgsc.bcm.edu 37 21 22790831 22790831 + Silent SNP T T C rs986371 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 290.0 139.0 237.0 0.0 0.47931 0 T|0.992;C|0.008 0.008 strong . NCAM2 220 . NM_004540 exon11 c.T1422C p.N474N CTATAATTGCACA . PASS Atlas-SNP SIGLEC1 6614 hgsc.bcm.edu 37 20 3674170 3674170 + Silent SNP G G A rs61734520 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 119.0 69.0 130.0 0.0 0.579832 0 G|0.980;A|0.020 0.020 strong . SIGLEC1 210 . NM_023068 exon13 c.C3432T p.A1144A GGAGGTGGCATCC . PASS Atlas-SNP NAV2 89797 hgsc.bcm.edu 37 11 20070349 20070349 + Silent SNP C C T rs78806867 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 155.0 76.0 141.0 0.0 0.490323 0 C|0.988;T|0.012 0.012 strong . NAV2 255 . NM_001244963 exon16 c.C4047T p.S1349S CATCTCCAATCCT . PASS Atlas-SNP ANKRD16 54522 hgsc.bcm.edu 37 10 5920244 5920244 + Missense_Mutation SNP T T C rs61729846 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 47.0 30.0 33.0 0.0 0.638298 0 T|0.928;C|0.072 0.072 strong . ANKRD16 32 . NM_001009941 exon7 c.A935G p.H312R GCCAGATGCAGGG . PASS Atlas-SNP FASTKD1 79675 hgsc.bcm.edu 37 2 170403106 170403106 + Silent SNP G G A rs16857030 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 173.0 70.0 228.0 0.0 0.404624 0 G|0.902;A|0.098 0.098 strong . FASTKD1 86 . NM_024622 exon8 c.C1323T p.A441A TAAAACGGCTTCA . PASS Atlas-SNP MTMR3 8897 hgsc.bcm.edu 37 22 30403307 30403307 + Silent SNP C C T rs146523702 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 64.0 64.0 63.0 0.0 1 0 C|0.997;T|0.003 0.003 strong MTMR3_ENST00000401950,NS,lymphoid_neoplasm,+2,1 MTMR3 106 1 NM_021090 exon10 c.C876T p.F292F GGAGTTCGGTAAG . PASS Atlas-SNP CYP4F11 57834 hgsc.bcm.edu 37 19 16024605 16024605 + Silent SNP C C G rs75284625 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 150.0 81.0 130.0 0.0 0.54 0 C|0.990;G|0.010 0.010 strong . CYP4F11 83 . NM_001128932 exon13 c.G1512C p.L504L CAATATCAGCTCG . PASS Atlas-SNP TMEM203 94107 hgsc.bcm.edu 37 9 140099675 140099675 + Silent SNP G G A rs113235610 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 80.0 56.0 77.0 0.0 0.7 0 G|0.992;A|0.008 0.008 strong TMEM203,NS,carcinoma,0,1 TMEM203 8 1 NM_053045 exon1 c.C192T p.T64T GATGGTGGTGAAG . PASS Atlas-SNP CAAP1 79886 hgsc.bcm.edu 37 9 26842506 26842506 + Silent SNP G G A rs10967558 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 295.0 140.0 289.0 0.0 0.474576 0 G|0.941;A|0.059 0.059 strong . . . . NM_024828 exon6 c.C879T p.D293D CTCCAGGTCATCT . PASS Atlas-SNP BPTF 2186 hgsc.bcm.edu 37 17 65914911 65914911 + Silent SNP T T C rs80201495 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 148.0 76.0 153.0 0.0 0.513514 0 T|0.981;C|0.019 0.019 strong . BPTF 415 . NM_004459 exon14 c.T5763C p.D1921D GGATGATATGGCG . PASS Atlas-SNP GOLGA3 2802 hgsc.bcm.edu 37 12 133398638 133398638 + Missense_Mutation SNP G G A rs141852501 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 111.0 58.0 112.0 0.0 0.522523 0 G|0.997;A|0.003 0.003 strong . GOLGA3 234 . NM_001172557 exon2 c.C77T p.A26V AGTGGGGCCTCGG . PASS Atlas-SNP KRTAP13-4 284827 hgsc.bcm.edu 37 21 31802621 31802621 + Missense_Mutation SNP T T A rs73899382 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 238.0 102.0 206.0 0.0 0.428571 0 T|0.992;A|0.008 0.008 strong . KRTAP13-4 46 . NM_181600 exon1 c.T28A p.F10I AGAAACTTCTCCT . PASS Atlas-SNP ATPAF2 91647 hgsc.bcm.edu 37 17 17924447 17924447 + Missense_Mutation SNP T T C rs34607655 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 107.0 56.0 81.0 0.0 0.523364 0 T|0.996;C|0.004 0.004 strong . ATPAF2 15 . NM_145691 exon7 c.A722G p.E241G TACTCCTCCTCCA . PASS Atlas-SNP LYST 1130 hgsc.bcm.edu 37 1 235933535 235933535 + Missense_Mutation SNP C C G rs6665568 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 154.0 74.0 172.0 0.0 0.480519 0 C|0.943;G|0.057 0.057 strong . LYST 370 . NM_000081 exon20 c.G5847C p.Q1949H CATCTGCTGGTGG . PASS Atlas-SNP ABCA9 10350 hgsc.bcm.edu 37 17 67031882 67031882 + Silent SNP A A G rs16973534 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 430.0 196.0 435.0 0.0 0.455814 0 A|0.970;G|0.030 0.030 strong . ABCA9 192 . NM_080283 exon7 c.T861C p.L287L TACAATAAGAGCC . PASS Atlas-SNP ASH1L 55870 hgsc.bcm.edu 37 1 155451343 155451343 + Missense_Mutation SNP A A C rs114218266 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 179.0 77.0 137.0 0.0 0.430168 0 A|0.981;C|0.019 0.019 strong . ASH1L 279 . NM_018489 exon3 c.T1318G p.C440G TACTACAAGAAGC . PASS Atlas-SNP PLCD4 84812 hgsc.bcm.edu 37 2 219483526 219483526 + Missense_Mutation SNP G G C rs200863393 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 101.0 48.0 88.0 0.0 0.475248 0 G|1.000;C|0.000 0.000 strong . PLCD4 51 . NM_032726 exon4 c.G406C p.D136H CGCCTGGACCAGT . PASS Atlas-SNP TENM3 55714 hgsc.bcm.edu 37 4 183594275 183594275 + Missense_Mutation SNP T T C rs201144002 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 195.0 100.0 210.0 1.0 0.512821 0.0047619 . . weak . . . . NM_001080477 exon6 c.T1229C p.I410T TCTTCATTGATCA . PASS Atlas-SNP CTXN3 613212 hgsc.bcm.edu 37 5 126993262 126993262 + Missense_Mutation SNP G G A rs61743797 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 83.0 49.0 68.0 0.0 0.590361 0 G|0.998;A|0.002 0.002 strong . CTXN3 19 . NM_001048252 exon3 c.G49A p.E17K GGGAACGAATCAG . PASS Atlas-SNP CELSR1 9620 hgsc.bcm.edu 37 22 46777896 46777896 + Missense_Mutation SNP C C G rs7287089 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 29.0 12.0 15.0 0.0 0.413793 0 C|0.985;G|0.015 0.015 strong . CELSR1 242 . NM_014246 exon21 c.G6935C p.R2312P CCCGGGCGCGTGG . PASS Atlas-SNP DHX8 1659 hgsc.bcm.edu 37 17 41570819 41570819 + Silent SNP G G A rs146528228 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 127.0 60.0 109.0 0.0 0.472441 0 G|0.998;A|0.002 0.002 strong . DHX8 98 . NM_004941 exon7 c.G870A p.R290R GAAGCGGTGGGAA . PASS Atlas-SNP CLEC12B 387837 hgsc.bcm.edu 37 12 10163381 10163381 + Missense_Mutation SNP C C T rs11833101 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 77.0 28.0 67.0 0.0 0.363636 0 C|0.976;T|0.024 0.024 strong . CLEC12B 25 . NM_001129998 exon1 c.C23T p.A8V CCTACGCGACACT . PASS Atlas-SNP ZNF444 55311 hgsc.bcm.edu 37 19 56669889 56669889 + Silent SNP G G A rs61736530 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 214.0 214.0 214.0 0.0 1 0 G|0.981;A|0.019 0.019 strong . ZNF444 15 . NM_001253792 exon4 c.G324A p.S108S TGGGTCGTCAGCA . PASS Atlas-SNP BLZF1 8548 hgsc.bcm.edu 37 1 169345883 169345883 + Missense_Mutation SNP A A G rs112226207 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 144.0 71.0 143.0 0.0 0.493056 0 A|0.997;G|0.003 0.003 strong . BLZF1 57 . NM_003666 exon3 c.A134G p.H45R AGCATCATAGTCT . PASS Atlas-SNP CSF1 1435 hgsc.bcm.edu 37 1 110466776 110466776 + Silent SNP C C T rs3208449 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 96.0 51.0 69.0 0.0 0.53125 0 C|0.996;T|0.004 0.004 strong . CSF1 40 . NM_000757 exon6 c.C1533T p.A511A GCTGGCCGTCGGA . PASS Atlas-SNP PASK 23178 hgsc.bcm.edu 37 2 242065635 242065635 + Missense_Mutation SNP A A G rs77674262 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 143.0 74.0 126.0 0.0 0.517483 0 A|0.979;G|0.021 0.021 strong . PASK 230 . NM_015148 exon10 c.T2695C p.Y899H GATGGTAGCAGCT . PASS Atlas-SNP USP46 64854 hgsc.bcm.edu 37 4 53494283 53494283 + Silent SNP G G A rs115007179 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 102.0 101.0 102.0 0.0 0.990196 0 G|0.997;A|0.003 0.003 strong . USP46 38 . NM_022832 exon3 c.C165T p.F55F ACGGCAGAAGTAC . PASS Atlas-SNP TTC17 55761 hgsc.bcm.edu 37 11 43413028 43413028 + Missense_Mutation SNP A A C rs12099204 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 203.0 203.0 195.0 1.0 1 0.00512821 A|0.883;C|0.117 0.117 strong . TTC17 112 . NM_018259 exon4 c.A433C p.I145L GATTATATAGACA . PASS Atlas-SNP PIK3C2G 5288 hgsc.bcm.edu 37 12 18499629 18499629 + Missense_Mutation SNP A A T rs77656456 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 149.0 73.0 119.0 0.0 0.489933 0 A|0.998;T|0.002 0.002 strong . PIK3C2G 315 . NM_004570 exon11 c.A1484T p.N495I TAATCAATGTCTA . PASS Atlas-SNP NWD1 284434 hgsc.bcm.edu 37 19 16860685 16860685 + Missense_Mutation SNP C C T rs61998161 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 85.0 42.0 70.0 0.0 0.494118 0 C|0.979;T|0.021 0.021 strong . NWD1 303 . NM_001007525 exon6 c.C1232T p.T411I CCCACACCAGGGT . PASS Atlas-SNP SSPO 23145 hgsc.bcm.edu 37 7 149499254 149499254 + Missense_Mutation SNP G G A rs59522380 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 44.0 21.0 26.0 0.0 0.477273 0 G|0.945;A|0.055 0.055 strong . . . . NM_198455 exon51 c.G7622A p.R2541Q GTGACCGGTTCCG . PASS Atlas-SNP PTPRA 5786 hgsc.bcm.edu 37 20 2969015 2969015 + Silent SNP C C G rs61742610 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 145.0 80.0 133.0 0.0 0.551724 0 C|0.977;G|0.023 0.023 strong . PTPRA 75 . NM_002836 exon13 c.C633G p.S211S CAGATCCCCAAGC . PASS Atlas-SNP MS4A14 84689 hgsc.bcm.edu 37 11 60183401 60183401 + Missense_Mutation SNP G G T rs376669252 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 164.0 77.0 168.0 0.0 0.469512 0 . . weak . MS4A14 120 . NM_001261828 exon6 c.G1059T p.L353F AGACTTGCCATCC . PASS Atlas-SNP LBP 3929 hgsc.bcm.edu 37 20 36982785 36982785 + Missense_Mutation SNP C C G rs2232586 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 56.0 32.0 66.0 0.0 0.571429 0 C|0.994;G|0.006 0.006 strong . LBP 60 . NM_004139 exon4 c.C470G p.S157C CTGCCTCCAGCTG . PASS Atlas-SNP PSAPL1 768239 hgsc.bcm.edu 37 4 7436151 7436151 + Silent SNP T T C rs61738663 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 51.0 22.0 66.0 0.0 0.431373 0 T|0.963;C|0.037 0.037 strong . PSAPL1 51 . NM_001085382 exon1 c.A456G p.P152P GGAGAGTGGCCTC . PASS Atlas-SNP USP2 9099 hgsc.bcm.edu 37 11 119243912 119243912 + Silent SNP C C T rs79464246 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 90.0 50.0 73.0 0.0 0.555556 0 C|0.991;T|0.009 0.009 strong . USP2 71 . NM_004205 exon2 c.G279A p.E93E CTGGCTCTCTGCC . PASS Atlas-SNP GPRC5D 55507 hgsc.bcm.edu 37 12 13103196 13103196 + Silent SNP G G A rs150759739 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 70.0 48.0 74.0 0.0 0.685714 0 G|0.997;A|0.003 0.003 strong . GPRC5D 23 . NM_018654 exon1 c.C123T p.L41L TGCTAAGAGTAGC . PASS Atlas-SNP DVL1 1855 hgsc.bcm.edu 37 1 1277183 1277183 + Missense_Mutation SNP C C T rs61735963 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 107.0 50.0 88.0 0.0 0.46729 0 C|0.931;T|0.069 0.069 strong . DVL1 36 . NM_004421 exon5 c.G469A p.A157T TCCGGGCGGCTGT . PASS Atlas-SNP KRTAP4-9 100132386 hgsc.bcm.edu 37 17 39262103 39262103 + Missense_Mutation SNP A A T rs374629799 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 186.0 42.0 125.0 0.0 0.225806 0 . . weak KRTAP4-9_ENST00000377734,NS,carcinoma,0,2 KRTAP4-9 110 2 NM_001146041 exon1 c.A463T p.S155C AGCTGCAGCATCT . PASS Atlas-SNP UMODL1 89766 hgsc.bcm.edu 37 21 43536047 43536047 + Silent SNP C C T rs141581454 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 233.0 116.0 212.0 0.0 0.497854 0 C|0.998;T|0.002 0.002 strong . UMODL1 186 . NM_173568 exon13 c.C2811T p.N937N TCGCAACGCAAGC . PASS Atlas-SNP NDNL2 56160 hgsc.bcm.edu 37 15 29561467 29561467 + Missense_Mutation SNP T T G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 116.0 58.0 111.0 0.0 0.5 0 . . none . NDNL2 19 . NM_138704 exon1 c.A443C p.K148T TTGCTCTTGGGTT . PASS Atlas-SNP TRANK1 9881 hgsc.bcm.edu 37 3 36898699 36898699 + Silent SNP G G A rs187740236 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 74.0 35.0 54.0 0.0 0.472973 0 G|0.998;A|0.002 0.002 strong . TRANK1 398 . NM_014831 exon12 c.C2382T p.C794C TGAAGTGCACTCG . PASS Atlas-SNP GRM5 2915 hgsc.bcm.edu 37 11 88338074 88338074 + Silent SNP G G A rs61745770 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 71.0 40.0 65.0 0.0 0.56338 0 G|0.971;A|0.029 0.029 strong . GRM5 414 . NM_000842 exon5 c.C1206T p.N402N GATGGCGTTGATC . PASS Atlas-SNP ABCA13 154664 hgsc.bcm.edu 37 7 48452147 48452147 + Silent SNP G G A rs369363967 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 152.0 85.0 121.0 0.0 0.559211 0 . . weak . ABCA13 1192 . NM_152701 exon41 c.G12426A p.T4142T CCTGACGGGCTAT . PASS Atlas-SNP CEP55 55165 hgsc.bcm.edu 37 10 95262980 95262980 + Silent SNP C C T rs62642530 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 82.0 43.0 102.0 0.0 0.52439 0 C|0.996;T|0.004 0.004 strong . CEP55 35 . NM_018131 exon3 c.C294T p.T98T TACTACCACATTG . PASS Atlas-SNP MYH1 4619 hgsc.bcm.edu 37 17 10404766 10404766 + Silent SNP C C T rs61730793 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 160.0 86.0 144.0 0.0 0.5375 0 C|0.994;T|0.006 0.006 strong . MYH1 403 . NM_005963 exon27 c.G3399A p.R1133R TTTGGCCCGGGAG . PASS Atlas-SNP POP5 51367 hgsc.bcm.edu 37 12 121019009 121019009 + Silent SNP G G C rs74750729 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 85.0 45.0 88.0 0.0 0.529412 0 G|0.998;C|0.002 0.002 strong . POP5 14 . NM_198202 exon2 c.C72G p.L24L GTCATCGAGGCTT . PASS Atlas-SNP LILRA2 11027 hgsc.bcm.edu 37 19 55098742 55098742 + Missense_Mutation SNP G G T rs73939008 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 253.0 109.0 227.0 0.0 0.43083 0 G|0.991;T|0.009 0.009 strong LILRA2,right_upper_lobe,carcinoma,0,1 LILRA2 99 1 NM_001130917 exon8 c.G1381T p.V461L GTCCTGGTGGTCC . PASS Atlas-SNP DMD 1756 hgsc.bcm.edu 37 X 32466654 32466654 + Silent SNP G G A rs143628111 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 258.0 127.0 269.0 0.0 0.492248 0 G|0.983;A|0.017 0.017 strong . DMD 2127 . NM_004006 exon27 c.C3705T p.A1235A TTTTAAGGCCTCT . PASS Atlas-SNP TICRR 90381 hgsc.bcm.edu 37 15 90167610 90167610 + Missense_Mutation SNP G G T rs115865608 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 60.0 34.0 63.0 0.0 0.566667 0 G|0.996;T|0.004 0.004 strong . . . . NM_152259 exon20 c.G4069T p.V1357F TGCCCTGTTCCCT . PASS Atlas-SNP C1orf112 55732 hgsc.bcm.edu 37 1 169796859 169796859 + Silent SNP A A C rs149832132 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 26.0 67.0 0.0 0.342105 0 A|0.997;C|0.003 0.003 strong . C1orf112 74 . NM_018186 exon12 c.A1005C p.P335P CCTGCCATGTGAA . PASS Atlas-SNP C16orf82 162083 hgsc.bcm.edu 37 16 27078705 27078705 + Missense_Mutation SNP T T C rs115398674 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 74.0 26.0 66.0 0.0 0.351351 0 T|0.980;C|0.020 0.020 strong . . . . NM_001145545 exon1 c.T389C p.I130T GCTCCATAGACCC . PASS Atlas-SNP NID2 22795 hgsc.bcm.edu 37 14 52493996 52493996 + Missense_Mutation SNP C C T rs28507587 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 107.0 51.0 70.0 0.0 0.476636 0 C|0.979;T|0.021 0.021 strong NID2,NS,carcinoma,-1,1 NID2 201 1 NM_007361 exon12 c.G2597A p.R866Q ACACACCGGGCCT . PASS Atlas-SNP FBXW9 84261 hgsc.bcm.edu 37 19 12800597 12800597 + Missense_Mutation SNP T T C rs73921601 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 84.0 29.0 85.0 0.0 0.345238 0 T|0.944;C|0.056 0.056 strong FBXW9_ENST00000393261,caecum,carcinoma,+1,3 FBXW9 30 3 NM_032301 exon7 c.A1124G p.N375S CAGCCGTTGCGGT . PASS Atlas-SNP UBR4 23352 hgsc.bcm.edu 37 1 19451090 19451090 + Missense_Mutation SNP T T C rs183578825 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 167.0 79.0 164.0 0.0 0.473054 0 T|0.999;C|0.001 0.001 strong UBR4,NS,carcinoma,0,1 UBR4 415 1 NM_020765 exon65 c.A9533G p.N3178S CGAGAATTGGTGT . PASS Atlas-SNP ZDHHC19 131540 hgsc.bcm.edu 37 3 195935346 195935346 + Missense_Mutation SNP C C T rs75505676 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 244.0 116.0 242.0 0.0 0.47541 0 C|0.996;T|0.004 0.004 strong . ZDHHC19 25 . NM_001039617 exon4 c.G494A p.C165Y TAGAGGCACAGGG . PASS Atlas-SNP WDR4 10785 hgsc.bcm.edu 37 21 44273691 44273691 + Silent SNP G G A rs146863277 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 69.0 43.0 61.0 0.0 0.623188 0 G|0.995;A|0.005 0.005 strong . WDR4 35 . NM_018669 exon9 c.C963T p.G321G CTGGTCGCCCACA . PASS Atlas-SNP BRWD1 54014 hgsc.bcm.edu 37 21 40590176 40590176 + Silent SNP G G T rs76171323 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 112.0 66.0 114.0 0.0 0.589286 0 G|0.984;T|0.016 0.016 strong BRWD1_ENST00000333229,NS,lymphoid_neoplasm,0,2 BRWD1 325 2 NM_018963 exon31 c.C3561A p.G1187G AACAGGGCCTGCA . PASS Atlas-SNP ZNF780A 284323 hgsc.bcm.edu 37 19 40580426 40580426 + Silent SNP A A G rs399405 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 268.0 268.0 247.0 0.0 1 0 A|0.899;G|0.101 0.101 strong . ZNF780A 156 . NM_001142577 exon6 c.T1926C p.S642S CATTCAAGATGCC . PASS Atlas-SNP FLG 2312 hgsc.bcm.edu 37 1 152285188 152285188 + Missense_Mutation SNP G G A rs80233522 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 274.0 272.0 243.0 1.0 0.992701 0.00411523 . . weak . FLG 900 . NM_002016 exon3 c.C2174T p.T725I TGCCCAGTGCCTG . PASS Atlas-SNP EFEMP1 2202 hgsc.bcm.edu 37 2 56145110 56145110 + Silent SNP G G T rs12292 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 229.0 122.0 248.0 0.0 0.532751 0 G|0.951;T|0.049 0.049 strong . EFEMP1 81 . NM_001039349 exon4 c.C207A p.L69L AAGGCAGAGGTAT . PASS Atlas-SNP APPBP2 10513 hgsc.bcm.edu 37 17 58603185 58603185 + Silent SNP G G C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 134.0 73.0 134.0 0.0 0.544776 0 . . none . APPBP2 48 . NM_006380 exon1 c.C108G p.P36P GTTCTCGGGCAAG . PASS Atlas-SNP AEBP1 165 hgsc.bcm.edu 37 7 44146151 44146151 + Missense_Mutation SNP C C T rs75107445 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 46.0 19.0 40.0 0.0 0.413043 0 C|0.999;T|0.001 0.001 strong AEBP1,larynx,carcinoma,-1,1 AEBP1 102 1 NM_001129 exon2 c.C260T p.P87L TGCCTCCGGAAAA . PASS Atlas-SNP PKMYT1 9088 hgsc.bcm.edu 37 16 3026956 3026956 + Silent SNP T T C rs4149786 bycluster;byfrequency;byhapmap TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 65.0 21.0 76.0 0.0 0.323077 0 T|0.993;C|0.007 0.007 strong . PKMYT1 23 . NM_182687 exon3 c.A87G p.P29P GTAGGCTGGGACT . PASS Atlas-SNP LILRA3 11026 hgsc.bcm.edu 37 19 54803141 54803141 + Missense_Mutation SNP C C T rs147561158 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 346.0 167.0 315.0 2.0 0.482659 0.00634921 C|0.998;T|0.002 0.002 strong LILRA3,right_upper_lobe,carcinoma,0,2 LILRA3 65 2 NM_006865 exon4 c.G536A p.R179Q ATGGCCCGGGATG . scavenged Atlas-SNP OTC 5009 hgsc.bcm.edu 37 X 38260570 38260570 + Silent SNP T T C rs145777402 byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 179.0 74.0 229.0 0.0 0.413408 0 T|0.994;C|0.006 0.006 strong . OTC 60 . NM_000531 exon5 c.T429C p.Y143Y AGTGTATAAACAA . PASS Atlas-SNP ODF1 4956 hgsc.bcm.edu 37 8 103573024 103573024 + Missense_Mutation SNP G G A rs111689913 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 106.0 42.0 145.0 0.0 0.396226 0 G|0.893;A|0.107 0.107 strong . ODF1 55 . NM_024410 exon2 c.G665A p.S222N CCTGCAGCCCCTG . PASS Atlas-SNP TSC22D2 9819 hgsc.bcm.edu 37 3 150176316 150176316 + Missense_Mutation SNP C C A rs149526922 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 275.0 129.0 272.0 0.0 0.469091 0 C|0.999;A|0.001 0.001 strong . TSC22D2 42 . NM_014779 exon4 c.C2236A p.P746T CAACTCCCAACCC . PASS Atlas-SNP FAM207A 85395 hgsc.bcm.edu 37 21 46380068 46380068 + Missense_Mutation SNP G G A rs141593051 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 95.0 47.0 114.0 0.0 0.494737 0 G|0.999;A|0.001 0.001 strong . . . . NM_058190 exon3 c.G337A p.E113K AGGCGTGAGCAAT . PASS Atlas-SNP LEFTY1 10637 hgsc.bcm.edu 37 1 226076598 226076598 + Missense_Mutation SNP C C T rs35273824 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 194.0 103.0 187.0 0.0 0.530928 0 C|0.956;T|0.044 0.044 strong . LEFTY1 30 . NM_020997 exon1 c.G169A p.V57M CCCTCACGTGGGT . PASS Atlas-SNP FGF4 2249 hgsc.bcm.edu 37 11 69588798 69588798 + Silent SNP A A G rs61738964 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 174.0 83.0 131.0 0.0 0.477012 0 A|0.994;G|0.006 0.006 strong . FGF4 13 . NM_002007 exon2 c.T438C p.Y146Y CGAGCCATAGAGC . PASS Atlas-SNP APC2 10297 hgsc.bcm.edu 37 19 1469078 1469078 + Silent SNP G G A rs79021820 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 29.0 19.0 11.0 0.0 0.655172 0 G|0.949;A|0.051 0.051 strong . APC2 50 . NM_005883 exon15 c.G5778A p.S1926S GAGATCGCCCGTG . PASS Atlas-SNP FRAS1 80144 hgsc.bcm.edu 37 4 79351542 79351542 + Missense_Mutation SNP C C T rs34271211 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 86.0 38.0 100.0 0.0 0.44186 0 C|0.992;T|0.008 0.008 strong . FRAS1 779 . NM_001166133 exon37 c.C4940T p.T1647I AGCATACAGCTGA . PASS Atlas-SNP CAAP1 79886 hgsc.bcm.edu 37 9 26861106 26861106 + Missense_Mutation SNP C C T rs12342214 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 170.0 72.0 175.0 0.0 0.423529 0 C|0.939;T|0.061 0.061 strong . . . . NM_024828 exon5 c.G697A p.V233M CTCTCACGGATGA . PASS Atlas-SNP TXNDC5 81567 hgsc.bcm.edu 37 6 7883386 7883386 + Silent SNP G G A rs9502656 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 65.0 25.0 67.0 0.0 0.384615 0 G|0.920;A|0.080 0.080 strong . TXNDC5 33 . NM_030810 exon10 c.C1290T p.D430D AAGTTCGTCTTTC . PASS Atlas-SNP PGAM2 5224 hgsc.bcm.edu 37 7 44104805 44104805 + Silent SNP C C T rs112828964 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 280.0 131.0 256.0 0.0 0.467857 0 C|0.968;T|0.032 0.032 strong . PGAM2 20 . NM_000290 exon1 c.G324A p.G108G CTCCTCCCCGTGC . PASS Atlas-SNP PUM2 23369 hgsc.bcm.edu 37 2 20508156 20508156 + Silent SNP C C T rs34057700 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 180.0 85.0 177.0 0.0 0.472222 0 C|0.974;T|0.026 0.026 strong . PUM2 91 . NM_015317 exon5 c.G708A p.Q236Q GTCAAACTGTAAG . PASS Atlas-SNP FAT1 2195 hgsc.bcm.edu 37 4 187542432 187542432 + Missense_Mutation SNP A A G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 264.0 125.0 244.0 0.0 0.473485 0 . . none . FAT1 500 . NM_005245 exon10 c.T5308C p.Y1770H CTGTATATTCTGC . PASS Atlas-SNP RNF207 388591 hgsc.bcm.edu 37 1 6278425 6278425 + Missense_Mutation SNP G G A rs61746089 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 96.0 51.0 91.0 0.0 0.53125 0 G|0.991;A|0.009 0.009 strong . RNF207 45 . NM_207396 exon17 c.G1729A p.A577T GCCTCAGCCAGGT . PASS Atlas-SNP ANKRD36B 57730 hgsc.bcm.edu 37 2 98206012 98206012 + Missense_Mutation SNP G G A rs185401750 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 259.0 124.0 292.0 1.0 0.478764 0.00342466 G|0.989;A|0.011 0.011 strong . . . . NM_025190 exon1 c.C137T p.A46V TTATTGGCGTCAT . PASS Atlas-SNP SEMA3E 9723 hgsc.bcm.edu 37 7 83035289 83035289 + Silent SNP A A G rs28505908 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 104.0 51.0 89.0 0.0 0.490385 0 A|0.987;G|0.013 0.013 strong . SEMA3E 125 . NM_012431 exon8 c.T900C p.N300N AATTCCATTCATT . PASS Atlas-SNP HYI 81888 hgsc.bcm.edu 37 1 43917098 43917098 + Missense_Mutation SNP C C G rs79439514 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 42.0 18.0 37.0 0.0 0.428571 0 C|0.974;G|0.026 0.026 strong . HYI 23 . NM_001190880 exon7 c.G743C p.C248S TACTCACAGCCCA . PASS Atlas-SNP SMARCA2 6595 hgsc.bcm.edu 37 9 2039776 2039776 + Silent SNP A A G rs13296987 byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 52.0 90.0 1.0 0.52 0.0111111 A|0.750;G|0.250 0.250 strong SMARCA2_ENST00000349721,NS,carcinoma,0,2 SMARCA2 313 2 NM_139045 exon4 c.A666G p.Q222Q GCAGCAACAGCAG . scavenged Atlas-SNP UBA1 7317 hgsc.bcm.edu 37 X 47070468 47070468 + Missense_Mutation SNP A A C rs143044923 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 143.0 69.0 128.0 0.0 0.482517 0 A|0.994;C|0.006 0.006 strong . UBA1 89 . NM_153280 exon20 c.A2308C p.N770H GCTGCCAACCTGT . PASS Atlas-SNP POM121L12 285877 hgsc.bcm.edu 37 7 53103540 53103540 + Missense_Mutation SNP C C G rs78135827 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 78.0 33.0 57.0 0.0 0.423077 0 C|0.965;G|0.035 0.035 strong POM121L12,NS,carcinoma,0,1 POM121L12 146 1 NM_182595 exon1 c.C176G p.T59S CCCTGACTCAGAG . PASS Atlas-SNP C2orf16 84226 hgsc.bcm.edu 37 2 27804691 27804691 + Missense_Mutation SNP A A G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 157.0 13.0 169.0 0.0 0.0828025 0 . . none . C2orf16 357 . NM_032266 exon1 c.A5252G p.H1751R GACATCACAGTCC . PASS Atlas-SNP HSD17B13 345275 hgsc.bcm.edu 37 4 88243832 88243832 + Silent SNP A A G rs137887488 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 186.0 89.0 173.0 0.0 0.478495 0 A|0.996;G|0.004 0.004 strong . HSD17B13 27 . NM_178135 exon1 c.T162C p.Y54Y AAATTCATAAGTA . PASS Atlas-SNP SPHK2 56848 hgsc.bcm.edu 37 19 49131317 49131317 + Silent SNP G G T rs116785119 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 65.0 37.0 61.0 0.0 0.569231 0 G|0.996;T|0.004 0.004 strong . SPHK2 62 . NM_020126 exon5 c.G747T p.L249L CGGGCTGCTCCAT . PASS Atlas-SNP SVEP1 79987 hgsc.bcm.edu 37 9 113169816 113169816 + Silent SNP T T C rs116159392 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 118.0 75.0 151.0 0.0 0.635593 0 T|0.959;C|0.041 0.041 strong SVEP1,NS,carcinoma,0,1 SVEP1 326 1 NM_153366 exon38 c.A8064G p.G2688G TTCATATCCTGGA . PASS Atlas-SNP MYO10 4651 hgsc.bcm.edu 37 5 16701717 16701717 + Silent SNP C C T rs149110 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 46.0 90.0 0.0 0.494624 0 C|0.928;T|0.072 0.072 strong . MYO10 198 . NM_012334 exon25 c.G2787A p.R929R CTCCAGCCTGCGG . PASS Atlas-SNP CAP2 10486 hgsc.bcm.edu 37 6 17507504 17507504 + Silent SNP C C G rs146710056 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 128.0 66.0 134.0 0.0 0.515625 0 C|0.998;G|0.002 0.002 strong . CAP2 61 . NM_006366 exon5 c.C405G p.A135A TTCGGCCGTCAGC . PASS Atlas-SNP ATP8B1 5205 hgsc.bcm.edu 37 18 55334339 55334339 + Missense_Mutation SNP T T C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 95.0 4.0 91.0 0.0 0.0421053 0 . . none . ATP8B1 126 . NM_005603 exon20 c.A2270G p.Y757C TCCCCATAGCAGA . PASS Atlas-SNP CT47B1 643311 hgsc.bcm.edu 37 X 120008932 120008932 + Missense_Mutation SNP T T C rs193289998 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 77.0 22.0 94.0 0.0 0.285714 0 T|0.985;C|0.015 0.015 strong . CT47B1 67 . NM_001145718 exon1 c.A593G p.E198G GCGGCCTCCTGGA . PASS Atlas-SNP ABCC3 8714 hgsc.bcm.edu 37 17 48734136 48734136 + Missense_Mutation SNP G G A rs35777968 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 106.0 51.0 115.0 0.0 0.481132 0 G|0.987;A|0.013 0.013 strong . ABCC3 138 . NM_003786 exon3 c.G296A p.R99Q ATGGCCGGGCCCC . PASS Atlas-SNP MLL2 8085 hgsc.bcm.edu 37 12 49433356 49433356 + Silent SNP G G A rs116686402 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 43.0 17.0 30.0 0.0 0.395349 0 G|0.986;A|0.014 0.014 strong . MLL2 1173 . NM_003482 exon32 c.C8091T p.R2697R GGTGTTGCGCTGG . PASS Atlas-SNP ALDH16A1 126133 hgsc.bcm.edu 37 19 49969522 49969522 + Silent SNP C C T rs116631301 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 34.0 16.0 34.0 0.0 0.470588 0 C|0.992;T|0.008 0.008 strong . ALDH16A1 54 . NM_153329 exon14 c.C1920T p.A640A GCAGGCCCAAGGC . PASS Atlas-SNP SOX10 6663 hgsc.bcm.edu 37 22 38379543 38379543 + Silent SNP G G A rs73415876 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 120.0 65.0 84.0 0.0 0.541667 0 A|0.044;G|0.956 0.044 strong . SOX10 48 . NM_006941 exon2 c.C249T p.Y83Y CCAGTCGTAGCCG . PASS Atlas-SNP CLCN6 1185 hgsc.bcm.edu 37 1 11884586 11884586 + Silent SNP G G A rs60602304 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 99.0 53.0 105.0 0.0 0.535354 0 G|0.970;A|0.030 0.030 strong . CLCN6 77 . NM_001286 exon8 c.G624A p.S208S TGGTTCGGTGGTG . PASS Atlas-SNP RAPGEF3 10411 hgsc.bcm.edu 37 12 48134768 48134768 + Missense_Mutation SNP A A T rs80097705 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 134.0 61.0 118.0 0.0 0.455224 0 A|0.965;T|0.035 0.035 strong . RAPGEF3 98 . NM_001098531 exon20 c.T1979A p.L660Q CTCACCAGGTCCA . PASS Atlas-SNP RANBP2 5903 hgsc.bcm.edu 37 2 109384665 109384665 + Missense_Mutation SNP A A G rs79989901 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 378.0 186.0 369.0 0.0 0.492063 0 . . weak . RANBP2 488 . NM_006267 exon20 c.A7670G p.N2557S GTAACAATAGTGA . PASS Atlas-SNP PALD1 27143 hgsc.bcm.edu 37 10 72294192 72294192 + Missense_Mutation SNP C C T rs141167395 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 92.0 40.0 93.0 0.0 0.434783 0 C|0.999;T|0.001 0.001 strong . . . . NM_014431 exon9 c.C1034T p.T345M CCCCCACGCAGGC . PASS Atlas-SNP SLC43A2 124935 hgsc.bcm.edu 37 17 1494660 1494660 + Silent SNP G G A rs73976240 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 83.0 48.0 74.0 0.0 0.578313 0 G|0.971;A|0.029 0.029 strong . SLC43A2 37 . NM_152346 exon8 c.C834T p.S278S CCTCATGGAGCTG . PASS Atlas-SNP APLNR 187 hgsc.bcm.edu 37 11 57003581 57003581 + Missense_Mutation SNP C C T rs7943508 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 152.0 86.0 124.0 0.0 0.565789 0 C|0.986;T|0.014 0.014 strong APLNR,caecum,carcinoma,0,2 APLNR 62 2 NM_005161 exon1 c.G898A p.V300I TGTTGACGTAGCT . PASS Atlas-SNP SLC4A8 9498 hgsc.bcm.edu 37 12 51855009 51855009 + Silent SNP T T G rs150970094 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 164.0 78.0 151.0 0.0 0.47561 0 T|0.997;G|0.003 0.003 strong SLC4A8,back,malignant_melanoma,+2,1 SLC4A8 292 1 NM_001039960 exon9 c.T1035G p.G345G ATTGGGTCCAGTA . PASS Atlas-SNP DLG5 9231 hgsc.bcm.edu 37 10 79556301 79556301 + Missense_Mutation SNP A A G rs74140333 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 211.0 98.0 249.0 0.0 0.464455 0 A|0.989;G|0.011 0.011 strong . DLG5 154 . NM_004747 exon28 c.T5216C p.L1739P GGCCTCAGAGCGG . PASS Atlas-SNP SPECC1L 23384 hgsc.bcm.edu 37 22 24761502 24761502 + Silent SNP G G A rs139166286 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 72.0 36.0 67.0 0.0 0.5 0 A|0.002;G|0.998 0.002 strong . SPECC1L 85 . NM_001145468 exon12 c.G2886A p.S962S AGCGTCGCCAGCC . PASS Atlas-SNP CDC27 996 hgsc.bcm.edu 37 17 45214623 45214623 + Missense_Mutation SNP G G A rs75637741 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 36.0 8.0 25.0 0.0 0.222222 0 . . weak CDC27_ENST00000531206,rectum,carcinoma,0,2 CDC27 337 2 NM_001114091 exon14 c.C1826T p.A609V GTATAGGCATAAG . scavenged Atlas-SNP ATP6V1C1 528 hgsc.bcm.edu 37 8 104054603 104054603 + Silent SNP T T C rs7009365 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 157.0 82.0 201.0 0.0 0.522293 0 T|0.922;C|0.078 0.078 strong . ATP6V1C1 33 . NM_001695 exon3 c.T168C p.D56D GTCAGATGAACTG . PASS Atlas-SNP PCDHB6 56130 hgsc.bcm.edu 37 5 140530534 140530534 + Missense_Mutation SNP G G C rs10076554 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 108.0 53.0 103.0 0.0 0.490741 0 G|0.986;C|0.014 0.014 strong . PCDHB6 161 . NM_018939 exon1 c.G696C p.L232F GGTTTTGGACATC . PASS Atlas-SNP DBNL 28988 hgsc.bcm.edu 37 7 44096482 44096482 + Missense_Mutation SNP G G A rs61735009 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 104.0 45.0 66.0 0.0 0.432692 0 A|0.013;C|0.000;G|0.987 0.013 strong . DBNL 26 . NM_001122956 exon5 c.G454A p.V152M CAGGACGTGGGAC . PASS Atlas-SNP FREM2 341640 hgsc.bcm.edu 37 13 39263422 39263422 + Silent SNP C C T rs41292751 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 95.0 49.0 92.0 0.0 0.515789 0 C|0.973;T|0.027 0.027 strong . FREM2 385 . NM_207361 exon1 c.C1941T p.D647D GCAGGACATAACA . PASS Atlas-SNP VWCE 220001 hgsc.bcm.edu 37 11 61048322 61048322 + Silent SNP G G C rs61744427 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 67.0 36.0 51.0 0.0 0.537313 0 G|0.971;C|0.029 0.029 strong . VWCE 84 . NM_152718 exon8 c.C1173G p.A391A ATGCATGGCTCCC . PASS Atlas-SNP MFAP3L 9848 hgsc.bcm.edu 37 4 170912685 170912685 + Silent SNP T T C rs61740817 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 213.0 105.0 168.0 0.0 0.492958 0 T|0.933;C|0.067 0.067 strong MFAP3L,NS,carcinoma,-2,1 MFAP3L 59 1 NM_021647 exon3 c.A1074G p.E358E AGAAGGTTCTGCA . PASS Atlas-SNP RAI14 26064 hgsc.bcm.edu 37 5 34814745 34814745 + Missense_Mutation SNP T T C rs150350937 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 291.0 150.0 318.0 0.0 0.515464 0 T|1.000;C|0.000 0.000 weak RAI14,scalp,malignant_melanoma,-1,1 RAI14 100 1 NM_001145525 exon14 c.T919C p.S307P AAGGAATCGGTAT . PASS Atlas-SNP ZNF808 388558 hgsc.bcm.edu 37 19 53057031 53057031 + Missense_Mutation SNP A A G rs116132766 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 151.0 53.0 162.0 0.0 0.350993 0 A|0.996;G|0.004 0.004 strong . ZNF808 81 . NM_001039886 exon5 c.A862G p.K288E CCTTACAAGTGTA . PASS Atlas-SNP FBXO34 55030 hgsc.bcm.edu 37 14 55818514 55818514 + Missense_Mutation SNP C C T rs59719421 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 223.0 97.0 200.0 0.0 0.434978 0 C|0.979;T|0.021 0.021 strong . FBXO34 61 . NM_017943 exon2 c.C1406T p.S469F AGCCTTCCATTTT . PASS Atlas-SNP DHX36 170506 hgsc.bcm.edu 37 3 154002774 154002774 + Silent SNP G G A rs114098462 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 172.0 75.0 155.0 0.0 0.436047 0 G|0.992;A|0.008 0.008 strong . DHX36 98 . NM_020865 exon18 c.C2034T p.N678N CAAAGCGTTCTGT . PASS Atlas-SNP TRIOBP 11078 hgsc.bcm.edu 37 22 38129311 38129311 + Silent SNP C C T rs200990219 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 170.0 80.0 171.0 0.0 0.470588 0 C|0.998;T|0.002 0.002 strong . TRIOBP 262 . NM_001039141 exon8 c.C3954T p.S1318S GAAGTCCGAGGCA . PASS Atlas-SNP PRIMA1 145270 hgsc.bcm.edu 37 14 94187816 94187816 + Missense_Mutation SNP C C G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 69.0 29.0 65.0 0.0 0.42029 0 . . none . PRIMA1 21 . NM_178013 exon5 c.G436C p.V146L CGTCTACTCCTTT . PASS Atlas-SNP KIAA1984 84960 hgsc.bcm.edu 37 9 139698977 139698977 + Silent SNP G G A rs11145892 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 40.0 27.0 31.0 0.0 0.675 0 G|0.993;A|0.007 0.007 strong . KIAA1984 39 . NM_001039374 exon7 c.G690A p.A230A GGAGGCGTCCTTC . PASS Atlas-SNP CSF1R 1436 hgsc.bcm.edu 37 5 149460544 149460544 + Silent SNP G G A rs41424646 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 186.0 94.0 136.0 1.0 0.505376 0.00735294 T|0.000;G|0.999;A|0.001 0.001 strong CSF1R_ENST00000286301,caecum,carcinoma,-1,2 CSF1R 250 2 NM_005211 exon3 c.C93T p.V31V CTTCACGACCAGC . scavenged Atlas-SNP ZNF765 91661 hgsc.bcm.edu 37 19 53901281 53901281 + Missense_Mutation SNP C C G rs141876832 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 79.0 37.0 68.0 0.0 0.468354 0 C|0.962;G|0.038 0.038 strong ZNF765_ENST00000396408,NS,carcinoma,-2,1 ZNF765 61 1 NM_001040185 exon2 c.C13G p.Q5E CTTCCTCAGGTGA . PASS Atlas-SNP NEUROG1 4762 hgsc.bcm.edu 37 5 134871280 134871280 + Missense_Mutation SNP C C T rs34137563 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 30.0 13.0 23.0 0.0 0.433333 0 C|0.993;T|0.007 0.007 strong . NEUROG1 18 . NM_006161 exon1 c.G101A p.R34K TGGAGTCTGGCAC . PASS Atlas-SNP INMT 11185 hgsc.bcm.edu 37 7 30793532 30793532 + Missense_Mutation SNP G G A rs76338133 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 35.0 71.0 0.0 0.460526 0 G|0.984;A|0.016 0.016 strong . INMT 38 . NM_006774 exon2 c.G340A p.A114T AAATTCGCCTGTG . PASS Atlas-SNP TIMELESS 8914 hgsc.bcm.edu 37 12 56815717 56815717 + Missense_Mutation SNP T T C rs61733875 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 114.0 57.0 71.0 0.0 0.5 0 T|0.947;C|0.053 0.053 strong . TIMELESS 107 . NM_003920 exon21 c.A2608G p.M870V GTCCCATCTGTAC . PASS Atlas-SNP OR6Y1 391112 hgsc.bcm.edu 37 1 158517099 158517099 + Missense_Mutation SNP C C A rs113154921 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 142.0 68.0 152.0 0.0 0.478873 0 A|0.018;C|0.982;G|0.000 0.018 strong . OR6Y1 73 . NM_001005189 exon1 c.G797T p.R266L TTGGGACGGGCAT . PASS Atlas-SNP RPE65 6121 hgsc.bcm.edu 37 1 68904645 68904645 + Silent SNP C C A rs61752907 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 143.0 72.0 128.0 0.0 0.503497 0 C|0.998;A|0.002 0.002 strong . RPE65 87 . NM_000329 exon9 c.G978T p.V326V GAGATCCACAATC . PASS Atlas-SNP C8orf31 286122 hgsc.bcm.edu 37 8 144126087 144126087 + Missense_Mutation SNP C C A rs73717943 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 59.0 33.0 57.0 0.0 0.559322 0 C|0.973;A|0.027 0.027 strong . C8orf31 18 . NM_173687 exon4 c.C208A p.P70T CTGGCACCCCAGG . PASS Atlas-SNP C2CD4C 126567 hgsc.bcm.edu 37 19 408200 408200 + Silent SNP G G C rs7252178 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 180.0 98.0 150.0 0.0 0.544444 0 G|0.971;C|0.029 0.029 strong C2CD4C,NS,carcinoma,0,1 C2CD4C 13 1 NM_001136263 exon2 c.C162G p.P54P CAGCTTGGGGGGG . PASS Atlas-SNP PIP4K2B 8396 hgsc.bcm.edu 37 17 36936846 36936846 + Silent SNP C C T rs16968328 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 78.0 33.0 71.0 0.0 0.423077 0 C|0.931;T|0.069 0.069 strong . PIP4K2B 35 . NM_003559 exon4 c.G366A p.T122T GCTGCGCGTCACT . PASS Atlas-SNP DPP8 54878 hgsc.bcm.edu 37 15 65793060 65793060 + Missense_Mutation SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 179.0 62.0 190.0 0.0 0.346369 0 . . none DPP8,colon,carcinoma,+1,1 DPP8 78 1 NM_197960 exon5 c.C478T p.R160C CAATGCGTTTTCT . PASS Atlas-SNP PLCG2 5336 hgsc.bcm.edu 37 16 81960783 81960783 + Silent SNP G G A rs115583707 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 74.0 39.0 81.0 0.0 0.527027 0 G|0.984;A|0.016 0.016 strong . PLCG2 276 . NM_002661 exon23 c.G2514A p.Q838Q AAAGCAGGTGAGT . PASS Atlas-SNP SVEP1 79987 hgsc.bcm.edu 37 9 113169116 113169116 + Missense_Mutation SNP T T C rs16914996 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 74.0 52.0 66.0 0.0 0.702703 0 T|0.943;C|0.057 0.057 strong . SVEP1 326 . NM_153366 exon38 c.A8764G p.I2922V GCAAGATGTAGCC . PASS Atlas-SNP NAV2 89797 hgsc.bcm.edu 37 11 19735325 19735325 + Silent SNP C C A rs11828836 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 38.0 28.0 18.0 0.0 0.736842 0 C|0.975;A|0.025 0.025 strong . NAV2 255 . NM_145117 exon1 c.C84A p.P28P CGTGCCCCCGGCC . PASS Atlas-SNP JPH3 57338 hgsc.bcm.edu 37 16 87717863 87717863 + Missense_Mutation SNP C C T rs138328691 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 218.0 121.0 192.0 0.0 0.555046 0 C|0.999;T|0.001 0.001 strong JPH3,NS,carcinoma,-2,1 JPH3 95 1 NM_020655 exon3 c.C1276T p.R426W CAGCACCGGGAAA . PASS Atlas-SNP VWDE 221806 hgsc.bcm.edu 37 7 12420145 12420145 + Silent SNP T T C rs146236000 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 42.0 47.0 0.0 0.552632 0 T|0.994;C|0.006 0.006 strong VWDE_ENST00000275358,NS,carcinoma,-2,1 VWDE 123 1 NM_001135924 exon5 c.A756G p.E252E ATCAAGTTCTAAA . PASS Atlas-SNP ZNF91 7644 hgsc.bcm.edu 37 19 23556550 23556550 + Missense_Mutation SNP G G A rs148956643 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 128.0 58.0 132.0 0.0 0.453125 0 G|0.992;A|0.008 0.008 strong . ZNF91 349 . NM_003430 exon3 c.C247T p.P83S CTGTGGGTTCATC . PASS Atlas-SNP PPP1R3A 5506 hgsc.bcm.edu 37 7 113519267 113519267 + Missense_Mutation SNP C C T rs35067467 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 238.0 121.0 253.0 0.0 0.508403 0 C|0.959;T|0.041 0.041 strong . PPP1R3A 317 . NM_002711 exon4 c.G1880A p.R627K TCATTCCTCAAAA . PASS Atlas-SNP FAM71B 153745 hgsc.bcm.edu 37 5 156589937 156589937 + Missense_Mutation SNP G G A rs115938677 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 64.0 24.0 78.0 0.0 0.375 0 G|0.995;A|0.005 0.005 strong FAM71B,NS,carcinoma,0,1 FAM71B 145 1 NM_130899 exon2 c.C1339T p.R447C CCTTGCGGTGATG . PASS Atlas-SNP TNRC18 84629 hgsc.bcm.edu 37 7 5410814 5410814 + Silent SNP G G C rs114987874 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 83.0 33.0 79.0 0.0 0.39759 0 G|0.984;C|0.016 0.016 strong . TNRC18 311 . NM_001080495 exon11 c.C3411G p.P1137P CTTGGAGGGGGAC . PASS Atlas-SNP PCDHA6 56142 hgsc.bcm.edu 37 5 140209593 140209593 + Silent SNP A A G rs61730636 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 147.0 72.0 140.0 1.0 0.489796 0.00714286 A|0.940;G|0.060 0.060 strong PCDHA6_ENST00000529310,NS,carcinoma,+2,6 PCDHA6 442 6 NM_018909 exon1 c.A1917G p.E639E GGACGAAGCGGAC . scavenged Atlas-SNP CIT 11113 hgsc.bcm.edu 37 12 120139701 120139701 + Silent SNP T T G rs34140357 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 141.0 60.0 107.0 0.0 0.425532 0 T|0.947;G|0.053 0.053 strong . CIT 535 . NM_001206999 exon42 c.A5367C p.G1789G ATTGGTTCCAATG . PASS Atlas-SNP C19orf21 126353 hgsc.bcm.edu 37 19 757354 757354 + Silent SNP G G A rs35090443 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 126.0 61.0 95.0 0.0 0.484127 0 G|0.982;A|0.018 0.018 strong . C19orf21 56 . NM_173481 exon2 c.G408A p.L136L GAGGCTGTGTGAC . PASS Atlas-SNP CCNB2 9133 hgsc.bcm.edu 37 15 59406674 59406674 + Missense_Mutation SNP T T C rs16941036 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 126.0 61.0 102.0 0.0 0.484127 0 T|0.994;C|0.006 0.006 strong . CCNB2 23 . NM_004701 exon4 c.T299C p.M100T TCTCCATGAAGGA . PASS Atlas-SNP ARID1B 57492 hgsc.bcm.edu 37 6 157505478 157505478 + Silent SNP G G A rs61745451 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 162.0 75.0 150.0 0.0 0.462963 0 G|0.989;A|0.011 0.011 strong . ARID1B 320 . NM_020732 exon13 c.G3459A p.E1153E CTTTGAGTGCAAG . PASS Atlas-SNP STH 246744 hgsc.bcm.edu 37 17 44076711 44076711 + Silent SNP G G A rs73317018 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 180.0 90.0 164.0 0.0 0.5 0 A|0.027;C|0.000;G|0.972;T|0.000 0.027 strong . STH 14 . NM_001007532 exon1 c.G66A p.P22P GTGGCCGGCCCTC . PASS Atlas-SNP WSB2 55884 hgsc.bcm.edu 37 12 118474238 118474238 + Silent SNP G G A rs34253698 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 132.0 59.0 140.0 0.0 0.44697 0 G|0.985;A|0.015 0.015 strong . WSB2 32 . NM_018639 exon6 c.C738T p.D246D GGAGAAGTCACAA . PASS Atlas-SNP CHTF18 63922 hgsc.bcm.edu 37 16 846012 846012 + Silent SNP C C T rs114461038 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 90.0 40.0 92.0 0.0 0.444444 0 C|0.979;T|0.021 0.021 strong . CHTF18 52 . NM_022092 exon18 c.C2391T p.L797L GATGCTCGCTTAC . PASS Atlas-SNP CXorf27 25763 hgsc.bcm.edu 37 X 37850385 37850385 + Missense_Mutation SNP C C T rs61737321 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 209.0 105.0 152.0 0.0 0.502392 0 C|0.994;T|0.006 0.006 strong . CXorf27 14 . NM_012274 exon1 c.C293T p.A98V ACAGCGCTGAGAG . PASS Atlas-SNP CHMP6 79643 hgsc.bcm.edu 37 17 78972902 78972902 + Silent SNP C C T rs35687235 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 89.0 52.0 93.0 0.0 0.58427 0 C|0.968;T|0.032 0.032 strong . CHMP6 16 . NM_024591 exon8 c.C555T p.N185N AGAAAACGTCCCT . PASS Atlas-SNP TBC1D4 9882 hgsc.bcm.edu 37 13 75861001 75861001 + Missense_Mutation SNP A A G rs557337 bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 333.0 166.0 312.0 0.0 0.498498 0 A|0.827;G|0.173 0.173 strong . TBC1D4 142 . NM_014832 exon21 c.T3824C p.V1275A CAATTGACTAGAG . PASS Atlas-SNP DENND1C 79958 hgsc.bcm.edu 37 19 6480013 6480013 + Missense_Mutation SNP C C T rs10416003 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 145.0 77.0 102.0 0.0 0.531034 0 C|0.991;T|0.009 0.009 strong . DENND1C 93 . NM_024898 exon2 c.G67A p.A23T GGGAGGCAGGGCA . PASS Atlas-SNP SEC62 7095 hgsc.bcm.edu 37 3 169700525 169700525 + Silent SNP C C G rs35176867 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 195.0 98.0 176.0 0.0 0.502564 0 C|0.983;G|0.017 0.017 strong . SEC62 27 . NM_003262 exon4 c.C282G p.A94A CCGAGCCCTAAAA . PASS Atlas-SNP PRKCG 5582 hgsc.bcm.edu 37 19 54410114 54410114 + Missense_Mutation SNP A A G rs73937614 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 208.0 89.0 180.0 0.0 0.427885 0 A|0.993;G|0.007 0.007 strong . PRKCG 246 . NM_002739 exon18 c.A2059G p.S687G GCCCGCAGCCCCA . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195505863 195505863 + Silent SNP G G A rs113561118 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 297.0 15.0 198.0 0.0 0.050505 0 . . weak MUC4_ENST00000463781,NS,carcinoma,0,1 MUC4 1505 1 NM_018406 exon2 c.C12588T p.T4196T AGTGTCGGTGACA . scavenged Atlas-SNP TTN 7273 hgsc.bcm.edu 37 2 179428061 179428061 + Missense_Mutation SNP C C T rs11896637 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 238.0 115.0 198.0 0.0 0.483193 0 C|0.965;T|0.035 0.035 strong . TTN 18412 . NM_001267550 exon326 c.G82798A p.A27600T CAGGTGCGCCACC . PASS Atlas-SNP EGR4 1961 hgsc.bcm.edu 37 2 73518716 73518716 + Missense_Mutation SNP C C T rs141733943 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 176.0 99.0 146.0 0.0 0.5625 0 C|1.000;T|0.000 0.000 weak . EGR4 52 . NM_001965 exon2 c.G1639A p.G547S GGCGGCCGCACAC . PASS Atlas-SNP TNXB 7148 hgsc.bcm.edu 37 6 32041621 32041621 + Missense_Mutation SNP G G A rs6910390 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 190.0 100.0 182.0 0.0 0.526316 0 G|0.992;A|0.008 0.008 strong . TNXB 553 . NM_019105 exon12 c.C4484T p.T1495I GGGACTGTCCAGG . PASS Atlas-SNP SPINK1 6690 hgsc.bcm.edu 37 5 147207605 147207605 + Silent SNP G G A rs35737774 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 41.0 41.0 42.0 0.0 1 0 G|0.956;A|0.044 0.044 strong . SPINK1 9 . NM_003122 exon3 c.C174T p.C58C TAACACGCATTCA . PASS Atlas-SNP CSNK2A3 283106 hgsc.bcm.edu 37 11 11373631 11373631 + Missense_Mutation SNP C C T rs74507390 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 50.0 126.0 0.0 0.5 0 C|0.965;T|0.035 0.035 strong . . . . NM_001256686 exon1 c.G1036A p.V346I TGCTGACGGGCGT . PASS Atlas-SNP MYH9 4627 hgsc.bcm.edu 37 22 36678816 36678816 + Silent SNP C C A rs80050551 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 42.0 26.0 28.0 0.0 0.619048 0 C|0.969;A|0.031 0.031 strong MYH9,NS,NS,0,1 MYH9 225 1 NM_002473 exon41 c.G5781T p.P1927P GACAAACGGCAGG . PASS Atlas-SNP KRTAP10-4 386672 hgsc.bcm.edu 37 21 45993990 45993990 + Missense_Mutation SNP T T C rs79601471 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 530.0 140.0 575.0 0.0 0.264151 0 T|0.955;C|0.045 0.045 strong . KRTAP10-4 44 . NM_198687 exon1 c.T355C p.C119R ACTGTCTGCTGCA . PASS Atlas-SNP SIGLEC1 6614 hgsc.bcm.edu 37 20 3670646 3670646 + Silent SNP C C T rs8115679 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 178.0 75.0 178.0 0.0 0.421348 0 C|0.974;T|0.026 0.026 strong . SIGLEC1 210 . NM_023068 exon18 c.G4857A p.L1619L AGAGCCCAGGACA . PASS Atlas-SNP RAI14 26064 hgsc.bcm.edu 37 5 34687817 34687817 + Missense_Mutation SNP T T C rs10521016 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 181.0 180.0 150.0 0.0 0.994475 0 T|0.955;C|0.045 0.045 strong . RAI14 100 . NM_001145523 exon1 c.T2C p.M1T ATTAGATGGAAGC . PASS Atlas-SNP DCHS2 54798 hgsc.bcm.edu 37 4 155219373 155219373 + Silent SNP A A G rs17031391 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 214.0 98.0 199.0 0.0 0.457944 0 A|0.913;G|0.087 0.087 strong . DCHS2 594 . NM_017639 exon18 c.T4728C p.V1576V GTCATTAACATCA . PASS Atlas-SNP OR5B2 390190 hgsc.bcm.edu 37 11 58190228 58190228 + Silent SNP G G A rs77952368 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 72.0 43.0 60.0 0.0 0.597222 0 G|0.993;A|0.007 0.007 strong OR5B2,NS,carcinoma,-1,1 OR5B2 75 1 NM_001005566 exon1 c.C507T p.S169S CAGATTGGATTTA . PASS Atlas-SNP IFNA5 3442 hgsc.bcm.edu 37 9 21305048 21305048 + Missense_Mutation SNP G G C rs138121530 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 288.0 138.0 332.0 0.0 0.479167 0 G|0.984;C|0.016 0.016 strong . IFNA5 21 . NM_002169 exon1 c.C208G p.Q70E GGAACTGGTTGCC . PASS Atlas-SNP CD33 945 hgsc.bcm.edu 37 19 51729594 51729594 + Missense_Mutation SNP T T C rs11882250 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 108.0 56.0 94.0 0.0 0.518519 0 T|0.958;C|0.042 0.042 strong . CD33 55 . NM_001772 exon4 c.T727C p.F243L GGTATCTTTCCAG . PASS Atlas-SNP PDE3A 5139 hgsc.bcm.edu 37 12 20522487 20522487 + Missense_Mutation SNP A A G rs372953537 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 74.0 34.0 68.0 0.0 0.459459 0 . . weak . PDE3A 184 . NM_000921 exon1 c.A269G p.E90G ACCTGGAGCAGTG . PASS Atlas-SNP ITPR2 3709 hgsc.bcm.edu 37 12 26774089 26774089 + Missense_Mutation SNP T T G rs2230373 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 281.0 139.0 254.0 1.0 0.494662 0.00393701 T|0.944;G|0.056 0.056 strong . ITPR2 270 . NM_002223 exon26 c.A3429C p.E1143D TTGACTTTCCCCT . PASS Atlas-SNP PLA2G4E 123745 hgsc.bcm.edu 37 15 42289456 42289456 + Missense_Mutation SNP G G C rs79040960 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 106.0 53.0 125.0 0.0 0.5 0 G|0.982;C|0.018 0.018 strong . PLA2G4E 60 . NM_001206670 exon11 c.C976G p.P326A TCTCAGGGCTGGA . PASS Atlas-SNP ZP4 57829 hgsc.bcm.edu 37 1 238049143 238049143 + Missense_Mutation SNP G G A rs34811980 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 94.0 51.0 73.0 0.0 0.542553 0 G|0.973;A|0.027 0.027 strong . ZP4 161 . NM_021186 exon7 c.C883T p.P295S TGATTGGGAGAGA . PASS Atlas-SNP PHPT1 29085 hgsc.bcm.edu 37 9 139745012 139745012 + Missense_Mutation SNP G G T rs149543778 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 61.0 36.0 50.0 0.0 0.590164 0 G|0.996;T|0.004 0.004 strong . PHPT1 14 . NM_001135861 exon3 c.G340T p.G114C CATCAAGGTTTGC . PASS Atlas-SNP PRSS35 167681 hgsc.bcm.edu 37 6 84233325 84233325 + Silent SNP G G A rs147168330 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 198.0 84.0 209.0 0.0 0.424242 0 G|0.997;A|0.003 0.003 strong . PRSS35 60 . NM_153362 exon2 c.G165A p.K55K TGCTAAGATGATG . PASS Atlas-SNP SLC5A9 200010 hgsc.bcm.edu 37 1 48697713 48697713 + Missense_Mutation SNP C C T rs140292897 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 233.0 232.0 248.0 0.0 0.995708 0 C|0.998;T|0.002 0.002 strong . SLC5A9 82 . NM_001135181 exon8 c.C862T p.R288W CTCCCACGGCCCG . PASS Atlas-SNP FER 2241 hgsc.bcm.edu 37 5 108294979 108294979 + Silent SNP T T C rs34869483 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 112.0 44.0 122.0 0.0 0.392857 0 T|0.988;C|0.012 0.012 strong . FER 100 . NM_005246 exon13 c.T1587C p.D529D TATAGATCATCAC . PASS Atlas-SNP ADAM8 101 hgsc.bcm.edu 37 10 135077265 135077265 + Missense_Mutation SNP A A G rs3008319 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 52.0 22.0 58.0 0.0 0.423077 0 A|0.917;G|0.083 0.083 strong ADAM8,NS,carcinoma,0,1 ADAM8 41 1 NM_001109 exon22 c.T2324C p.I775T GGCTTGATGACCT . PASS Atlas-SNP LY75 4065 hgsc.bcm.edu 37 2 160737717 160737717 + Silent SNP G G A rs79199281 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 89.0 23.0 88.0 0.0 0.258427 0 G|0.994;A|0.006 0.006 strong . LY75 151 . NM_002349 exon8 c.C1281T p.N427N GTTTATGTTCTTA . PASS Atlas-SNP ND4 0 hgsc.bcm.edu 37 MT 11164 11164 + Silent SNP A A G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 10.0 10.0 15.0 0.0 1 0 . . none . . . . ENST00000361381 exon1 c.A405G p.R135R CACCCGATGAGGC . PASS Atlas-SNP RREB1 6239 hgsc.bcm.edu 37 6 7246994 7246994 + Silent SNP C C T rs187908583 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 16.0 10.0 14.0 0.0 0.625 0 C|0.993;T|0.007 0.007 strong . RREB1 242 . NM_001003699 exon12 c.C4311T p.G1437G GGCAGGCGCCGGG . PASS Atlas-SNP LRRIQ3 127255 hgsc.bcm.edu 37 1 74575141 74575141 + Silent SNP G G A rs182798407 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 120.0 59.0 98.0 0.0 0.491667 0 G|0.997;A|0.003 0.003 strong LRRIQ3,right_upper_lobe,carcinoma,-1,1 LRRIQ3 146 1 NM_001105659 exon5 c.C804T p.L268L CTTAAGGAGCTTA . PASS Atlas-SNP ABCC6 368 hgsc.bcm.edu 37 16 16248791 16248791 + Missense_Mutation SNP C C T rs57695665 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 108.0 58.0 115.0 0.0 0.537037 0 C|0.994;T|0.006 0.006 strong . ABCC6 110 . NM_001171 exon28 c.G3980A p.G1327E GGGACCCCGTCGA . PASS Atlas-SNP RBBP4 5928 hgsc.bcm.edu 37 1 33134865 33134865 + Silent SNP A A C rs11551266 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 215.0 94.0 236.0 1.0 0.437209 0.00423729 A|0.925;C|0.075 0.075 strong . RBBP4 38 . NM_005610 exon7 c.A795C p.P265P CAAACCAAGCCAC . PASS Atlas-SNP MAST1 22983 hgsc.bcm.edu 37 19 12978556 12978556 + Silent SNP C C G rs202159363 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 62.0 33.0 61.0 0.0 0.532258 0 C|0.995;G|0.005 0.005 strong . MAST1 214 . NM_014975 exon20 c.C2331G p.S777S ATTCTCCGCGTCC . PASS Atlas-SNP NEDD9 4739 hgsc.bcm.edu 37 6 11190859 11190859 + Missense_Mutation SNP G G A rs61755989 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 105.0 51.0 95.0 0.0 0.485714 0 G|0.981;A|0.019 0.019 strong . NEDD9 191 . NM_001142393 exon6 c.C1243T p.R415W GGAGCCGCTGAAG . PASS Atlas-SNP KCNK18 338567 hgsc.bcm.edu 37 10 118969353 118969353 + Missense_Mutation SNP C C T rs363360 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 120.0 56.0 110.0 1.0 0.466667 0.00909091 A|0.000;C|0.963;T|0.037 0.037 strong KCNK18,colon,carcinoma,0,1 KCNK18 70 1 NM_181840 exon3 c.C698T p.A233V CTCATGCGCTAGA . scavenged Atlas-SNP RSF1 51773 hgsc.bcm.edu 37 11 77413223 77413223 + Missense_Mutation SNP T T C rs78433827 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 288.0 162.0 256.0 1.0 0.5625 0.00390625 T|0.992;C|0.008 0.008 strong RSF1,caecum,carcinoma,+2,1 RSF1 105 1 NM_016578 exon6 c.A1051G p.I351V ATTCGATCCTTTC . PASS Atlas-SNP TSHZ3 57616 hgsc.bcm.edu 37 19 31768491 31768491 + Silent SNP G G A rs139947200 byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 66.0 27.0 63.0 0.0 0.409091 0 G|0.999;A|0.001 0.001 strong . TSHZ3 549 . NM_020856 exon2 c.C2208T p.A736A CTTGGCGGCCTTG . PASS Atlas-SNP FBXO44 93611 hgsc.bcm.edu 37 1 11721321 11721321 + Missense_Mutation SNP G G A rs12057383 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 141.0 66.0 128.0 0.0 0.468085 0 G|0.924;A|0.076 0.076 strong . FBXO44 20 . NM_183412 exon5 c.G634A p.A212T GCCCCCGCTGCCC . PASS Atlas-SNP CCDC17 149483 hgsc.bcm.edu 37 1 46086588 46086588 + Missense_Mutation SNP T T C rs16832629 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 140.0 57.0 128.0 0.0 0.407143 0 T|0.993;C|0.007 0.007 strong . CCDC17 54 . NM_001114938 exon11 c.A1586G p.N529S ATCCCATTCAGCT . PASS Atlas-SNP ENOX1 55068 hgsc.bcm.edu 37 13 43987003 43987003 + Missense_Mutation SNP C C G rs7338624 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 49.0 96.0 0.0 0.526882 0 C|0.955;G|0.045 0.045 strong . ENOX1 158 . NM_017993 exon4 c.G48C p.E16D AGGAAGCTCCTGG . PASS Atlas-SNP CGN 57530 hgsc.bcm.edu 37 1 151493098 151493098 + Silent SNP C C T rs141884525 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 196.0 101.0 192.0 0.0 0.515306 0 C|0.997;T|0.003 0.003 strong . CGN 106 . NM_020770 exon5 c.C1071T p.A357A TAAGGCCGTGGCA . PASS Atlas-SNP UNC5A 90249 hgsc.bcm.edu 37 5 176305523 176305523 + Silent SNP C C T rs146460064 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 222.0 116.0 223.0 1.0 0.522523 0.00448431 C|0.996;T|0.004 0.004 strong . UNC5A 76 . NM_133369 exon13 c.C2067T p.H689H CTTGCACTGCACC . PASS Atlas-SNP C10orf71 118461 hgsc.bcm.edu 37 10 50532155 50532155 + Missense_Mutation SNP T T G rs61453891 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 88.0 45.0 82.0 0.0 0.511364 0 T|0.977;G|0.023 0.023 strong . C10orf71 179 . NM_001135196 exon3 c.T1565G p.V522G TGAAAGTGCTTGA . PASS Atlas-SNP HIST3H3 8290 hgsc.bcm.edu 37 1 228612934 228612934 + Silent SNP A A G rs61740979 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 64.0 24.0 93.0 0.0 0.375 0 A|0.981;G|0.019 0.019 strong . HIST3H3 20 . NM_003493 exon1 c.T93C p.P31P AGTGGCAGGTGCG . PASS Atlas-SNP OR5T2 219464 hgsc.bcm.edu 37 11 55999879 55999879 + Silent SNP C C A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 219.0 94.0 197.0 1.0 0.429224 0.00507614 . . none OR5T2,NS,carcinoma,0,1 OR5T2 107 1 NM_001004746 exon1 c.G783T p.L261L GGCCAACAGAATC . scavenged Atlas-SNP GRHL1 29841 hgsc.bcm.edu 37 2 10101289 10101289 + Silent SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 181.0 80.0 177.0 0.0 0.441989 0 . . none . GRHL1 95 . NM_198182 exon4 c.C393T p.G131G GCTGGGCATTGAT . PASS Atlas-SNP MYO19 80179 hgsc.bcm.edu 37 17 34856697 34856697 + Missense_Mutation SNP A A G rs56919948 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 72.0 26.0 73.0 0.0 0.361111 0 A|0.996;G|0.004 0.004 strong . MYO19 130 . NM_001163735 exon24 c.T2350C p.W784R CCCGCCACTGCCG . PASS Atlas-SNP MYH7B 57644 hgsc.bcm.edu 37 20 33588874 33588874 + Silent SNP G G A rs76931580 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 192.0 85.0 198.0 0.0 0.442708 0 G|0.996;A|0.004 0.004 strong . MYH7B 145 . NM_020884 exon41 c.G5514A p.T1838T GCAGACGGTGCGC . PASS Atlas-SNP SCN5A 6331 hgsc.bcm.edu 37 3 38592356 38592356 + Missense_Mutation SNP A A G rs45563942 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 72.0 37.0 72.0 0.0 0.513889 0 A|0.999;G|0.001 0.001 strong . SCN5A 634 . NM_198056 exon28 c.T5507C p.I1836T ATGTTGATGAGGC . PASS Atlas-SNP SIDT1 54847 hgsc.bcm.edu 37 3 113285272 113285272 + Silent SNP A A C rs61734094 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 139.0 72.0 133.0 0.0 0.517986 0 A|0.978;C|0.022 0.022 strong . SIDT1 99 . NM_017699 exon2 c.A228C p.T76T GGTGACAGCCGTG . PASS Atlas-SNP FURIN 5045 hgsc.bcm.edu 37 15 91419098 91419098 + Missense_Mutation SNP C C T rs16944971 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 57.0 57.0 59.0 0.0 1 0 C|0.968;T|0.032 0.032 strong . FURIN 85 . NM_002569 exon2 c.C128T p.A43V GCCCAGCGGTGGC . PASS Atlas-SNP STAB2 55576 hgsc.bcm.edu 37 12 104089586 104089586 + Silent SNP C C T rs17034395 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 123.0 52.0 142.0 0.0 0.422764 0 C|0.930;T|0.070 0.070 strong . STAB2 370 . NM_017564 exon33 c.C3546T p.I1182I TGCCATCGAGAAT . PASS Atlas-SNP MAPK13 5603 hgsc.bcm.edu 37 6 36104468 36104468 + Silent SNP C C G rs115013068 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 187.0 98.0 169.0 0.0 0.524064 0 C|0.990;G|0.010 0.010 strong . MAPK13 65 . NM_002754 exon7 c.C531G p.A177A AGACGCCGAGATG . PASS Atlas-SNP DEFB136 613210 hgsc.bcm.edu 37 8 11831557 11831557 + Silent SNP G G A rs73538682 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 141.0 141.0 173.0 1.0 1 0.00578035 G|0.980;A|0.020 0.020 strong . DEFB136 16 . NM_001033018 exon2 c.C126T p.F42F ACACCCGAAGAAA . PASS Atlas-SNP EMX2 2018 hgsc.bcm.edu 37 10 119305282 119305282 + Silent SNP C C A rs424112 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 178.0 95.0 159.0 0.0 0.533708 0 C|0.962;A|0.038 0.038 strong . EMX2 25 . NM_004098 exon2 c.C546A p.A182A GGGCGCCGAAAGG . PASS Atlas-SNP TET1 80312 hgsc.bcm.edu 37 10 70406747 70406747 + Missense_Mutation SNP A A G rs144156611 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 127.0 54.0 140.0 0.0 0.425197 0 A|0.995;G|0.005 0.005 strong . TET1 255 . NM_030625 exon4 c.A4261G p.T1421A CTGCCCACCTGCA . PASS Atlas-SNP SERPINB2 5055 hgsc.bcm.edu 37 18 61565014 61565014 + Silent SNP C C T rs6106 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 214.0 106.0 212.0 0.0 0.495327 0 C|0.933;T|0.067 0.067 strong . SERPINB2 63 . NM_002575 exon5 c.C471T p.D157D AGTAGACTTCCTA . PASS Atlas-SNP ERCC4 2072 hgsc.bcm.edu 37 16 14038659 14038659 + Missense_Mutation SNP T T C rs2020955 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 133.0 61.0 168.0 0.0 0.458647 0 T|0.934;C|0.066 0.066 strong . ERCC4 100 . NM_005236 exon10 c.T1984C p.S662P ACAGCATCTGCAG . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195507060 195507060 + Missense_Mutation SNP G G T rs202129071 byfrequency;alternate_allele TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 157.0 15.0 159.0 0.0 0.0955414 0 G|0.956;A|0.044 . alt MUC4_ENST00000463781,NS,carcinoma,-2,1 MUC4 1505 1 NM_018406 exon2 c.C11391A p.D3797E GGAAGTGTCGGTG . scavenged Atlas-SNP CATSPER3 347732 hgsc.bcm.edu 37 5 134343766 134343766 + Missense_Mutation SNP T T G rs3896260 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 303.0 145.0 249.0 0.0 0.478548 0 T|0.860;G|0.140 0.140 strong . CATSPER3 38 . NM_178019 exon4 c.T612G p.N204K AGACAATGGTGAC . PASS Atlas-SNP SMYD1 150572 hgsc.bcm.edu 37 2 88396213 88396213 + Silent SNP G G A rs13403507 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 115.0 58.0 156.0 0.0 0.504348 0 G|0.992;A|0.008 0.008 strong . SMYD1 95 . NM_198274 exon6 c.G798A p.L266L GCAGCTGAAGAAG . PASS Atlas-SNP GSDMC 56169 hgsc.bcm.edu 37 8 130762324 130762324 + Silent SNP A A G rs35085916 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 111.0 67.0 102.0 0.0 0.603604 0 A|0.981;G|0.019 0.019 strong . GSDMC 71 . NM_031415 exon12 c.T1125C p.G375G GATGGCACCACCA . PASS Atlas-SNP CDK12 51755 hgsc.bcm.edu 37 17 37619038 37619038 + Silent SNP G G A rs35896550 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 57.0 29.0 45.0 0.0 0.508772 0 G|0.933;A|0.067 0.067 strong CDK12,NS,carcinoma,+1,1 CDK12 161 1 NM_016507 exon1 c.G714A p.S238S CCCCTCGGGAGCT . PASS Atlas-SNP ETV7 51513 hgsc.bcm.edu 37 6 36341251 36341251 + Missense_Mutation SNP G G A rs9470262 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 142.0 63.0 130.0 0.0 0.443662 0 G|0.988;A|0.012 0.012 strong . ETV7 31 . NM_001207035 exon4 c.C412T p.H138Y GAGAGTGCTGGGT . PASS Atlas-SNP SEMA6C 10500 hgsc.bcm.edu 37 1 151107277 151107277 + Missense_Mutation SNP C C T rs149398166 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 206.0 107.0 178.0 0.0 0.519417 0 C|0.995;T|0.005 0.005 strong . SEMA6C 70 . NM_001178061 exon16 c.G1655A p.G552D TACCCACCAGATC . PASS Atlas-SNP INCENP 3619 hgsc.bcm.edu 37 11 61906397 61906397 + Missense_Mutation SNP A A G rs138049815 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 124.0 68.0 64.0 0.0 0.548387 0 A|0.996;G|0.004 0.004 strong . INCENP 122 . NM_001040694 exon7 c.A1211G p.N404S CCCACAATGACAC . PASS Atlas-SNP CCR2 729230 hgsc.bcm.edu 37 3 46401243 46401243 + Silent SNP A A G rs3918386 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 74.0 32.0 87.0 0.0 0.432432 0 A|0.940;G|0.060 0.060 strong . CCR2 103 . NM_001123041 exon3 c.A1017G p.P339P GAGACCAGGAAAG . PASS Atlas-SNP CLEC14A 161198 hgsc.bcm.edu 37 14 38724043 38724043 + Silent SNP G G A rs78287081 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 38.0 72.0 0.0 0.5 0 G|0.992;A|0.008 0.008 strong . CLEC14A 83 . NM_175060 exon1 c.C1185T p.S395S GGCAGAGGAGGAG . PASS Atlas-SNP KRTAP4-4 84616 hgsc.bcm.edu 37 17 39316482 39316482 + Missense_Mutation SNP C C G rs366700 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 251.0 250.0 218.0 0.0 0.996016 0 C|0.938;G|0.062 0.062 strong . KRTAP4-4 21 . NM_032524 exon1 c.G462C p.R154S GTAGCACCTGGAC . PASS Atlas-SNP DSE 29940 hgsc.bcm.edu 37 6 116758004 116758004 + Silent SNP C C T rs367781233 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 142.0 64.0 113.0 0.0 0.450704 0 . . weak . DSE 98 . NM_001080976 exon6 c.C2373T p.D791D CATTGACAGGATT . PASS Atlas-SNP CIAPIN1 57019 hgsc.bcm.edu 37 16 57468110 57468110 + Silent SNP G G A rs77773186 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 96.0 56.0 122.0 0.0 0.583333 0 G|0.993;A|0.007 0.007 strong . CIAPIN1 17 . NM_020313 exon5 c.C402T p.P134P GGTTAGGGGCTCC . PASS Atlas-SNP C1orf127 148345 hgsc.bcm.edu 37 1 11008594 11008594 + Missense_Mutation SNP A A T rs1281016 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 179.0 86.0 199.0 0.0 0.480447 0 A|0.922;T|0.078 0.078 strong . C1orf127 134 . NM_001170754 exon12 c.T1598A p.V533D CCTGAGACCAGAA . PASS Atlas-SNP ZBTB24 9841 hgsc.bcm.edu 37 6 109787596 109787596 + Missense_Mutation SNP C C T rs2232448 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 132.0 77.0 112.0 0.0 0.583333 0 C|0.918;T|0.082 0.082 strong . ZBTB24 64 . NM_014797 exon7 c.G1552A p.A518T CTGAAGCATGCTT . PASS Atlas-SNP ENDOG 2021 hgsc.bcm.edu 37 9 131584649 131584649 + Silent SNP C C T rs55985529 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 107.0 66.0 105.0 0.0 0.616822 0 C|0.970;T|0.030 0.030 strong . ENDOG 8 . NM_004435 exon3 c.C654T p.I218I GGTCATCGGCAAG . PASS Atlas-SNP LRRTM1 347730 hgsc.bcm.edu 37 2 80529706 80529706 + Silent SNP A A G rs35054232 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 37.0 13.0 33.0 0.0 0.351351 0 A|0.958;G|0.042 0.042 strong . LRRTM1 251 . NM_178839 exon2 c.T1239C p.L413L GCCTGGAAGAGCC . PASS Atlas-SNP SEMG1 6406 hgsc.bcm.edu 37 20 43836237 43836237 + Missense_Mutation SNP T T A rs61729393 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 193.0 92.0 157.0 0.0 0.476684 0 T|0.988;A|0.012 0.012 strong . SEMG1 71 . NM_003007 exon2 c.T299A p.L100Q GACATCTAGGTGG . PASS Atlas-SNP AGT 183 hgsc.bcm.edu 37 1 230846305 230846305 + Missense_Mutation SNP C C T rs11568032 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 183.0 86.0 193.0 0.0 0.469945 0 C|0.994;T|0.006 0.006 strong . AGT 62 . NM_000029 exon2 c.G292A p.E98K TGTCTTCGGTGTC . PASS Atlas-SNP ARHGEF2 9181 hgsc.bcm.edu 37 1 155931630 155931630 + Silent SNP G G A rs143812169 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 189.0 95.0 201.0 0.0 0.502645 0 G|0.995;A|0.005 0.005 strong . ARHGEF2 81 . NM_001162383 exon11 c.C1290T p.D430D ACCCTCGTCCACA . PASS Atlas-SNP SPOCK1 6695 hgsc.bcm.edu 37 5 136448208 136448208 + Silent SNP A A G rs17170968 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 62.0 25.0 75.0 0.0 0.403226 0 A|0.924;G|0.076 0.076 strong . SPOCK1 58 . NM_004598 exon5 c.T390C p.P130P ATTCGAAGGTCCA . PASS Atlas-SNP ABHD2 11057 hgsc.bcm.edu 37 15 89738475 89738475 + Missense_Mutation SNP A A C rs147106119 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 115.0 55.0 115.0 0.0 0.478261 0 A|0.999;C|0.001 0.001 strong . ABHD2 55 . NM_007011 exon15 c.A1099C p.M367L AACGTCATGTTTG . PASS Atlas-SNP UNC5B 219699 hgsc.bcm.edu 37 10 73051440 73051440 + Missense_Mutation SNP G G A rs10509332 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 87.0 45.0 75.0 0.0 0.517241 0 G|0.960;A|0.040 0.040 strong . UNC5B 123 . NM_170744 exon10 c.G1546A p.A516T GATTTCGCCCGGG . PASS Atlas-SNP PXDN 7837 hgsc.bcm.edu 37 2 1647186 1647186 + Silent SNP G G A rs111450110 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 71.0 31.0 65.0 0.0 0.43662 0 G|0.992;A|0.008 0.008 strong . PXDN 255 . NM_012293 exon19 c.C3906T p.D1302D GATCTCGTCACAG . PASS Atlas-SNP PCDHB14 56122 hgsc.bcm.edu 37 5 140603248 140603248 + Silent SNP G G A rs7713000 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 205.0 106.0 188.0 0.0 0.517073 0 G|0.975;A|0.025 0.025 strong . PCDHB14 132 . NM_018934 exon1 c.G171A p.E57E GGTGGAGGAGCTG . PASS Atlas-SNP CCT5 22948 hgsc.bcm.edu 37 5 10262607 10262607 + Silent SNP G G A rs113262482 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 143.0 68.0 120.0 0.0 0.475524 0 G|0.992;A|0.008 0.008 strong . CCT5 49 . NM_012073 exon9 c.G1194A p.A398A GGAGGCGAAACGA . PASS Atlas-SNP GALNT10 55568 hgsc.bcm.edu 37 5 153792453 153792453 + Missense_Mutation SNP G G A rs142635658 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 31.0 17.0 41.0 0.0 0.548387 0 G|0.997;A|0.003 0.003 strong . GALNT10 70 . NM_198321 exon10 c.G1391A p.R464Q AGATCCGAAATGT . PASS Atlas-SNP CEP78 84131 hgsc.bcm.edu 37 9 80881357 80881357 + Splice_Site SNP G G C rs146563928 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 29.0 10.0 34.0 0.0 0.344828 0 G|0.999;C|0.001 0.001 strong . CEP78 79 . NM_001098802 exon16 c.1849-1G>C . CTTCTAGTTTCAG . PASS Atlas-SNP AGMO 392636 hgsc.bcm.edu 37 7 15458194 15458194 + Missense_Mutation SNP T T A rs146442781 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 162.0 81.0 140.0 1.0 0.5 0.00714286 T|0.997;A|0.003 0.003 strong AGMO,NS,carcinoma,0,1 AGMO 98 1 NM_001004320 exon5 c.A598T p.I200F TATGGATCCAAAA . scavenged Atlas-SNP DEFB1 1672 hgsc.bcm.edu 37 8 6728298 6728298 + Missense_Mutation SNP C C T rs2738047 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 128.0 71.0 122.0 0.0 0.554688 0 T|0.041;C|0.959 0.041 strong . DEFB1 4 . NM_005218 exon2 c.G112A p.V38I TGCTGACGCAATT . PASS Atlas-SNP SSPO 23145 hgsc.bcm.edu 37 7 149498945 149498945 + Missense_Mutation SNP C C T rs73727615 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 78.0 44.0 105.0 0.0 0.564103 0 C|0.982;T|0.018 0.018 strong . . . . NM_198455 exon50 c.C7397T p.P2466L GTTCCCCGAGCCA . PASS Atlas-SNP ALPI 248 hgsc.bcm.edu 37 2 233323000 233323000 + Silent SNP C C T rs10195208 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 266.0 128.0 240.0 1.0 0.481203 0.00416667 C|0.950;T|0.050 0.050 strong ALPI,NS,carcinoma,+2,1 ALPI 64 1 NM_001631 exon9 c.C1065T p.D355D CGACGACGCCATT . PASS Atlas-SNP ADIPOQ 9370 hgsc.bcm.edu 37 3 186570951 186570951 + Missense_Mutation SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 241.0 128.0 235.0 1.0 0.53112 0.00425532 . . none . ADIPOQ 35 . NM_001177800 exon3 c.C104T p.A35V AGGGGGCCTGCAC . PASS Atlas-SNP SSPO 23145 hgsc.bcm.edu 37 7 149486726 149486726 + Silent SNP T T C rs855695 bycluster;byfrequency;by2hit2allele;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 127.0 77.0 140.0 0.0 0.606299 0 T|0.974;C|0.026 0.026 strong . . . . NM_198455 exon31 c.T4500C p.V1500V CTGTGTTGATGGC . PASS Atlas-SNP JMJD7-PLA2G4B 8681 hgsc.bcm.edu 37 15 42138572 42138572 + Missense_Mutation SNP C C T rs36126315 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 112.0 55.0 114.0 0.0 0.491071 0 C|0.985;T|0.015 0.015 strong . JMJD7-PLA2G4B 90 . NM_005090 exon22 c.C2465T p.T822I TCTCCACATGGAA . PASS Atlas-SNP SRRM2 23524 hgsc.bcm.edu 37 16 2813177 2813177 + Missense_Mutation SNP C C G rs17136053 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 49.0 21.0 47.0 0.0 0.428571 0 C|0.969;G|0.031 0.031 strong . SRRM2 263 . NM_016333 exon11 c.C2648G p.S883C TGAAATCTAGGAC . PASS Atlas-SNP HSPB8 26353 hgsc.bcm.edu 37 12 119631654 119631654 + Silent SNP C C T rs4628742 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 160.0 74.0 156.0 0.0 0.4625 0 C|0.917;T|0.083 0.083 strong . HSPB8 45 . NM_014365 exon3 c.C582T p.T194T AGTCACCTGTACC . PASS Atlas-SNP KRTAP10-10 353333 hgsc.bcm.edu 37 21 46058043 46058043 + Missense_Mutation SNP C C T rs77109703 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 380.0 84.0 218.0 0.0 0.221053 0 C|0.966;T|0.034 0.034 strong . KRTAP10-10 37 . NM_181688 exon1 c.C709T p.R237C TGCTCCCGCCCTG . PASS Atlas-SNP SOGA3 387104 hgsc.bcm.edu 37 6 127797389 127797389 + Silent SNP C C T rs61741826 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 85.0 38.0 89.0 0.0 0.447059 0 C|0.999;T|0.001 0.001 strong . . . . NM_001012279 exon6 c.G1782A p.V594V TTCCTCCACCAGC . PASS Atlas-SNP TRIM41 90933 hgsc.bcm.edu 37 5 180661274 180661274 + Missense_Mutation SNP C C G rs78013120 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 50.0 28.0 40.0 0.0 0.56 0 C|0.995;G|0.005 0.005 strong . TRIM41 96 . NM_201627 exon6 c.C1392G p.D464E TGCTGACCATCCC . PASS Atlas-SNP TMEM204 79652 hgsc.bcm.edu 37 16 1584294 1584294 + Silent SNP C C T rs79579867 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 202.0 98.0 182.0 0.0 0.485149 0 C|0.979;T|0.021 0.021 strong . TMEM204 29 . NM_024600 exon1 c.C18T p.L6L GAGACTCGTGGCC . PASS Atlas-SNP FAM135A 57579 hgsc.bcm.edu 37 6 71248046 71248046 + Silent SNP A A G rs9455152 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 174.0 96.0 204.0 0.0 0.551724 0 A|0.974;G|0.026 0.026 strong . FAM135A 181 . NM_001162529 exon18 c.A4170G p.T1390T GCTGACATGTCGA . PASS Atlas-SNP HEATR5B 54497 hgsc.bcm.edu 37 2 37280711 37280711 + Silent SNP T T C rs10202107 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 196.0 101.0 221.0 0.0 0.515306 0 T|0.989;C|0.011 0.011 strong . HEATR5B 185 . NM_019024 exon17 c.A2439G p.Q813Q TTTAGCTTGTTTA . PASS Atlas-SNP DLK1 8788 hgsc.bcm.edu 37 14 101201219 101201219 + Missense_Mutation SNP G G C rs115349979 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 20.0 10.0 26.0 0.0 0.5 0 G|0.988;C|0.012 0.012 strong DLK1,NS,carcinoma,-2,2 DLK1 57 2 NM_003836 exon5 c.G1138C p.D380H GCCGGCGACGAGG . PASS Atlas-SNP HELQ 113510 hgsc.bcm.edu 37 4 84350870 84350870 + Silent SNP A A G rs59255439 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 82.0 42.0 84.0 0.0 0.512195 0 A|0.908;G|0.092 0.092 strong . HELQ 95 . NM_133636 exon12 c.T2325C p.H775H CATGAAATGATAG . PASS Atlas-SNP KRTAP10-10 353333 hgsc.bcm.edu 37 21 46057636 46057636 + Missense_Mutation SNP T T A rs115298124 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 273.0 120.0 205.0 0.0 0.43956 0 T|0.928;A|0.072 0.072 strong . KRTAP10-10 37 . NM_181688 exon1 c.T302A p.V101E GCTGTGTGCCCGT . PASS Atlas-SNP ALDH7A1 501 hgsc.bcm.edu 37 5 125928395 125928395 + Silent SNP A A G rs60720055 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 126.0 63.0 118.0 0.0 0.5 0 A|0.941;G|0.059 0.059 strong . ALDH7A1 57 . NM_001202404 exon3 c.T354C p.T118T CTTTACAGTTTCT . PASS Atlas-SNP KIAA1244 57221 hgsc.bcm.edu 37 6 138584014 138584014 + Missense_Mutation SNP C C G rs116596107 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 122.0 65.0 142.0 0.0 0.532787 0 C|0.998;G|0.002 0.002 strong . KIAA1244 236 . NM_020340 exon12 c.C1394G p.A465G ATGGGGCTGAGTG . PASS Atlas-SNP ARHGAP17 55114 hgsc.bcm.edu 37 16 24965975 24965975 + Silent SNP C C G rs111986765 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 87.0 43.0 91.0 0.0 0.494253 0 C|0.999;G|0.001 0.001 strong . ARHGAP17 138 . NM_001006634 exon10 c.G801C p.L267L AATGGGCAGCGCA . PASS Atlas-SNP ATP8 0 hgsc.bcm.edu 37 MT 8468 8468 + Silent SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 6.0 6.0 4.0 0.0 1 0 . . none . . . . ENST00000361851 exon1 c.C103T p.L35L TACCACCTACCTC . PASS Atlas-SNP UQCC 55245 hgsc.bcm.edu 37 20 33981906 33981906 + Missense_Mutation SNP G G C rs75909303 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 75.0 35.0 77.0 0.0 0.466667 0 G|0.994;C|0.006 0.006 strong UQCC,NS,carcinoma,0,1 UQCC 41 1 NM_018244 exon2 c.C118G p.R40G AAGTGCGAGACAG . PASS Atlas-SNP PNPO 55163 hgsc.bcm.edu 37 17 46023295 46023295 + Silent SNP C C G rs35974730 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 54.0 30.0 71.0 0.0 0.555556 0 C|0.980;G|0.020 0.020 strong . PNPO 18 . NM_018129 exon5 c.C486G p.P162P CCGCCCCAAGAGC . PASS Atlas-SNP TNC 3371 hgsc.bcm.edu 37 9 117810651 117810651 + Silent SNP G G A rs146504512 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 79.0 37.0 68.0 0.0 0.468354 0 G|0.996;A|0.004 0.004 strong . TNC 282 . NM_002160 exon16 c.C4740T p.T1580T CCTCTGGGTTCCT . PASS Atlas-SNP AQP8 343 hgsc.bcm.edu 37 16 25228566 25228566 + Silent SNP G G A rs139992979 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 238.0 111.0 233.0 0.0 0.466387 0 G|0.993;A|0.007 0.007 strong . AQP8 75 . NM_001169 exon2 c.G60A p.P20P GGAGCCGAGCGTG . PASS Atlas-SNP OR3A2 4995 hgsc.bcm.edu 37 17 3181677 3181677 + Missense_Mutation SNP G G C rs73977611 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 295.0 140.0 274.0 1.0 0.474576 0.00364964 G|0.991;C|0.009 0.009 strong . OR3A2 36 . NM_002551 exon1 c.C553G p.H185D AGAAGTGATTGAC . PASS Atlas-SNP SLC26A11 284129 hgsc.bcm.edu 37 17 78199666 78199666 + Missense_Mutation SNP C C G rs115961261 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 131.0 65.0 116.0 0.0 0.496183 0 C|0.990;G|0.010 0.010 strong SLC26A11,NS,carcinoma,-1,2 SLC26A11 60 2 NM_173626 exon6 c.C544G p.P182A CCCAGGCCGTTCT . PASS Atlas-SNP BUB1B 701 hgsc.bcm.edu 37 15 40498503 40498503 + Missense_Mutation SNP T T C rs1801528 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 176.0 86.0 167.0 0.0 0.488636 0 T|0.917;C|0.083 0.083 strong BUB1B,NS,carcinoma,+1,1 BUB1B 71 1 NM_001211 exon15 c.T1853C p.V618A GTTTTGTATCCAC . PASS Atlas-SNP MTFR2 113115 hgsc.bcm.edu 37 6 136570221 136570221 + Missense_Mutation SNP T T C rs147085272 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 42.0 16.0 47.0 0.0 0.380952 0 T|0.988;C|0.012 0.012 strong . . . . NM_138419 exon2 c.A17G p.N6S AAGATATTCAGTA . PASS Atlas-SNP NWD1 284434 hgsc.bcm.edu 37 19 16860087 16860087 + Missense_Mutation SNP G G A rs61750949 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 101.0 51.0 87.0 0.0 0.504951 0 G|0.983;A|0.017 0.017 strong . NWD1 303 . NM_001007525 exon6 c.G634A p.A212T CGGCTCGCGGATG . PASS Atlas-SNP DNAH10 196385 hgsc.bcm.edu 37 12 124360032 124360032 + Silent SNP C C T rs11834289 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 101.0 48.0 91.0 0.0 0.475248 0 C|0.924;T|0.076 0.076 strong . DNAH10 888 . NM_207437 exon46 c.C7839T p.H2613H AGGCCACACCTCG . PASS Atlas-SNP CRISP2 7180 hgsc.bcm.edu 37 6 49666100 49666100 + Missense_Mutation SNP T T C rs34457011 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 137.0 59.0 113.0 0.0 0.430657 0 T|0.991;C|0.009 0.009 strong . CRISP2 53 . NM_001142408 exon7 c.A392G p.N131S ACTGCATTGGGAC . PASS Atlas-SNP USP44 84101 hgsc.bcm.edu 37 12 95927087 95927087 + Missense_Mutation SNP C C G rs7305024 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 64.0 31.0 60.0 0.0 0.484375 0 C|0.955;G|0.045 0.045 strong . USP44 83 . NM_032147 exon2 c.G946C p.E316Q TCTTCTCGCTAGC . PASS Atlas-SNP DNAH10 196385 hgsc.bcm.edu 37 12 124323011 124323011 + Silent SNP T T C rs116167096 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 72.0 35.0 51.0 0.0 0.486111 0 T|0.983;C|0.017 0.017 strong . DNAH10 888 . NM_207437 exon28 c.T4557C p.G1519G CATGGGTGAGACC . PASS Atlas-SNP PCDHA2 56146 hgsc.bcm.edu 37 5 140176840 140176840 + Missense_Mutation SNP C C T rs6858913 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 305.0 143.0 269.0 0.0 0.468852 0 C|0.982;T|0.018 0.018 strong . PCDHA2 404 . NM_031495 exon1 c.C2291T p.P764L AGGACCCCCCCAA . PASS Atlas-SNP ZBTB22 9278 hgsc.bcm.edu 37 6 33283945 33283945 + Missense_Mutation SNP C C G rs35663442 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 72.0 25.0 60.0 0.0 0.347222 0 C|0.989;G|0.011 0.011 strong . ZBTB22 48 . NM_001145338 exon2 c.G749C p.G250A GCCCCTCCACTGC . PASS Atlas-SNP GJA4 2701 hgsc.bcm.edu 37 1 35260760 35260760 + Missense_Mutation SNP G G A rs140949366 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 51.0 25.0 43.0 0.0 0.490196 0 G|0.989;A|0.011 0.011 strong . GJA4 25 . NM_002060 exon2 c.G946A p.G316S CAGAATGGCCAAA . PASS Atlas-SNP FRMPD1 22844 hgsc.bcm.edu 37 9 37745562 37745562 + Missense_Mutation SNP C C T rs62640016 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 78.0 41.0 75.0 0.0 0.525641 0 C|0.986;T|0.014 0.014 strong FRMPD1,scalp,carcinoma,+1,1 FRMPD1 237 1 NM_014907 exon16 c.C3533T p.P1178L ATCCCCCTAGAGA . PASS Atlas-SNP MTERFD1 51001 hgsc.bcm.edu 37 8 97263180 97263180 + Missense_Mutation SNP T T G rs112357919 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 163.0 82.0 169.0 0.0 0.503067 0 T|0.958;G|0.042 0.042 strong . MTERFD1 50 . NM_015942 exon4 c.A631C p.K211Q GATTTTTTGTCAG . PASS Atlas-SNP ZNF813 126017 hgsc.bcm.edu 37 19 53994083 53994083 + Silent SNP T T C rs150664026 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 248.0 119.0 249.0 0.0 0.479839 0 T|0.999;C|0.001 0.001 strong ZNF813_ENST00000396403,NS,carcinoma,+1,1 ZNF813 81 1 NM_001004301 exon4 c.T597C p.S199S GAATTCTTCGTTA . PASS Atlas-SNP VN1R4 317703 hgsc.bcm.edu 37 19 53770846 53770846 + Missense_Mutation SNP C C G rs148896466 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 394.0 192.0 332.0 0.0 0.48731 0 C|0.953;G|0.047 0.047 strong . VN1R4 65 . NM_173857 exon1 c.G73C p.V25L GAAGAACAGAGAA . PASS Atlas-SNP DPY19L1 23333 hgsc.bcm.edu 37 7 34978926 34978926 + Silent SNP G G A rs377307859 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 138.0 71.0 113.0 0.0 0.514493 0 . . weak . DPY19L1 56 . NM_015283 exon20 c.C1707T p.P569P CACAATGGGCCGA . PASS Atlas-SNP ALPK3 57538 hgsc.bcm.edu 37 15 85403104 85403104 + Missense_Mutation SNP G G A rs114686452 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 103.0 46.0 102.0 0.0 0.446602 0 G|0.998;A|0.002 0.002 strong . ALPK3 289 . NM_020778 exon8 c.G4669A p.A1557T GGCTCGGCCTCCA . PASS Atlas-SNP HDGFRP2 0 hgsc.bcm.edu 37 19 4488718 4488718 + Missense_Mutation SNP G G A rs147061912 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 28.0 16.0 27.0 0.0 0.571429 0 G|0.994;A|0.006 0.006 strong . . . . NM_032631 exon4 c.G334A p.D112N CCCGCCGACGGCA . PASS Atlas-SNP TSKS 60385 hgsc.bcm.edu 37 19 50248556 50248556 + Missense_Mutation SNP C C T rs34082111 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 61.0 38.0 26.0 0.0 0.622951 0 C|0.991;T|0.009 0.009 strong . TSKS 97 . NM_021733 exon7 c.G1090A p.G364S GGAAGCCGTCGAC . PASS Atlas-SNP ZC3H4 23211 hgsc.bcm.edu 37 19 47575279 47575279 + Silent SNP G G C rs76187449 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 107.0 56.0 131.0 0.0 0.523364 0 . . weak . ZC3H4 96 . NM_015168 exon13 c.C1902G p.P634P CATGTCGGGGTGC . PASS Atlas-SNP MBOAT2 129642 hgsc.bcm.edu 37 2 8998971 8998971 + Silent SNP T T C rs35943010 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 106.0 45.0 130.0 0.0 0.424528 0 T|0.994;C|0.006 0.006 strong . MBOAT2 36 . NM_138799 exon13 c.A1401G p.K467K TTGAGTTTTTTTC . PASS Atlas-SNP GBX1 2636 hgsc.bcm.edu 37 7 150846188 150846188 + Missense_Mutation SNP C C T rs11975799 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 24.0 15.0 21.0 0.0 0.625 0 C|0.979;T|0.021 0.021 strong . GBX1 21 . NM_001098834 exon2 c.G580A p.A194T CTGATGCCTCCAG . PASS Atlas-SNP SHISA6 388336 hgsc.bcm.edu 37 17 11461483 11461483 + Silent SNP C C T rs148413919 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 68.0 28.0 61.0 0.0 0.411765 0 C|0.994;T|0.006 0.006 strong . SHISA6 44 . NM_207386 exon6 c.C1518T p.Y506Y CTCATACGCCACC . PASS Atlas-SNP FBN2 2201 hgsc.bcm.edu 37 5 127624905 127624905 + Missense_Mutation SNP T T A rs149071226 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 110.0 43.0 82.0 0.0 0.390909 0 T|0.998;A|0.002 0.002 strong . FBN2 858 . NM_001999 exon52 c.A6551T p.N2184I TGACCATTTGAAC . PASS Atlas-SNP OBSCN 84033 hgsc.bcm.edu 37 1 228560181 228560181 + Silent SNP G G A rs62640372 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 92.0 44.0 94.0 0.0 0.478261 0 G|0.996;A|0.004 0.004 strong . OBSCN 2142 . NM_001271223 exon105 c.G24573A p.S8191S CCAGTCGGAGGAG . PASS Atlas-SNP TCN2 6948 hgsc.bcm.edu 37 22 31011350 31011350 + Missense_Mutation SNP C C T rs35838082 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 208.0 208.0 183.0 0.0 1 0 C|0.925;T|0.075 0.075 strong . TCN2 44 . NM_000355 exon5 c.C643T p.R215W CCTGGTCGGAGAC . PASS Atlas-SNP MUC17 140453 hgsc.bcm.edu 37 7 100683156 100683156 + Missense_Mutation SNP C C T rs79046921 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 143.0 77.0 117.0 1.0 0.538462 0.00854701 A|0.000;C|0.960;T|0.040 0.040 strong MUC17,colon,carcinoma,-1,2 MUC17 804 2 NM_001040105 exon3 c.C8459T p.T2820M ACCACACGCCAGT . scavenged Atlas-SNP LPP 4026 hgsc.bcm.edu 37 3 188326955 188326955 + Missense_Mutation SNP A A G rs35417432 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 109.0 46.0 86.0 0.0 0.422018 0 A|0.939;G|0.061 0.061 strong . LPP 72 . NM_005578 exon6 c.A436G p.T146A AGCTCCACTGGTT . PASS Atlas-SNP C10orf12 26148 hgsc.bcm.edu 37 10 98742088 98742088 + Missense_Mutation SNP T T C rs7082522 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 82.0 36.0 96.0 0.0 0.439024 0 T|0.994;C|0.006 0.006 strong . C10orf12 94 . NM_015652 exon1 c.T941C p.L314P CTCACCTTCCTGA . PASS Atlas-SNP PPP1R10 5514 hgsc.bcm.edu 37 6 30570374 30570374 + Silent SNP G G A rs35689098 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 26.0 13.0 20.0 0.0 0.5 0 G|0.970;A|0.030 0.030 strong . PPP1R10 60 . NM_002714 exon19 c.C2052T p.G684G AGGGTCGCCCGGG . PASS Atlas-SNP KRTAP26-1 388818 hgsc.bcm.edu 37 21 31691993 31691993 + Missense_Mutation SNP C C T rs77018583 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 150.0 77.0 106.0 0.0 0.513333 0 C|0.989;T|0.011 0.011 strong KRTAP26-1,colon,carcinoma,+1,1 KRTAP26-1 58 1 NM_203405 exon1 c.G361A p.G121S GACAGCCGCTGGA . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195515126 195515126 + Missense_Mutation SNP C C A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 353.0 37.0 167.0 0.0 0.104816 0 . . none . MUC4 1505 . NM_018406 exon2 c.G3325T p.D1109Y AAGTGTCGGTGAC . PASS Atlas-SNP GRB10 2887 hgsc.bcm.edu 37 7 50672017 50672017 + Silent SNP G G A rs200886440 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 133.0 63.0 115.0 0.0 0.473684 0 G|0.999;A|0.001 0.001 strong . GRB10 155 . NM_005311 exon13 c.C1447T p.L483L TACTTAGGGTAGA . PASS Atlas-SNP GPR110 266977 hgsc.bcm.edu 37 6 46976924 46976924 + Silent SNP G G A rs45511696 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 135.0 69.0 126.0 0.0 0.511111 0 G|0.952;A|0.048 0.048 strong . GPR110 102 . NM_153840 exon11 c.C2247T p.V749V TGCAGGGACAACA . PASS Atlas-SNP KANK2 25959 hgsc.bcm.edu 37 19 11289129 11289129 + Missense_Mutation SNP G G A rs114414326 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 80.0 39.0 64.0 0.0 0.4875 0 G|0.990;A|0.010 0.010 strong . KANK2 47 . NM_015493 exon4 c.C1436T p.P479L CCTGGAGGGGAGG . PASS Atlas-SNP GAPVD1 26130 hgsc.bcm.edu 37 9 128099784 128099784 + Missense_Mutation SNP C C T rs62637637 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 136.0 33.0 119.0 0.0 0.242647 0 C|0.993;T|0.007 0.007 strong . GAPVD1 124 . NM_015635 exon16 c.C2872T p.P958S CTCCCTCCAGCTG . PASS Atlas-SNP NRIP1 8204 hgsc.bcm.edu 37 21 16338814 16338814 + Missense_Mutation SNP T T C rs9975169 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 232.0 118.0 223.0 1.0 0.508621 0.00448431 T|0.973;C|0.027 0.027 strong . NRIP1 103 . NM_003489 exon4 c.A1700G p.N567S GAGAGATTGATGG . PASS Atlas-SNP PTPRN2 5799 hgsc.bcm.edu 37 7 157931151 157931151 + Missense_Mutation SNP C C G rs150508509 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 101.0 35.0 93.0 0.0 0.346535 0 C|0.981;G|0.019 0.019 strong . PTPRN2 243 . NM_130843 exon7 c.G967C p.G323R TCAGGCCCCTCAC . PASS Atlas-SNP TTN 7273 hgsc.bcm.edu 37 2 179598399 179598399 + Silent SNP C C T rs72648932 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 153.0 82.0 125.0 0.0 0.535948 0 C|0.980;T|0.020 0.020 strong . TTN 18412 . NM_001267550 exon53 c.G15717A p.T5239T CAGGCACGTGTAT . PASS Atlas-SNP ZNF510 22869 hgsc.bcm.edu 37 9 99522508 99522508 + Missense_Mutation SNP C C T rs61731162 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 108.0 67.0 116.0 0.0 0.62037 0 C|0.973;T|0.027 0.027 strong . ZNF510 59 . NM_014930 exon6 c.G604A p.G202S CGCAACCTATTTT . PASS Atlas-SNP LIPM 340654 hgsc.bcm.edu 37 10 90575251 90575251 + Silent SNP T T C rs61737049 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 115.0 46.0 98.0 0.0 0.4 0 T|0.985;C|0.015 0.015 strong . LIPM 17 . NM_001128215 exon6 c.T849C p.N283N CAACAATATGAAC . PASS Atlas-SNP FLG 2312 hgsc.bcm.edu 37 1 152284576 152284576 + Missense_Mutation SNP C C A rs143382793 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 745.0 145.0 591.0 1.0 0.194631 0.00169205 C|0.993;A|0.007 0.007 strong . FLG 900 . NM_002016 exon3 c.G2786T p.G929V CCCTGGCCTGCCT . PASS Atlas-SNP TINF2 26277 hgsc.bcm.edu 37 14 24709351 24709351 + Silent SNP C C T rs10141326 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 123.0 64.0 125.0 0.0 0.520325 0 C|0.944;T|0.056 0.056 strong . TINF2 61 . NM_001099274 exon8 c.G1140A p.P380P CAGAGACGGAGGA . PASS Atlas-SNP TIAM2 26230 hgsc.bcm.edu 37 6 155486535 155486535 + Missense_Mutation SNP A A G rs62621836 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 114.0 59.0 96.0 0.0 0.517544 0 A|0.979;G|0.021 0.021 strong . TIAM2 161 . NM_012454 exon8 c.A2353G p.I785V CCTTCTATAACTC . PASS Atlas-SNP ECM2 1842 hgsc.bcm.edu 37 9 95267938 95267938 + Silent SNP T T C rs35161698 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 99.0 62.0 117.0 0.0 0.626263 0 T|0.978;C|0.022 0.022 strong . ECM2 147 . NM_001393 exon7 c.A1341G p.G447G ATTGTTTCCTTCC . PASS Atlas-SNP MED12L 116931 hgsc.bcm.edu 37 3 151127074 151127074 + Missense_Mutation SNP G G A rs78970280 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 71.0 32.0 81.0 0.0 0.450704 0 G|0.993;A|0.007 0.007 strong MED12L,colon,carcinoma,-1,1 MED12L 271 1 NM_053002 exon38 c.G5759A p.R1920Q AAGCACGGCCCTC . PASS Atlas-SNP MINPP1 9562 hgsc.bcm.edu 37 10 89312046 89312046 + Silent SNP T T C rs2233169 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 137.0 61.0 160.0 0.0 0.445255 0 T|0.975;C|0.025 0.025 strong . MINPP1 22 . NM_004897 exon5 c.T1275C p.A425A AAATGCTAAGACT . PASS Atlas-SNP COL17A1 1308 hgsc.bcm.edu 37 10 105824332 105824332 + Silent SNP C C T rs149012179 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 156.0 79.0 141.0 0.0 0.50641 0 C|0.993;T|0.007 0.007 strong . COL17A1 149 . NM_000494 exon10 c.G630A p.T210T CAGGATCGTTGCA . PASS Atlas-SNP PLEKHG4B 153478 hgsc.bcm.edu 37 5 155059 155059 + Missense_Mutation SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 71.0 3.0 54.0 0.0 0.0422535 0 . . none PLEKHG4B_ENST00000283426,NS,carcinoma,-2,2 PLEKHG4B 167 2 NM_052909 exon6 c.G994A p.D332N GACCTCGACGGCT . scavenged Atlas-SNP STOM 2040 hgsc.bcm.edu 37 9 124110368 124110368 + Silent SNP C C T rs115702601 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 55.0 123.0 0.0 0.55 0 C|0.996;T|0.004 0.004 strong . STOM 15 . NM_001270526 exon6 c.G585A p.K195K CACATCCTTAATT . PASS Atlas-SNP TAF5L 27097 hgsc.bcm.edu 37 1 229750089 229750089 + Silent SNP T T C rs144626601 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 156.0 65.0 136.0 0.0 0.416667 0 T|0.997;C|0.003 0.003 strong . TAF5L 76 . NM_001025247 exon2 c.A141G p.T47T ATTACCTGTTAGA . PASS Atlas-SNP ALG1L2 644974 hgsc.bcm.edu 37 3 129810973 129810973 + Missense_Mutation SNP G G A rs114865400 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 556.0 273.0 493.0 0.0 0.491007 0 G|0.968;A|0.032 0.032 strong . . . . NM_001136152 exon3 c.G161A p.R54Q CAGAGCGGTCGGC . PASS Atlas-SNP MAATS1 89876 hgsc.bcm.edu 37 3 119445092 119445092 + Missense_Mutation SNP T T A rs9817771 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 111.0 56.0 98.0 0.0 0.504505 0 T|0.984;A|0.016 0.016 strong . . . . NM_033364 exon7 c.T757A p.S253T GAAGCCTCTCTCC . PASS Atlas-SNP GKN2 200504 hgsc.bcm.edu 37 2 69172570 69172570 + Missense_Mutation SNP G G A rs73935451 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 152.0 85.0 138.0 0.0 0.559211 0 G|0.983;A|0.017 0.017 strong . GKN2 28 . NM_182536 exon6 c.C485T p.A162V CCTCCAGCACCGA . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195515257 195515257 + Missense_Mutation SNP G G T rs71187744 alternate_allele TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 265.0 62.0 171.0 0.0 0.233962 0 G|0.500;A|0.500 . alt MUC4_ENST00000463781,NS,carcinoma,0,3 MUC4 1505 3 NM_018406 exon2 c.C3194A p.A1065E GTGGATGCTGAGG . PASS Atlas-SNP MYO7B 4648 hgsc.bcm.edu 37 2 128341904 128341904 + Silent SNP G G A rs61743462 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 119.0 53.0 92.0 0.0 0.445378 0 G|0.993;A|0.007 0.007 strong . MYO7B 359 . NM_001080527 exon13 c.G1551A p.P517P CTTCCCGCAGGTG . PASS Atlas-SNP SAMD15 161394 hgsc.bcm.edu 37 14 77843920 77843920 + Silent SNP A A G rs61729313 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 102.0 54.0 97.0 0.0 0.529412 0 A|0.932;G|0.068 0.068 strong . SAMD15 60 . NM_001010860 exon1 c.A159G p.Q53Q TTACCAAGAGCCA . PASS Atlas-SNP MED7 9443 hgsc.bcm.edu 37 5 156565839 156565839 + Missense_Mutation SNP C C T rs151231455 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 319.0 149.0 348.0 1.0 0.467085 0.00287356 C|0.991;T|0.009 0.009 strong . MED7 18 . NM_001100816 exon2 c.G604A p.E202K GATGTTCATTCTG . PASS Atlas-SNP THTPA 79178 hgsc.bcm.edu 37 14 24026174 24026174 + Missense_Mutation SNP G G T rs141465409 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 215.0 115.0 201.0 0.0 0.534884 0 G|0.999;T|0.001 0.001 strong . THTPA 11 . NM_001256321 exon2 c.G208T p.A70S GGAGCAGCAGGTG . PASS Atlas-SNP PCSK7 9159 hgsc.bcm.edu 37 11 117079687 117079687 + Silent SNP G G A rs148329047 byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 246.0 92.0 393.0 0.0 0.373984 0 G|0.991;A|0.009 0.009 strong . PCSK7 59 . NM_004716 exon13 c.C1617T p.R539R GCTGCCGCGCCGT . PASS Atlas-SNP PRSS41 360226 hgsc.bcm.edu 37 16 2849542 2849542 + Silent SNP C C T rs6500613 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 80.0 35.0 77.0 0.0 0.4375 0 C|0.978;T|0.022 0.022 strong . . . . NM_001135086 exon3 c.C552T p.T184T GGTGACCGGCTGG . PASS Atlas-SNP ASB15 142685 hgsc.bcm.edu 37 7 123269280 123269280 + Missense_Mutation SNP T T C rs73718442 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 129.0 66.0 129.0 0.0 0.511628 0 T|0.992;C|0.008 0.008 strong . ASB15 94 . NM_080928 exon8 c.T1232C p.M411T ATTTTATGCATGT . PASS Atlas-SNP CLRN3 119467 hgsc.bcm.edu 37 10 129676520 129676520 + Missense_Mutation SNP T T C rs34656572 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 136.0 69.0 141.0 0.0 0.507353 0 T|0.989;C|0.011 0.011 strong . CLRN3 27 . NM_152311 exon3 c.A574G p.I192V TGACTATATTTAG . PASS Atlas-SNP ND4 0 hgsc.bcm.edu 37 MT 11654 11654 + Missense_Mutation SNP A A G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 12.0 12.0 7.0 0.0 1 0 . . none . . . . ENST00000361381 exon1 c.A895G p.T299A GTAGTAACAGCCA . PASS Atlas-SNP TNRC18 84629 hgsc.bcm.edu 37 7 5352731 5352731 + Silent SNP G G A rs114222264 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 23.0 8.0 20.0 0.0 0.347826 0 G|0.964;A|0.036 0.036 strong . TNRC18 311 . NM_001080495 exon27 c.C7791T p.T2597T GCCCCCGGTGCCG . PASS Atlas-SNP CUL9 23113 hgsc.bcm.edu 37 6 43154064 43154064 + Silent SNP C C T rs79828871 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 140.0 58.0 118.0 0.0 0.414286 0 C|0.967;T|0.033 0.033 strong . CUL9 248 . NM_015089 exon4 c.C1122T p.G374G TAGTGGCTATGGA . PASS Atlas-SNP THADA 63892 hgsc.bcm.edu 37 2 43518843 43518843 + Missense_Mutation SNP A A G rs17030648 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 213.0 118.0 204.0 1.0 0.553991 0.00490196 A|0.958;G|0.042 0.042 strong . THADA 131 . NM_001083953 exon34 c.T5002C p.C1668R CCACACATGTCTG . PASS Atlas-SNP PLEC 5339 hgsc.bcm.edu 37 8 145006866 145006866 + Silent SNP G G A rs185978075 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 56.0 27.0 39.0 0.0 0.482143 0 G|0.994;A|0.006 0.006 strong . PLEC 1144 . NM_201380 exon15 c.C2163T p.P721P GGTGGCGGGGGAG . PASS Atlas-SNP TNRC6A 27327 hgsc.bcm.edu 37 16 24802245 24802245 + Missense_Mutation SNP T T G rs112027699 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 50.0 24.0 45.0 0.0 0.48 0 T|0.999;G|0.001 0.001 strong . TNRC6A 171 . NM_014494 exon6 c.T2282G p.F761C AGACTTTTAACTC . PASS Atlas-SNP SLC5A12 159963 hgsc.bcm.edu 37 11 26700344 26700344 + Silent SNP G G C rs150900623 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 90.0 39.0 75.0 0.0 0.433333 0 G|0.994;C|0.006 0.006 strong . SLC5A12 134 . NM_178498 exon13 c.C1494G p.T498T GTACCAGGTATCA . PASS Atlas-SNP UPF1 5976 hgsc.bcm.edu 37 19 18958562 18958562 + Silent SNP A A T rs73526913 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 150.0 70.0 146.0 0.0 0.466667 0 A|0.991;T|0.009 0.009 strong . UPF1 88 . NM_002911 exon3 c.A381T p.G127G CTGTGGAATACAC . PASS Atlas-SNP XIRP2 129446 hgsc.bcm.edu 37 2 168100280 168100280 + Missense_Mutation SNP G G A rs201184820 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 140.0 83.0 199.0 0.0 0.592857 0 . . weak XIRP2,larynx,carcinoma,+1,2 XIRP2 914 2 NM_152381 exon9 c.G2378A p.R793Q TTGTCCGAGGAAT . PASS Atlas-SNP RYR3 6263 hgsc.bcm.edu 37 15 34105084 34105084 + Silent SNP A A G rs16958093 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 77.0 35.0 68.0 0.0 0.454545 0 A|0.955;G|0.045 0.045 strong . RYR3 760 . NM_001036 exon73 c.A10278G p.K3426K TGTAAAATGGCAA . PASS Atlas-SNP C15orf40 123207 hgsc.bcm.edu 37 15 83680313 83680313 + Missense_Mutation SNP T T G rs114478510 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 30.0 9.0 37.0 0.0 0.3 0 T|0.992;G|0.008 0.008 strong . C15orf40 18 . NM_001160116 exon1 c.A47C p.N16T CGAGTATTGGGTG . PASS Atlas-SNP WDR78 79819 hgsc.bcm.edu 37 1 67327986 67327986 + Splice_Site SNP C C G rs144890566 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 178.0 93.0 196.0 0.0 0.522472 0 C|1.000;G|0.000 0.000 weak . WDR78 102 . NM_024763 exon8 c.941-1G>C . TTATGCCTAGATA . PASS Atlas-SNP NPAP1 23742 hgsc.bcm.edu 37 15 24922407 24922407 + Missense_Mutation SNP C C T rs79339610 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 107.0 41.0 99.0 0.0 0.383178 0 C|0.996;T|0.004 0.004 strong C15orf2,colon,carcinoma,0,1 . . 1 NM_018958 exon1 c.C1393T p.L465F CTGGCTCTTCCTG . PASS Atlas-SNP HDX 139324 hgsc.bcm.edu 37 X 83591879 83591879 + Missense_Mutation SNP T T C rs77791258 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 67.0 26.0 66.0 0.0 0.38806 0 T|0.950;C|0.050 0.050 strong . HDX 124 . NM_144657 exon7 c.A1670G p.N557S ACTTCATTGGGCT . PASS Atlas-SNP OGDHL 55753 hgsc.bcm.edu 37 10 50954850 50954850 + Silent SNP G G A rs75974530 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 126.0 66.0 114.0 0.0 0.52381 0 G|0.976;A|0.024 0.024 strong . OGDHL 149 . NM_018245 exon10 c.C1242T p.S414S CAGGTCGCTCAGG . PASS Atlas-SNP PTPRN 5798 hgsc.bcm.edu 37 2 220164886 220164886 + Missense_Mutation SNP A A C rs35314717 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 89.0 53.0 73.0 0.0 0.595506 0 A|0.966;C|0.034 0.034 strong . PTPRN 138 . NM_002846 exon9 c.T1257G p.S419R GACTTCACTGGAG . PASS Atlas-SNP OC90 729330 hgsc.bcm.edu 37 8 133044172 133044172 + Silent SNP G G A rs6989686 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 144.0 65.0 130.0 0.0 0.451389 0 G|0.994;A|0.006 0.006 strong . OC90 163 . NM_001080399 exon12 c.C987T p.Y329Y TCCACAGTAACAG . PASS Atlas-SNP PLXNB2 23654 hgsc.bcm.edu 37 22 50718941 50718941 + Silent SNP C C T rs73891209 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 29.0 11.0 22.0 0.0 0.37931 0 C|0.976;G|0.000;T|0.024 0.024 strong . PLXNB2 172 . NM_012401 exon25 c.G4152A p.K1384K GGGGTTCTTGGCC . PASS Atlas-SNP MUC17 140453 hgsc.bcm.edu 37 7 100675367 100675367 + Missense_Mutation SNP A A G rs116801454 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 107.0 46.0 99.0 0.0 0.429907 0 A|0.987;G|0.013 0.013 strong . MUC17 804 . NM_001040105 exon3 c.A670G p.S224G CCTGCCAGCACCA . PASS Atlas-SNP CCDC11 220136 hgsc.bcm.edu 37 18 47788535 47788535 + Missense_Mutation SNP G G A rs138060809 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 106.0 57.0 98.0 0.0 0.537736 0 G|0.999;A|0.001 0.001 strong . CCDC11 59 . NM_145020 exon2 c.C124T p.R42C GGCTGCGTCGGAT . PASS Atlas-SNP PLA2G4C 8605 hgsc.bcm.edu 37 19 48558159 48558159 + Silent SNP G G A rs2307280 bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 130.0 66.0 121.0 0.0 0.507692 0 G|0.926;A|0.074 0.074 strong . PLA2G4C 76 . NM_001159322 exon15 c.C1435T p.L479L TGAACAGGGGAAA . PASS Atlas-SNP C2CD3 26005 hgsc.bcm.edu 37 11 73759254 73759254 + Missense_Mutation SNP C C A rs1632245 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 42.0 98.0 0.0 0.42 0 A|0.037;C|0.963 0.037 strong C2CD3_ENST00000334126,NS,carcinoma,+2,2 C2CD3 288 2 NM_015531 exon28 c.G5491T p.G1831W ACCTCCCAGGAGA . PASS Atlas-SNP P2RX7 5027 hgsc.bcm.edu 37 12 121622115 121622115 + Missense_Mutation SNP C C T rs28360459 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 28.0 11.0 37.0 0.0 0.392857 0 C|0.965;T|0.035 0.035 strong . P2RX7 53 . NM_002562 exon13 c.C1298T p.A433V GACCTGCGATGGA . PASS Atlas-SNP TTN 7273 hgsc.bcm.edu 37 2 179435887 179435887 + Missense_Mutation SNP A A G rs744427 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 70.0 37.0 53.0 0.0 0.528571 0 A|0.984;G|0.016 0.016 strong . TTN 18412 . NM_001267550 exon326 c.T74972C p.I24991T TTGCCAATGCCCA . PASS Atlas-SNP ND5 0 hgsc.bcm.edu 37 MT 12477 12477 + Silent SNP T T C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 12.0 12.0 8.0 0.0 1 0 . . none . . . . ENST00000361567 exon1 c.T141C p.S47S TATCAGTCTCTTC . PASS Atlas-SNP NMRK2 27231 hgsc.bcm.edu 37 19 3942110 3942110 + Missense_Mutation SNP G G A rs16992131 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 81.0 38.0 64.0 0.0 0.469136 0 G|0.977;A|0.023 0.023 strong . . . . NM_170678 exon8 c.G532A p.E178K CGAGAGGAGCTCT . PASS Atlas-SNP ITGA2B 3674 hgsc.bcm.edu 37 17 42457120 42457120 + Silent SNP C C T rs5912 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 52.0 81.0 0.0 0.52 0 C|0.982;T|0.018 0.018 strong ITGA2B,colon,carcinoma,-1,1 ITGA2B 88 1 NM_000419 exon18 c.G1815A p.P605P CGTGGGCGGTAGG . PASS Atlas-SNP KRTAP4-9 100132386 hgsc.bcm.edu 37 17 39261717 39261717 + Missense_Mutation SNP G G A rs149483591 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 120.0 60.0 129.0 2.0 0.5 0.0155039 G|0.956;A|0.044 0.044 strong KRTAP4-9,NS,carcinoma,+1,1 KRTAP4-9 110 1 NM_001146041 exon1 c.G77A p.R26H GCTGCCGCCCCAG . scavenged Atlas-SNP ZHX1 11244 hgsc.bcm.edu 37 8 124265676 124265676 + Silent SNP C C T rs34145851 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 311.0 149.0 325.0 0.0 0.4791 0 C|0.986;T|0.014 0.014 strong ZHX1,NS,carcinoma,-2,1 ZHX1 89 1 NM_007222 exon3 c.G2511A p.E837E ATCTTCCTCCTCA . PASS Atlas-SNP MED28 80306 hgsc.bcm.edu 37 4 17616349 17616349 + Silent SNP G G A rs146036794 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 156.0 72.0 101.0 0.0 0.461538 0 G|0.996;A|0.004 0.004 strong . MED28 16 . NM_025205 exon1 c.G72A p.P24P CCTTCCGGGCCAA . PASS Atlas-SNP TGFBRAP1 9392 hgsc.bcm.edu 37 2 105924699 105924699 + Silent SNP G G A rs115690647 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 88.0 50.0 76.0 0.0 0.568182 0 G|0.990;A|0.010 0.010 strong . TGFBRAP1 70 . NM_004257 exon2 c.C60T p.G20G CTTGTCGCCCATC . PASS Atlas-SNP NUMA1 4926 hgsc.bcm.edu 37 11 71718413 71718413 + Missense_Mutation SNP C C T rs149588226 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 85.0 28.0 79.0 0.0 0.329412 0 C|0.995;T|0.005 0.005 strong . NUMA1 142 . NM_006185 exon21 c.G5285A p.R1762H GGCAGGCGCTGGG . PASS Atlas-SNP EVPLL 645027 hgsc.bcm.edu 37 17 18284263 18284263 + Silent SNP C C T rs116412205 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 242.0 100.0 266.0 0.0 0.413223 0 C|0.993;T|0.007 0.007 strong . EVPLL 10 . NM_001145127 exon2 c.C12T p.S4S AGCCAGCGCCGAC . PASS Atlas-SNP TMPRSS11B 132724 hgsc.bcm.edu 37 4 69094472 69094472 + Silent SNP A A T rs34044450 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 252.0 114.0 234.0 0.0 0.452381 0 A|0.990;T|0.010 0.010 strong TMPRSS11B,NS,carcinoma,0,1 TMPRSS11B 66 1 NM_182502 exon9 c.T1077A p.A359A TGCATCAGCTTCT . PASS Atlas-SNP SSPO 23145 hgsc.bcm.edu 37 7 149512267 149512267 + Silent SNP C C T rs142728666 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 75.0 33.0 81.0 0.0 0.44 0 C|0.996;T|0.004 0.004 strong . . . . NM_198455 exon75 c.C10587T p.C3529C AGACTGCGGGGGT . PASS Atlas-SNP KDM4C 23081 hgsc.bcm.edu 37 9 7013874 7013874 + Silent SNP C C T rs35006356 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 67.0 35.0 76.0 0.0 0.522388 0 C|0.993;T|0.007 0.007 strong . KDM4C 186 . NM_001146696 exon14 c.C2121T p.L707L GCCCCTCATACCA . PASS Atlas-SNP C16orf82 162083 hgsc.bcm.edu 37 16 27078545 27078545 + Missense_Mutation SNP C C T rs185409807 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 66.0 27.0 60.0 0.0 0.409091 0 C|0.982;T|0.018 0.018 strong . . . . NM_001145545 exon1 c.C229T p.P77S CAGCACCCGAGGC . PASS Atlas-SNP IGJ 3512 hgsc.bcm.edu 37 4 71522999 71522999 + Silent SNP C C T rs75928327 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 51.0 22.0 46.0 0.0 0.431373 0 C|0.990;T|0.010 0.010 strong . IGJ 13 . NM_144646 exon3 c.G198A p.L66L GTTGTTCAGAGGA . PASS Atlas-SNP RANBP2 5903 hgsc.bcm.edu 37 2 109347314 109347314 + Missense_Mutation SNP C C G rs144278795 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 296.0 142.0 250.0 0.0 0.47973 0 C|0.996;G|0.004 0.004 strong . RANBP2 488 . NM_006267 exon3 c.C225G p.N75K AGAAAACACAGAC . PASS Atlas-SNP DOCK8 81704 hgsc.bcm.edu 37 9 382646 382646 + Silent SNP C C T rs116523732 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 118.0 62.0 96.0 0.0 0.525424 0 C|0.991;T|0.009 0.009 strong . DOCK8 401 . NM_203447 exon22 c.C2739T p.S913S ACACTCCGCAGCA . PASS Atlas-SNP HRNR 388697 hgsc.bcm.edu 37 1 152191052 152191052 + Missense_Mutation SNP G G T rs115232928 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 264.0 122.0 224.0 0.0 0.462121 0 G|0.985;T|0.015 0.015 strong . HRNR 403 . NM_001009931 exon3 c.C3053A p.S1018Y TGCCCGGAACCAG . PASS Atlas-SNP PSG2 5670 hgsc.bcm.edu 37 19 43585286 43585286 + Silent SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 357.0 15.0 314.0 0.0 0.0420168 0 . . none PSG2,colon,carcinoma,-2,4 PSG2 84 4 NM_031246 exon2 c.C177T p.P59P ATTCTGGGGCAAA . scavenged Atlas-SNP TCEB3B 51224 hgsc.bcm.edu 37 18 44561069 44561069 + Silent SNP G G T rs139088020 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 70.0 41.0 50.0 0.0 0.585714 0 G|0.998;T|0.002 0.002 strong . TCEB3B 141 . NM_016427 exon1 c.C567A p.P189P CTTCCCGGGCGCA . PASS Atlas-SNP PRR21 643905 hgsc.bcm.edu 37 2 240981362 240981362 + Silent SNP T T C rs115420937 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 133.0 57.0 144.0 0.0 0.428571 0 T|0.992;C|0.008 0.008 strong . PRR21 53 . NM_001080835 exon1 c.A1038G p.L346L GAGGCGTAGATGA . PASS Atlas-SNP CACNA1F 778 hgsc.bcm.edu 37 X 49070329 49070329 + Missense_Mutation SNP C C T rs34308720 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 117.0 55.0 116.0 0.0 0.470085 0 C|0.993;T|0.007 0.007 strong . CACNA1F 218 . NM_005183 exon31 c.G3775A p.A1259T TAAGAGCGTCAAA . PASS Atlas-SNP ZNF646 9726 hgsc.bcm.edu 37 16 31092629 31092629 + Missense_Mutation SNP G G A rs370035952 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 144.0 83.0 141.0 0.0 0.576389 0 . . weak . ZNF646 133 . NM_014699 exon2 c.G4984A p.G1662R AGGGGAGGACAAG . PASS Atlas-SNP PCYOX1 51449 hgsc.bcm.edu 37 2 70485332 70485332 + Silent SNP G G A rs114523411 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 111.0 40.0 137.0 0.0 0.36036 0 G|0.995;A|0.005 0.005 strong . PCYOX1 34 . NM_016297 exon1 c.G36A p.L12L CTCGCTGCTGGGG . PASS Atlas-SNP PLXNA4 91584 hgsc.bcm.edu 37 7 132193225 132193225 + Silent SNP G G A rs78248128 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 158.0 92.0 110.0 0.0 0.582278 0 G|0.966;A|0.034 0.034 strong . PLXNA4 873 . NM_001105543 exon2 c.C228T p.S76S CAGGTCGCTGGAG . PASS Atlas-SNP HDAC4 9759 hgsc.bcm.edu 37 2 240111556 240111556 + Silent SNP G G A rs6740794 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 115.0 54.0 83.0 0.0 0.469565 0 G|0.938;A|0.062 0.062 strong HDAC4,colon,carcinoma,0,1 HDAC4 127 1 NM_006037 exon4 c.C312T p.H104H CGCCTCGTGCTGC . PASS Atlas-SNP SNRPA1 6627 hgsc.bcm.edu 37 15 101835306 101835306 + Silent SNP G G C rs61738984 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 47.0 21.0 36.0 0.0 0.446809 0 G|0.906;C|0.094 0.094 strong . SNRPA1 11 . NM_003090 exon1 c.C78G p.L26L ACCCCGGAGGTCC . PASS Atlas-SNP PPP6R2 9701 hgsc.bcm.edu 37 22 50874851 50874851 + Silent SNP G G A rs78837601 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 342.0 166.0 314.0 0.0 0.48538 0 G|0.976;A|0.024 0.024 strong . PPP6R2 71 . NM_001242899 exon14 c.G1575A p.T525T GCTGACGGAGACG . PASS Atlas-SNP MYO5C 55930 hgsc.bcm.edu 37 15 52553259 52553259 + Missense_Mutation SNP C C G rs200784696 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 66.0 29.0 56.0 0.0 0.439394 0 . . weak . MYO5C 162 . NM_018728 exon10 c.G1113C p.Q371H CAGCCACTGAGCA . PASS Atlas-SNP HGC6.3 0 hgsc.bcm.edu 37 6 168377054 168377054 + Silent SNP G G T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 331.0 52.0 309.0 0.0 0.1571 0 . . none . . . . NM_001129895 exon1 c.C279A p.S93S GTGGGGGGAGGAG . PASS Atlas-SNP KRT71 112802 hgsc.bcm.edu 37 12 52946424 52946424 + Silent SNP G G A rs61729863 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 208.0 87.0 225.0 0.0 0.418269 0 G|0.970;A|0.030 0.030 strong . KRT71 70 . NM_033448 exon1 c.C438T p.D146D CACCTTGTCGATG . PASS Atlas-SNP KRTAP26-1 388818 hgsc.bcm.edu 37 21 31692346 31692346 + Missense_Mutation SNP C C T rs115381362 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 141.0 65.0 111.0 0.0 0.460993 0 C|0.993;T|0.007 0.007 strong . KRTAP26-1 58 . NM_203405 exon1 c.G8A p.C3Y TTGGGGCAAGACA . PASS Atlas-SNP CCDC173 129881 hgsc.bcm.edu 37 2 170537661 170537661 + Silent SNP A A G rs145389999 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 202.0 108.0 203.0 1.0 0.534653 0.00492611 A|0.993;G|0.007 0.007 strong . . . . NM_001085447 exon2 c.T150C p.I50I GTGTGGAATTATG . PASS Atlas-SNP CHRDL2 25884 hgsc.bcm.edu 37 11 74415606 74415606 + Missense_Mutation SNP T T C rs59876990 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 229.0 102.0 223.0 0.0 0.445415 0 T|0.978;C|0.022 0.022 strong . CHRDL2 47 . NM_015424 exon7 c.A676G p.I226V GAGGGATGAAGCT . PASS Atlas-SNP XIRP1 165904 hgsc.bcm.edu 37 3 39228514 39228514 + Missense_Mutation SNP G G A rs61736154 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 158.0 73.0 149.0 0.0 0.462025 0 G|0.977;A|0.023 0.023 strong . XIRP1 173 . NM_001198621 exon2 c.C2423T p.S808L GTGCCCGAGAGCA . PASS Atlas-SNP TET2 54790 hgsc.bcm.edu 37 4 106156983 106156983 + Silent SNP G G A rs35695427 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 136.0 71.0 132.0 0.0 0.522059 0 G|0.982;A|0.018 0.018 strong TET2_ENST00000305737,bladder,carcinoma,+2,2 TET2 1762 2 NM_001127208 exon3 c.G1884A p.E628E GCTGGAGCACAAG . PASS Atlas-SNP CCDC142 84865 hgsc.bcm.edu 37 2 74708454 74708454 + Missense_Mutation SNP A A C rs142978072 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 145.0 56.0 175.0 0.0 0.386207 0 A|0.997;C|0.003 0.003 strong . CCDC142 40 . NM_032779 exon3 c.T1154G p.L385R GTGGGAAGGCTGC . PASS Atlas-SNP TMPRSS9 360200 hgsc.bcm.edu 37 19 2413788 2413788 + Missense_Mutation SNP G G A rs147023760 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 99.0 46.0 107.0 0.0 0.464646 0 G|0.983;A|0.017 0.017 strong . TMPRSS9 79 . NM_182973 exon9 c.G1243A p.A415T GCGGAAGCCCGGC . PASS Atlas-SNP INSRR 3645 hgsc.bcm.edu 37 1 156814884 156814884 + Silent SNP C C T rs149474857 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 115.0 56.0 83.0 0.0 0.486957 0 C|0.991;T|0.009 0.009 strong . INSRR 309 . NM_014215 exon12 c.G2421A p.A807A GGTGCGCGCAAAG . PASS Atlas-SNP ZNF157 7712 hgsc.bcm.edu 37 X 47272480 47272480 + Silent SNP G G A rs61736399 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 81.0 27.0 93.0 0.0 0.333333 0 G|0.990;A|0.010 0.010 strong . ZNF157 46 . NM_003446 exon4 c.G1008A p.G336G ATGTGGGAAATTC . PASS Atlas-SNP TOM1L2 146691 hgsc.bcm.edu 37 17 17786042 17786042 + Missense_Mutation SNP G G T rs146710625 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 192.0 85.0 166.0 0.0 0.442708 0 G|0.999;T|0.001 0.001 strong . TOM1L2 54 . NM_001082968 exon6 c.C637A p.P213T TGATGGGGCCAGT . PASS Atlas-SNP DOCK1 1793 hgsc.bcm.edu 37 10 128795081 128795081 + Silent SNP G G A rs79043452 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 159.0 79.0 130.0 0.0 0.496855 0 G|0.997;A|0.003 0.003 strong . DOCK1 188 . NM_001380 exon7 c.G543A p.T181T TAGCACGATTAGT . PASS Atlas-SNP CCDC8 83987 hgsc.bcm.edu 37 19 46915182 46915182 + Missense_Mutation SNP C C T rs11880658 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 106.0 53.0 111.0 0.0 0.5 0 C|0.962;T|0.038 0.038 strong . CCDC8 56 . NM_032040 exon1 c.G886A p.G296R CTCCCCCCTGATC . PASS Atlas-SNP THBS1 7057 hgsc.bcm.edu 37 15 39874092 39874092 + Silent SNP C C T rs35248254 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 125.0 57.0 128.0 0.0 0.456 0 C|0.985;T|0.015 0.015 strong . THBS1 106 . NM_003246 exon2 c.C34T p.L12L CTGTTCCTGATGC . PASS Atlas-SNP SCG2 7857 hgsc.bcm.edu 37 2 224462714 224462714 + Silent SNP G G A rs721233 bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 79.0 44.0 86.0 0.0 0.556962 0 G|0.932;A|0.068 0.068 strong . SCG2 99 . NM_003469 exon2 c.C1287T p.D429D GAGCCCGTCTGGT . PASS Atlas-SNP OR10G7 390265 hgsc.bcm.edu 37 11 123909638 123909638 + Missense_Mutation SNP G G A rs148218442 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 229.0 109.0 408.0 2.0 0.475983 0.00490196 G|0.992;A|0.008 0.008 strong OR10G7,NS,carcinoma,+1,1 OR10G7 103 1 NM_001004463 exon1 c.C71T p.P24L AAGAGGGGGGCGT . scavenged Atlas-SNP RET 5979 hgsc.bcm.edu 37 10 43615094 43615094 + Silent SNP C C T rs1800862 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 124.0 61.0 113.0 0.0 0.491935 0 C|0.960;T|0.040 0.040 strong . RET 916 . NM_020630 exon14 c.C2508T p.S836S CTCCAGCTCCCTG . PASS Atlas-SNP ABCC10 89845 hgsc.bcm.edu 37 6 43411700 43411700 + Nonsense_Mutation SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 83.0 45.0 91.0 0.0 0.542169 0 . . none . ABCC10 118 . NM_001198934 exon11 c.C2446T p.Q816X CTGGTACAAGCTG . PASS Atlas-SNP FMO3 2328 hgsc.bcm.edu 37 1 171076888 171076888 + Missense_Mutation SNP G G C rs12072582 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 189.0 73.0 176.0 0.0 0.386243 0 G|0.983;C|0.017 0.017 strong . FMO3 73 . NM_006894 exon4 c.G394C p.D132H GAAAGGGATGGTA . PASS Atlas-SNP IDS 3423 hgsc.bcm.edu 37 X 148579705 148579705 + Missense_Mutation SNP G G A rs61736892 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 234.0 110.0 240.0 0.0 0.470085 0 G|0.982;A|0.018 0.018 strong . IDS 46 . NM_006123 exon5 c.C641T p.T214M GCTGACGTTTTCA . PASS Atlas-SNP SMCHD1 23347 hgsc.bcm.edu 37 18 2728559 2728559 + Missense_Mutation SNP A A G rs9961682 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 58.0 36.0 65.0 0.0 0.62069 0 A|0.969;G|0.031 0.031 strong . SMCHD1 88 . NM_015295 exon23 c.A2878G p.I960V GACAACATAACAG . PASS Atlas-SNP PDE6B 5158 hgsc.bcm.edu 37 4 660340 660340 + Silent SNP G G A rs61739716 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 85.0 34.0 79.0 0.0 0.4 0 G|0.990;A|0.010 0.010 strong . PDE6B 80 . NM_001145291 exon20 c.G2289A p.K763K GAACAAGGCGGCC . PASS Atlas-SNP ASTN1 460 hgsc.bcm.edu 37 1 176915087 176915087 + Missense_Mutation SNP C C T rs138686233 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 82.0 49.0 94.0 0.0 0.597561 0 C|0.998;T|0.002 0.002 strong ASTN1,NS,carcinoma,0,1 ASTN1 314 1 NM_004319 exon13 c.G2224A p.G742R CCTGTCCGGCAGC . PASS Atlas-SNP NRK 203447 hgsc.bcm.edu 37 X 105168689 105168689 + Missense_Mutation SNP C C A rs16984889 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 267.0 163.0 254.0 0.0 0.610487 0 0|0.008;A|0.143 0.143 strong . NRK 321 . NM_198465 exon19 c.C2978A p.A993E TCAGGGCAAGCTA . PASS Atlas-SNP C3orf30 152405 hgsc.bcm.edu 37 3 118865615 118865615 + Missense_Mutation SNP G G C rs9859242 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 112.0 48.0 78.0 0.0 0.428571 0 G|0.977;C|0.023 0.023 strong . C3orf30 64 . NM_152539 exon1 c.G579C p.Q193H CGAGCAGATGGAC . PASS Atlas-SNP ZNF200 7752 hgsc.bcm.edu 37 16 3282468 3282468 + Missense_Mutation SNP G G A rs9302870 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 128.0 68.0 98.0 0.0 0.53125 0 G|0.914;A|0.086 0.086 strong . ZNF200 36 . NM_003454 exon4 c.C419T p.T140M TCTGACGTGAGTT . PASS Atlas-SNP CLTA 1211 hgsc.bcm.edu 37 9 36197564 36197564 + Silent SNP A A G rs138682143 byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 189.0 109.0 178.0 0.0 0.57672 0 A|0.998;G|0.002 0.002 strong . CLTA 18 . NM_001184761 exon2 c.A234G p.V78V TGGAGTAATGAAT . PASS Atlas-SNP ZNF28 7576 hgsc.bcm.edu 37 19 53304448 53304448 + Missense_Mutation SNP C C T rs143289804 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 98.0 46.0 109.0 0.0 0.469388 0 C|0.998;T|0.002 0.002 strong . ZNF28 191 . NM_006969 exon4 c.G650A p.C217Y TCAATACATTGGA . PASS Atlas-SNP FAM114A1 92689 hgsc.bcm.edu 37 4 38907222 38907222 + Silent SNP A A G rs17501308 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 171.0 96.0 206.0 1.0 0.561404 0.00485437 A|0.990;G|0.010 0.010 strong . FAM114A1 42 . NM_138389 exon5 c.A516G p.G172G TGAAGGAGCCCAA . PASS Atlas-SNP NDUFAF2 91942 hgsc.bcm.edu 37 5 60448734 60448734 + Silent SNP T T C rs77878573 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 143.0 71.0 147.0 0.0 0.496504 0 T|0.981;C|0.019 0.019 strong . NDUFAF2 10 . NM_174889 exon4 c.T462C p.F154F AACCTTTCAGCCA . PASS Atlas-SNP AGPAT2 10555 hgsc.bcm.edu 37 9 139571560 139571560 + Silent SNP G G A rs73668354 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 116.0 85.0 120.0 0.0 0.732759 0 G|0.982;A|0.018 0.018 strong AGPAT2,NS,carcinoma,0,1 AGPAT2 17 1 NM_001012727 exon3 c.C345T p.C115C CTGCACGCAGCGC . PASS Atlas-SNP PLEKHG2 64857 hgsc.bcm.edu 37 19 39908215 39908215 + Silent SNP G G A rs142309421 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 98.0 55.0 93.0 0.0 0.561224 0 G|1.000;A|0.000 0.000 weak . PLEKHG2 329 . NM_022835 exon8 c.G765A p.A255A CTGGGCGGAGGGC . PASS Atlas-SNP SPNS3 201305 hgsc.bcm.edu 37 17 4351534 4351534 + Missense_Mutation SNP G G C rs61740736 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 103.0 43.0 95.0 0.0 0.417476 0 G|0.989;C|0.011 0.011 strong . SPNS3 52 . NM_182538 exon6 c.G706C p.G236R ACACAGGGGGAGG . PASS Atlas-SNP OGFOD3 79701 hgsc.bcm.edu 37 17 80364341 80364341 + Silent SNP C C T rs34315006 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 58.0 25.0 41.0 0.0 0.431034 0 C|0.997;T|0.003 0.003 strong . . . . NM_175902 exon5 c.G441A p.L147L TGAGTGCAAGTCC . PASS Atlas-SNP ZNF100 163227 hgsc.bcm.edu 37 19 21909548 21909548 + Silent SNP A A G rs371600049 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 36.0 27.0 43.0 0.0 0.75 0 . . weak . ZNF100 62 . NM_173531 exon5 c.T1566C p.F522F CTGGTTAAAGTCT . PASS Atlas-SNP ADRB1 153 hgsc.bcm.edu 37 10 115804206 115804206 + Silent SNP G G T rs7921133 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 116.0 52.0 118.0 0.0 0.448276 0 G|0.963;T|0.037 0.037 strong . ADRB1 16 . NM_000684 exon1 c.G315T p.L105L CGACCTGGTCATG . PASS Atlas-SNP ADCK4 79934 hgsc.bcm.edu 37 19 41198210 41198210 + Silent SNP A A G rs17851001 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 94.0 38.0 86.0 0.0 0.404255 0 A|0.986;G|0.014 0.014 strong . ADCK4 92 . NM_024876 exon15 c.T1365C p.Y455Y AAAGTCATAAGGG . PASS Atlas-SNP MAP3K9 4293 hgsc.bcm.edu 37 14 71202692 71202692 + Silent SNP T T C rs78155813 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 81.0 44.0 85.0 0.0 0.54321 0 T|0.989;C|0.011 0.011 strong . MAP3K9 109 . NM_033141 exon9 c.A1899G p.P633P GAAATGTGGAGAT . PASS Atlas-SNP RLBP1 6017 hgsc.bcm.edu 37 15 89762198 89762198 + Missense_Mutation SNP T T G rs146844731 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 63.0 38.0 76.0 0.0 0.603175 0 T|0.998;G|0.002 0.002 strong RLBP1,NS,carcinoma,-2,1 RLBP1 34 1 NM_000326 exon3 c.A9C p.E3D TACCCCTTCTGAC . PASS Atlas-SNP GPRASP2 114928 hgsc.bcm.edu 37 X 101970877 101970877 + Silent SNP T T C rs113906002 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 113.0 38.0 104.0 0.0 0.336283 0 T|0.986;C|0.014 0.014 strong . GPRASP2 89 . NM_138437 exon4 c.T1080C p.T360T TAATACTGCCTTG . PASS Atlas-SNP DENND2A 27147 hgsc.bcm.edu 37 7 140221878 140221878 + Silent SNP G G A rs61737088 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 57.0 29.0 42.0 0.0 0.508772 0 G|0.993;A|0.007 0.007 strong . DENND2A 132 . NM_015689 exon16 c.C2688T p.N896N CACCTCGTTCAAG . PASS Atlas-SNP MCMDC2 157777 hgsc.bcm.edu 37 8 67809160 67809160 + Missense_Mutation SNP C C G rs35595089 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 119.0 59.0 146.0 0.0 0.495798 0 C|0.993;G|0.007 0.007 strong . MCMDC2 84 . NM_173518 exon12 c.C1592G p.A531G ATGCGGCTTCTAG . PASS Atlas-SNP NWD1 284434 hgsc.bcm.edu 37 19 16918459 16918459 + Missense_Mutation SNP C C T rs78570914 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 123.0 54.0 125.0 0.0 0.439024 0 C|0.997;T|0.003 0.003 strong NWD1_ENST00000524140,NS,carcinoma,-1,3 NWD1 303 3 NM_001007525 exon18 c.C3799T p.R1267C GAGCAGCGCAAGC . PASS Atlas-SNP EPHB6 2051 hgsc.bcm.edu 37 7 142562011 142562011 + Silent SNP C C T rs8177141 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 106.0 60.0 99.0 0.0 0.566038 0 C|0.970;T|0.030 0.030 strong EPHB6,right_lower_lobe,carcinoma,-2,1 EPHB6 168 1 NM_004445 exon7 c.C453T p.R151R CAAACGCTGGACC . PASS Atlas-SNP LONRF2 164832 hgsc.bcm.edu 37 2 100911980 100911980 + Silent SNP C C T rs116227203 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 90.0 41.0 80.0 0.0 0.455556 0 C|0.986;T|0.014 0.014 strong . LONRF2 62 . NM_198461 exon8 c.G1512A p.L504L TTCGGCCAGAACA . PASS Atlas-SNP C9orf171 389799 hgsc.bcm.edu 37 9 135418389 135418389 + Silent SNP G G A rs61308567 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 68.0 68.0 88.0 0.0 1 0 G|0.948;A|0.052 0.052 strong . C9orf171 53 . NM_207417 exon6 c.G795A p.P265P CAAGCCGCCCGTG . PASS Atlas-SNP SLC4A1AP 22950 hgsc.bcm.edu 37 2 27886820 27886820 + Silent SNP G G T rs58106741 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 57.0 26.0 66.0 0.0 0.45614 0 G|0.940;T|0.060 0.060 strong . SLC4A1AP 63 . NM_018158 exon1 c.G201T p.S67S GGCGTCGCAAGAC . PASS Atlas-SNP AGO3 192669 hgsc.bcm.edu 37 1 36521340 36521340 + Silent SNP C C T rs61743816 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 90.0 43.0 122.0 0.0 0.477778 0 C|0.992;T|0.008 0.008 strong . . . . NM_024852 exon19 c.C2577T p.F859F GTACTTCGCTTAA . PASS Atlas-SNP PION 54103 hgsc.bcm.edu 37 7 77010661 77010661 + Silent SNP T T C rs17152629 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 37.0 15.0 43.0 0.0 0.405405 0 T|0.965;C|0.035 0.035 strong . PION 74 . NM_017439 exon8 c.A537G p.Q179Q ACGAAATTGTTCA . PASS Atlas-SNP FYB 2533 hgsc.bcm.edu 37 5 39202911 39202911 + Missense_Mutation SNP G G A rs1642515 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 120.0 57.0 121.0 0.0 0.475 0 G|0.959;A|0.041 0.041 strong . FYB 354 . NM_001243093 exon2 c.C182T p.P61L TTGCTGGGTCCTG . PASS Atlas-SNP DAAM2 23500 hgsc.bcm.edu 37 6 39847153 39847153 + Missense_Mutation SNP C C A rs150676991 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 250.0 110.0 216.0 0.0 0.44 0 C|0.998;A|0.002 0.002 strong . DAAM2 101 . NM_015345 exon14 c.C1745A p.P582H CCCTCCCTCAGGA . PASS Atlas-SNP SYNE2 23224 hgsc.bcm.edu 37 14 64519053 64519053 + Silent SNP C C T rs35960129 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 114.0 56.0 85.0 0.0 0.491228 0 C|0.990;T|0.010 0.010 strong . SYNE2 577 . NM_182914 exon48 c.C8422T p.L2808L AATACCCTAGAGG . PASS Atlas-SNP UGT2B11 10720 hgsc.bcm.edu 37 4 70078393 70078393 + Nonsense_Mutation SNP C C T rs138593124 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 336.0 151.0 312.0 0.0 0.449405 0 C|0.993;T|0.007 0.007 strong . UGT2B11 92 . NM_001073 exon2 c.G768A p.W256X CATAAGCCATATG . PASS Atlas-SNP TBX3 6926 hgsc.bcm.edu 37 12 115118722 115118722 + Silent SNP G G A rs35069811 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 256.0 118.0 231.0 0.0 0.460938 0 G|0.979;A|0.021 0.021 strong . TBX3 106 . NM_005996 exon2 c.C619T p.L207L GTTTCAGTTTGTG . PASS Atlas-SNP EXPH5 23086 hgsc.bcm.edu 37 11 108384857 108384857 + Silent SNP T T C rs116565594 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 116.0 55.0 136.0 0.0 0.474138 0 T|0.987;C|0.013 0.013 strong . EXPH5 193 . NM_015065 exon6 c.A1377G p.R459R GAAAGATCTGGTA . PASS Atlas-SNP FASTKD1 79675 hgsc.bcm.edu 37 2 170428198 170428198 + Silent SNP G G A rs113959605 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 106.0 45.0 157.0 0.0 0.424528 0 G|0.993;A|0.007 0.007 strong . FASTKD1 86 . NM_024622 exon2 c.C342T p.D114D GGTATCGTCATTC . PASS Atlas-SNP RPL5 6125 hgsc.bcm.edu 37 1 93299193 93299193 + Silent SNP G G A rs58263806 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 70.0 25.0 67.0 0.0 0.357143 0 G|0.977;A|0.023 0.023 strong . RPL5 38 . NM_000969 exon3 c.G165A p.V55V TCGTGTGACAAAC . PASS Atlas-SNP CDK5R1 8851 hgsc.bcm.edu 37 17 30815208 30815208 + Nonsense_Mutation SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 131.0 20.0 107.0 0.0 0.152672 0 . . none . CDK5R1 30 . NM_003885 exon2 c.G570A p.W190X GGGCTGGCAGGAC . PASS Atlas-SNP CYTH4 27128 hgsc.bcm.edu 37 22 37693632 37693632 + Silent SNP C C T rs73887105 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 48.0 123.0 0.0 0.516129 0 C|0.992;T|0.008 0.008 strong . CYTH4 51 . NM_013385 exon5 c.C262T p.L88L CACAAGCTGCTGA . PASS Atlas-SNP FH 2271 hgsc.bcm.edu 37 1 241676972 241676972 + Silent SNP G G A rs10926501 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 273.0 141.0 282.0 0.0 0.516484 0 G|0.975;A|0.025 0.025 strong FH,NS,carcinoma,0,2 FH 64 2 NM_000143 exon3 c.C309T p.A103A TTCAGCGGCCGCT . PASS Atlas-SNP PHAX 51808 hgsc.bcm.edu 37 5 125944131 125944131 + Silent SNP G G C rs61747690 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 94.0 46.0 122.0 0.0 0.489362 0 G|0.963;C|0.037 0.037 strong . PHAX 20 . NM_032177 exon3 c.G786C p.L262L ACTTCTGATGGAA . PASS Atlas-SNP DNAH12 201625 hgsc.bcm.edu 37 3 57469151 57469151 + Silent SNP T T C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 155.0 79.0 169.0 0.0 0.509677 0 . . none . DNAH12 182 . NM_178504 exon13 c.A1602G p.V534V TTTTTCTACATAA . PASS Atlas-SNP NUMBL 9253 hgsc.bcm.edu 37 19 41190455 41190455 + Missense_Mutation SNP G G T rs143941883 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 147.0 58.0 145.0 0.0 0.394558 0 G|0.987;T|0.013 0.013 strong . NUMBL 49 . NM_004756 exon3 c.C116A p.A39E GTGCCCGCCCCGT . PASS Atlas-SNP CETP 1071 hgsc.bcm.edu 37 16 57017279 57017279 + Missense_Mutation SNP G G A rs2228667 bycluster;byfrequency;byhapmap TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 95.0 49.0 107.0 0.0 0.515789 0 A|0.002;G|0.998 0.002 strong CETP,NS,carcinoma,-1,1 CETP 50 1 NM_000078 exon15 c.G1363A p.V455M AAAGGCGTGAGCC . PASS Atlas-SNP NLRC3 197358 hgsc.bcm.edu 37 16 3599220 3599220 + Missense_Mutation SNP C C T rs373104014 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 99.0 43.0 103.0 0.0 0.434343 0 . . weak . NLRC3 103 . NM_178844 exon14 c.G2525A p.R842Q TTTTCTCGAAGGC . PASS Atlas-SNP SPINT4 391253 hgsc.bcm.edu 37 20 44351095 44351095 + Missense_Mutation SNP C C A rs16990631 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 192.0 99.0 197.0 0.0 0.515625 0 C|0.963;A|0.037 0.037 strong . SPINT4 17 . NM_178455 exon1 c.C89A p.A30E AAATTGCGGAGAA . PASS Atlas-SNP SPATA13 221178 hgsc.bcm.edu 37 13 24797333 24797333 + Missense_Mutation SNP G G C rs1220545 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 79.0 50.0 60.0 0.0 0.632911 0 G|0.997;C|0.003 0.003 strong . SPATA13 92 . NM_001166271 exon2 c.G266C p.R89P CCGAGCGGCCCCA . PASS Atlas-SNP DDI1 414301 hgsc.bcm.edu 37 11 103908517 103908517 + Missense_Mutation SNP G G A rs116423827 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 117.0 41.0 105.0 0.0 0.350427 0 G|0.995;A|0.005 0.005 strong . DDI1 222 . NM_001001711 exon1 c.G967A p.D323N CTTGAGGATCAAC . PASS Atlas-SNP RPS24 6229 hgsc.bcm.edu 37 10 79814747 79814747 + Silent SNP C C T rs76653255 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 108.0 55.0 134.0 0.0 0.509259 0 C|0.947;T|0.053 0.053 strong . RPS24 23 . NM_001142285 exon5 c.C849T p.C283C TTCCTGCCTCTCT . PASS Atlas-SNP ZFAT 57623 hgsc.bcm.edu 37 8 135613947 135613947 + Missense_Mutation SNP C C T rs35003767 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 82.0 39.0 83.0 0.0 0.47561 0 C|0.971;T|0.029 0.029 strong . ZFAT 265 . NM_020863 exon6 c.G2015A p.R672K AGACACCTGCTGG . PASS Atlas-SNP LTF 4057 hgsc.bcm.edu 37 3 46496854 46496854 + Missense_Mutation SNP G G A rs60938611 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 141.0 68.0 132.0 0.0 0.482269 0 G|0.949;A|0.051 0.051 strong . LTF 98 . NM_002343 exon5 c.C578T p.A193V GTCCCCGCACACA . PASS Atlas-SNP FOXD4L1 200350 hgsc.bcm.edu 37 2 114257381 114257381 + Missense_Mutation SNP T T G rs13428956 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 174.0 82.0 148.0 0.0 0.471264 0 T|0.973;G|0.027 0.027 strong . FOXD4L1 48 . NM_012184 exon1 c.T548G p.L183R GGAGCCTGGACCC . PASS Atlas-SNP ATAD2 29028 hgsc.bcm.edu 37 8 124357302 124357302 + Missense_Mutation SNP C C T rs78548009 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 44.0 61.0 0.0 0.578947 0 C|0.999;T|0.001 0.001 strong ATAD2,NS,carcinoma,0,1 ATAD2 160 1 NM_014109 exon19 c.G2540A p.R847H GCTTCACGAATCA . PASS Atlas-SNP MCF2L2 23101 hgsc.bcm.edu 37 3 182994744 182994744 + Missense_Mutation SNP C C T rs61731401 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 104.0 47.0 131.0 0.0 0.451923 0 C|0.975;T|0.025 0.025 strong MCF2L2,brain,glioma,0,1 MCF2L2 164 1 NM_015078 exon15 c.G1778A p.S593N TCTTCACTCTGAA . PASS Atlas-SNP TSSK6 83983 hgsc.bcm.edu 37 19 19626087 19626087 + Silent SNP C C T rs150432013 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 72.0 38.0 50.0 0.0 0.527778 0 C|0.996;T|0.004 0.004 strong . TSSK6 32 . NM_032037 exon1 c.G150A p.P50P GAAGTCCGGGGGC . PASS Atlas-SNP ZRANB3 84083 hgsc.bcm.edu 37 2 135988236 135988236 + Nonsense_Mutation SNP G G A rs200823309 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 323.0 145.0 349.0 0.0 0.448916 0 G|1.000;A|0.000 0.000 strong . ZRANB3 109 . NM_032143 exon13 c.C1801T p.R601X GAGTTCGGATTTG . PASS Atlas-SNP FAM136A 84908 hgsc.bcm.edu 37 2 70528092 70528092 + Silent SNP G G A rs72904358 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 225.0 113.0 217.0 2.0 0.502222 0.00921659 G|0.921;A|0.079 0.079 strong FAM136A,caecum,carcinoma,0,1 FAM136A 14 1 NM_032822 exon2 c.C108T p.S36S GCTGGCGCTGCAC . scavenged Atlas-SNP TESK1 7016 hgsc.bcm.edu 37 9 35608962 35608962 + Silent SNP C C T rs148341917 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 73.0 38.0 59.0 0.0 0.520548 0 C|0.994;T|0.006 0.006 strong . TESK1 46 . NM_006285 exon10 c.C1104T p.P368P ATCACCCCCCAAC . PASS Atlas-SNP SLC28A2 9153 hgsc.bcm.edu 37 15 45556163 45556163 + Silent SNP T T C rs8023604 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 177.0 82.0 189.0 0.0 0.463277 0 T|0.841;C|0.159 0.159 strong . SLC28A2 64 . NM_004212 exon6 c.T531C p.F177F CCCCTTTGCAGGA . PASS Atlas-SNP C8orf74 203076 hgsc.bcm.edu 37 8 10555263 10555263 + Missense_Mutation SNP C C G rs147047803 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 97.0 44.0 79.0 0.0 0.453608 0 C|0.997;G|0.003 0.003 strong . C8orf74 28 . NM_001040032 exon3 c.C396G p.D132E CCAGGACCAGCAG . PASS Atlas-SNP ASB16 92591 hgsc.bcm.edu 37 17 42254165 42254165 + Missense_Mutation SNP A A G rs146134954 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 60.0 19.0 67.0 0.0 0.316667 0 A|0.987;G|0.013 0.013 strong . ASB16 34 . NM_080863 exon3 c.A629G p.Q210R AGAGCCAGGAGAC . PASS Atlas-SNP TTC21B 79809 hgsc.bcm.edu 37 2 166758389 166758389 + Missense_Mutation SNP C C T rs76726265 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 181.0 80.0 178.0 0.0 0.441989 0 C|0.998;T|0.002 0.002 strong TTC21B,NS,carcinoma,-1,1 TTC21B 130 1 NM_024753 exon20 c.G2600A p.R867H TGAACACGTTTTA . PASS Atlas-SNP SLC35C1 55343 hgsc.bcm.edu 37 11 45827783 45827783 + Missense_Mutation SNP A A G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 77.0 4.0 63.0 0.0 0.0519481 0 . . none . SLC35C1 23 . NM_018389 exon1 c.A431G p.N144S TCTACAATGTGGG . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195508382 195508382 + Missense_Mutation SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 354.0 69.0 417.0 0.0 0.194915 0 . . none . MUC4 1505 . NM_018406 exon2 c.C10069T p.H3357Y TGGCGTGACCTGT . PASS Atlas-SNP LRTOMT 220074 hgsc.bcm.edu 37 11 71806515 71806515 + Silent SNP A A G rs150245488 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 149.0 81.0 160.0 0.0 0.543624 0 A|0.995;G|0.005 0.005 strong . LRTOMT 20 . NM_145309 exon6 c.A528G p.K176K CTGGAAACGCATG . PASS Atlas-SNP CEP192 55125 hgsc.bcm.edu 37 18 13055915 13055915 + Missense_Mutation SNP A A C rs11080623 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 107.0 50.0 125.0 0.0 0.46729 0 A|0.980;C|0.020 0.020 strong . CEP192 340 . NM_032142 exon19 c.A3326C p.Q1109P TTATCCAGAATAA . PASS Atlas-SNP TARS2 80222 hgsc.bcm.edu 37 1 150470182 150470182 + Silent SNP A A G rs115388015 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 60.0 28.0 67.0 0.0 0.466667 0 A|0.981;G|0.019 0.019 strong . TARS2 91 . NM_025150 exon10 c.A1197G p.T399T TATCACAGATACA . PASS Atlas-SNP NEU2 4759 hgsc.bcm.edu 37 2 233899148 233899148 + Missense_Mutation SNP T T C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 104.0 48.0 98.0 0.0 0.461538 0 . . none . NEU2 42 . NM_005383 exon2 c.T524C p.V175A GCCTGGTGGTGCC . PASS Atlas-SNP FPGT 8790 hgsc.bcm.edu 37 1 74670277 74670277 + Silent SNP G G A rs139749795 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 166.0 78.0 185.0 0.0 0.46988 0 G|0.996;A|0.004 0.004 strong FPGT,NS,carcinoma,0,1 FPGT 77 1 NM_003838 exon4 c.G546A p.R182R TATTAGGTTTGAC . PASS Atlas-SNP SMC2 10592 hgsc.bcm.edu 37 9 106888978 106888978 + Silent SNP C C T rs6479217 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 41.0 8.0 43.0 0.0 0.195122 0 C|0.935;T|0.065 0.065 strong . SMC2 127 . NM_006444 exon19 c.C2508T p.Y836Y ATCTTACAAACAA . PASS Atlas-SNP FZD1 8321 hgsc.bcm.edu 37 7 90895944 90895944 + Silent SNP C C T rs2232161 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 36.0 70.0 0.0 0.473684 0 C|0.983;T|0.017 0.017 strong FZD1,NS,carcinoma,0,2 FZD1 64 2 NM_003505 exon1 c.C1749T p.H583H CCCTCACCTCCAG . PASS Atlas-SNP POM121L2 94026 hgsc.bcm.edu 37 6 27279185 27279185 + Silent SNP A A T rs16897553 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 94.0 51.0 81.0 0.0 0.542553 0 A|0.953;T|0.047 0.047 strong . POM121L2 61 . NM_033482 exon1 c.T765A p.A255A GCCAATAGCATTC . PASS Atlas-SNP ZNF594 84622 hgsc.bcm.edu 37 17 5085245 5085245 + Silent SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 18.0 154.0 0.0 0.18 0 . . none . ZNF594 89 . NM_032530 exon2 c.C2307T p.T769T CTGGAAGGTCCTA . PASS Atlas-SNP CDC42BPA 8476 hgsc.bcm.edu 37 1 227504745 227504745 + Silent SNP A A G rs144296174 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 167.0 84.0 129.0 0.0 0.502994 0 A|1.000;G|0.000 0.000 strong . CDC42BPA 528 . NM_003607 exon1 c.T139C p.L47L TTCTCAATGGAGA . PASS Atlas-SNP PLEC 5339 hgsc.bcm.edu 37 8 145007409 145007409 + Silent SNP G G A rs115081018 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 119.0 62.0 118.0 0.0 0.521008 0 G|0.988;A|0.012 0.012 strong . PLEC 1144 . NM_201380 exon13 c.C1785T p.T595T CTTGAGGGTCTGC . PASS Atlas-SNP HMMR 3161 hgsc.bcm.edu 37 5 162910165 162910165 + Missense_Mutation SNP G G C rs2230362 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 119.0 48.0 104.0 0.0 0.403361 0 G|0.990;C|0.010 0.010 strong . HMMR 64 . NM_001142556 exon14 c.G1672C p.D558H CTGGAAGATGAAG . PASS Atlas-SNP CPNE2 221184 hgsc.bcm.edu 37 16 57144689 57144689 + Missense_Mutation SNP C C T rs141954860 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 123.0 66.0 114.0 0.0 0.536585 0 C|0.999;T|0.001 0.001 strong . CPNE2 48 . NM_152727 exon2 c.C35T p.A12V CAGCAGCGGGGGC . PASS Atlas-SNP DNAH9 1770 hgsc.bcm.edu 37 17 11583192 11583192 + Missense_Mutation SNP C C T rs8070501 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 99.0 50.0 90.0 0.0 0.50505 0 C|0.988;T|0.012 0.012 strong DNAH9,rectum,carcinoma,0,1 DNAH9 695 1 NM_001372 exon18 c.C3472T p.R1158W AAAGAACGGCAGA . PASS Atlas-SNP PKHD1L1 93035 hgsc.bcm.edu 37 8 110539175 110539175 + Missense_Mutation SNP T T A rs141977750 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 204.0 105.0 162.0 0.0 0.514706 0 T|0.993;A|0.007 0.007 strong . PKHD1L1 522 . NM_177531 exon77 c.T12647A p.I4216N TAGTAATTAGCTG . PASS Atlas-SNP CEACAM6 4680 hgsc.bcm.edu 37 19 42260697 42260697 + Missense_Mutation SNP G G A rs61736638 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 429.0 205.0 446.0 1.0 0.477855 0.00224215 G|0.974;A|0.026 0.026 strong . CEACAM6 52 . NM_002483 exon2 c.G254A p.G85E TAATAGGAACTCA . PASS Atlas-SNP TMEM63A 9725 hgsc.bcm.edu 37 1 226034913 226034913 + Missense_Mutation SNP G G A rs58852301 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 98.0 46.0 104.0 0.0 0.469388 0 G|0.956;A|0.044 0.044 strong TMEM63A,colon,carcinoma,+1,1 TMEM63A 75 1 NM_014698 exon24 c.C2252T p.P751L ACGTAGGGCTGTC . PASS Atlas-SNP FNDC1 84624 hgsc.bcm.edu 37 6 159654720 159654720 + Missense_Mutation SNP G G C rs115529940 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 45.0 9.0 37.0 0.0 0.2 0 G|0.986;C|0.014 0.014 strong . FNDC1 250 . NM_032532 exon11 c.G3176C p.S1059T CGGCGAGCTCCAG . PASS Atlas-SNP USP17L2 377630 hgsc.bcm.edu 37 8 11995004 11995004 + Silent SNP C C T rs186311075 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 131.0 27.0 95.0 0.0 0.206107 0 C|0.992;T|0.008 0.008 strong . USP17L2 47 . NM_201402 exon1 c.G1266A p.E422E CAAGCGCTCGTCC . PASS Atlas-SNP ATOH1 474 hgsc.bcm.edu 37 4 94750650 94750650 + Silent SNP C C T rs34543561 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 192.0 98.0 139.0 0.0 0.510417 0 C|0.992;T|0.008 0.008 strong ATOH1,NS,carcinoma,+2,1 ATOH1 40 1 NM_005172 exon1 c.C573T p.N191N CAACAACGACAAG . PASS Atlas-SNP FLG 2312 hgsc.bcm.edu 37 1 152277239 152277239 + Missense_Mutation SNP G G A rs111486002 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 385.0 185.0 443.0 1.0 0.480519 0.00225734 G|0.986;A|0.014 0.014 strong . FLG 900 . NM_002016 exon3 c.C10123T p.R3375W CTGACCGGTCACG . PASS Atlas-SNP CELSR1 9620 hgsc.bcm.edu 37 22 46859701 46859701 + Silent SNP C C T rs140328042 byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 58.0 27.0 61.0 0.0 0.465517 0 C|0.997;T|0.003 0.003 strong . CELSR1 242 . NM_014246 exon2 c.G4086A p.T1362T GATCTCCGTCTCG . PASS Atlas-SNP PARP4 143 hgsc.bcm.edu 37 13 25027745 25027745 + Missense_Mutation SNP T T C rs1130943 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 191.0 95.0 169.0 0.0 0.497382 0 T|0.949;C|0.051 0.051 strong PARP4,NS,carcinoma,+2,1 PARP4 142 1 NM_006437 exon23 c.A2806G p.M936V CTGCCATGGTATT . PASS Atlas-SNP CAPN12 147968 hgsc.bcm.edu 37 19 39226163 39226163 + Silent SNP G G A rs141009431 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 107.0 43.0 100.0 0.0 0.401869 0 G|0.998;A|0.002 0.002 strong . CAPN12 43 . NM_144691 exon13 c.C1605T p.S535S GTCTGCGCTGATC . PASS Atlas-SNP CEACAM20 125931 hgsc.bcm.edu 37 19 45017301 45017301 + Missense_Mutation SNP T T C rs34921521 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 81.0 37.0 67.0 0.0 0.45679 0 T|0.986;C|0.014 0.014 strong CEACAM20,NS,carcinoma,0,1 CEACAM20 31 1 NM_001102600 exon7 c.A1357G p.I453V TCCCGATGACAAT . PASS Atlas-SNP HERC2 8924 hgsc.bcm.edu 37 15 28389880 28389880 + Silent SNP G G A rs1133496 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 145.0 73.0 129.0 0.0 0.503448 0 G|0.916;A|0.084 0.084 strong . HERC2 501 . NM_004667 exon72 c.C11079T p.S3693S CCCATCGCTGATG . PASS Atlas-SNP NTRK3 4916 hgsc.bcm.edu 37 15 88576215 88576215 + Silent SNP G G A rs2229909 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 97.0 47.0 98.0 0.0 0.484536 0 G|0.962;A|0.038 0.038 strong NTRK3_ENST00000360948,NS,carcinoma,0,3 NTRK3 587 3 NM_001012338 exon14 c.C1458T p.H486H GATGCCGTGGTTG . PASS Atlas-SNP CAMKK1 84254 hgsc.bcm.edu 37 17 3786456 3786456 + Silent SNP C C T rs737362 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 42.0 18.0 43.0 0.0 0.428571 0 C|0.934;T|0.066 0.066 strong . CAMKK1 70 . NM_032294 exon6 c.G528A p.P176P CCCTCTCGGGGGA . PASS Atlas-SNP AKAP10 11216 hgsc.bcm.edu 37 17 19835185 19835185 + Missense_Mutation SNP G G C rs141355495 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 64.0 36.0 55.0 0.0 0.5625 0 G|0.999;C|0.001 0.001 strong . AKAP10 47 . NM_007202 exon10 c.C1574G p.T525S GGAGCAGTCAGCG . PASS Atlas-SNP ARHGAP32 9743 hgsc.bcm.edu 37 11 128994781 128994781 + Silent SNP G G A rs114955890 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 59.0 34.0 42.0 0.0 0.576271 0 G|0.998;A|0.002 0.002 strong . ARHGAP32 307 . NM_001142685 exon3 c.C234T p.G78G ATCTGCGCCTCTT . PASS Atlas-SNP ELK3 2004 hgsc.bcm.edu 37 12 96641344 96641344 + Silent SNP G G A rs115218295 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 59.0 32.0 55.0 0.0 0.542373 0 G|0.990;A|0.010 0.010 strong . ELK3 36 . NM_005230 exon3 c.G834A p.S278S GTCATCGGGCTCC . PASS Atlas-SNP COG7 91949 hgsc.bcm.edu 37 16 23409440 23409440 + Missense_Mutation SNP G G A rs16940094 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 150.0 87.0 125.0 0.0 0.58 0 G|0.931;A|0.069 0.069 strong . COG7 62 . NM_153603 exon14 c.C1814T p.T605M CCAGCCGTATTCC . PASS Atlas-SNP TTLL11 158135 hgsc.bcm.edu 37 9 124855220 124855220 + Missense_Mutation SNP G G A rs61742325 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 14.0 14.0 5.0 0.0 1 0 G|0.955;A|0.045 0.045 strong . TTLL11 67 . NM_001139442 exon1 c.C478T p.P160S CACTGGGCTGCGC . PASS Atlas-SNP UCK2 7371 hgsc.bcm.edu 37 1 165859482 165859482 + Silent SNP T T C rs145654595 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 243.0 118.0 207.0 0.0 0.485597 0 T|1.000;C|0.000 0.000 weak . UCK2 31 . NM_012474 exon2 c.T141C p.N47N GCAGAATGAGGTG . PASS Atlas-SNP MSH3 4437 hgsc.bcm.edu 37 5 79974885 79974885 + Missense_Mutation SNP C C T rs35121792 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 56.0 23.0 62.0 0.0 0.410714 0 C|0.999;T|0.001 0.001 strong . MSH3 129 . NM_002439 exon8 c.C1313T p.A438V CAGAGGCGCTCAT . PASS Atlas-SNP TTN 7273 hgsc.bcm.edu 37 2 179447787 179447787 + Missense_Mutation SNP G G T rs62618736 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 228.0 122.0 182.0 0.0 0.535088 0 G|0.985;T|0.015 0.015 strong . TTN 18412 . NM_001267550 exon313 c.C65743A p.Q21915K TCCGCTGCATGGC . PASS Atlas-SNP ENGASE 64772 hgsc.bcm.edu 37 17 77082390 77082390 + Missense_Mutation SNP G G A rs11871357 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 33.0 105.0 0.0 0.434211 0 G|0.965;A|0.035 0.035 strong ENGASE,NS,carcinoma,-1,1 ENGASE 55 1 NM_001042573 exon14 c.G2191A p.E731K CAGGCCGAGTGGG . PASS Atlas-SNP IFT140 9742 hgsc.bcm.edu 37 16 1618306 1618306 + Missense_Mutation SNP C C T rs8050974 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 125.0 59.0 98.0 0.0 0.472 0 C|0.964;T|0.036 0.036 strong . IFT140 128 . NM_014714 exon15 c.G1682A p.S561N GCCAGGCTCCTGC . PASS Atlas-SNP TOP3A 7156 hgsc.bcm.edu 37 17 18217958 18217958 + Silent SNP C C T rs2230153 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 175.0 89.0 107.0 0.0 0.508571 0 C|0.948;T|0.052 0.052 strong . TOP3A 85 . NM_004618 exon1 c.G135A p.A45A CTTGGCCGCGTCG . PASS Atlas-SNP DOK3 79930 hgsc.bcm.edu 37 5 176936822 176936822 + Missense_Mutation SNP G G A rs371788222 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 310.0 144.0 253.0 1.0 0.464516 0.00395257 . . weak DOK3,NS,carcinoma,-1,1 DOK3 41 1 NM_024872 exon1 c.C32T p.A11V GCACGCGCGTCTG . PASS Atlas-SNP AKAP11 11215 hgsc.bcm.edu 37 13 42876996 42876996 + Missense_Mutation SNP G G A rs114980445 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 65.0 26.0 52.0 0.0 0.4 0 G|0.992;A|0.008 0.008 strong . AKAP11 146 . NM_016248 exon8 c.G4114A p.A1372T AGGCTTGCCTACC . PASS Atlas-SNP PPEF2 5470 hgsc.bcm.edu 37 4 76797551 76797551 + Missense_Mutation SNP C C G rs370312706 alternate_allele TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 86.0 40.0 98.0 0.0 0.465116 0 . . alt . PPEF2 108 . NM_006239 exon11 c.G1209C p.Q403H TGCTTGCTGCCGG . PASS Atlas-SNP POFUT1 23509 hgsc.bcm.edu 37 20 30822455 30822455 + Silent SNP C C T rs7263390 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 91.0 44.0 95.0 0.0 0.483516 0 C|0.973;T|0.027 0.027 strong . POFUT1 52 . NM_015352 exon7 c.C1158T p.D386D GCGGGACGAGTTC . PASS Atlas-SNP INTS5 80789 hgsc.bcm.edu 37 11 62415285 62415285 + Missense_Mutation SNP C C T rs149821915 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 143.0 75.0 118.0 0.0 0.524476 0 C|1.000;T|0.000 0.000 strong . INTS5 81 . NM_030628 exon2 c.G2267A p.R756H AAGCCACGGCCGA . PASS Atlas-SNP KRT33B 3884 hgsc.bcm.edu 37 17 39521726 39521726 + Missense_Mutation SNP T T C rs61741663 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 230.0 111.0 220.0 0.0 0.482609 0 T|0.976;C|0.024 0.024 strong KRT33B,NS,carcinoma,0,1 KRT33B 46 1 NM_002279 exon4 c.A668G p.Q223R AGGACCTGGTTCA . PASS Atlas-SNP TC2N 123036 hgsc.bcm.edu 37 14 92264736 92264736 + Silent SNP A A G rs147695092 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 133.0 74.0 126.0 0.0 0.556391 0 A|1.000;G|0.000 0.000 weak . TC2N 49 . NM_001128596 exon7 c.T645C p.I215I TAGAGTAATTGTA . PASS Atlas-SNP TCF21 6943 hgsc.bcm.edu 37 6 134210600 134210600 + Missense_Mutation SNP G G T rs56412384 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 107.0 106.0 93.0 1.0 0.990654 0.0107527 G|0.944;T|0.056 0.056 strong TCF21,NS,carcinoma,+1,1 TCF21 30 1 NM_003206 exon1 c.G65T p.G22V GTGACGGGTTGAA . scavenged Atlas-SNP IFNL3 282617 hgsc.bcm.edu 37 19 39735535 39735535 + Missense_Mutation SNP C C A rs141536970 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 322.0 171.0 321.0 1.0 0.531056 0.00311526 A|0.003;C|0.997 0.003 strong . . . . NM_172139 exon1 c.G73T p.A25S GCCTGGCGACAGG . PASS Atlas-SNP ACSM4 341392 hgsc.bcm.edu 37 12 7477100 7477100 + Missense_Mutation SNP G G A rs61584783 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 157.0 76.0 174.0 0.0 0.484076 0 G|0.979;A|0.021 0.021 strong . ACSM4 98 . NM_001080454 exon11 c.G1442A p.R481H GGTACCGTATTGG . PASS Atlas-SNP HLA-A 3105 hgsc.bcm.edu 37 6 29910660 29910660 + Missense_Mutation SNP A A G rs41559117 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 219.0 54.0 134.0 0.0 0.246575 0 A|0.977;C|0.002;G|0.021 0.021 strong . HLA-A 89 . NM_001242758 exon2 c.A200G p.Q67R CGAGCCAGAGGAT . PASS Atlas-SNP SPRR1A 6698 hgsc.bcm.edu 37 1 152957856 152957856 + Missense_Mutation SNP C C G rs143282605 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 125.0 24.0 158.0 0.0 0.192 0 . . weak . SPRR1A 17 . NM_001199828 exon2 c.C150G p.H50Q CTGCCACCCCAAA . PASS Atlas-SNP A2M 2 hgsc.bcm.edu 37 12 9251209 9251209 + Silent SNP C C T rs185750870 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 77.0 42.0 59.0 0.0 0.545455 0 C|0.998;T|0.002 0.002 strong . A2M 180 . NM_000014 exon15 c.G1845A p.A615A CGAGGACGCCGAG . PASS Atlas-SNP TADA2A 6871 hgsc.bcm.edu 37 17 35830554 35830554 + Missense_Mutation SNP A A C rs142392695 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 71.0 33.0 71.0 0.0 0.464789 0 A|0.996;C|0.004 0.004 strong . TADA2A 91 . NM_001488 exon13 c.A946C p.K316Q CGCCTTAAACGCA . PASS Atlas-SNP LAMA2 3908 hgsc.bcm.edu 37 6 129824406 129824406 + Missense_Mutation SNP A A G rs73599293 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 46.0 26.0 38.0 0.0 0.565217 0 A|0.980;G|0.020 0.020 strong . LAMA2 481 . NM_000426 exon60 c.A8528G p.N2843S AAATCAATGATGG . PASS Atlas-SNP TTN 7273 hgsc.bcm.edu 37 2 179621353 179621353 + Missense_Mutation SNP G G A rs57389274 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 135.0 58.0 122.0 0.0 0.42963 0 G|0.982;A|0.018 0.018 strong . TTN 18412 . NM_001267550 exon46 c.C10850T p.S3617F CTTTGAGATACAC . PASS Atlas-SNP DIRC1 116093 hgsc.bcm.edu 37 2 189599373 189599373 + Missense_Mutation SNP A A G rs58846152 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 186.0 79.0 214.0 0.0 0.424731 0 A|0.976;G|0.024 0.024 strong . DIRC1 13 . NM_052952 exon2 c.T275C p.L92S CCCCTCAATGAGT . PASS Atlas-SNP ARMC12 221481 hgsc.bcm.edu 37 6 35716613 35716613 + Missense_Mutation SNP A A G rs73729781 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 75.0 43.0 69.0 0.0 0.573333 0 A|0.995;G|0.005 0.005 strong . . . . NM_145028 exon6 c.A1070G p.Q357R CCTGCCAGCCCAG . PASS Atlas-SNP ZNF770 54989 hgsc.bcm.edu 37 15 35273867 35273867 + Missense_Mutation SNP C C A rs141323293 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 48.0 22.0 60.0 0.0 0.458333 0 C|0.996;A|0.004 0.004 strong . ZNF770 64 . NM_014106 exon3 c.G1769T p.G590V GTGCTACCAGGAA . PASS Atlas-SNP MGAM 8972 hgsc.bcm.edu 37 7 141736732 141736732 + Missense_Mutation SNP G G A rs116034282 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 46.0 81.0 0.0 0.46 0 G|0.986;A|0.014 0.014 strong . MGAM 767 . NM_004668 exon18 c.G2186A p.R729H TCTTCCGTGCTCA . PASS Atlas-SNP SLC9C2 284525 hgsc.bcm.edu 37 1 173516915 173516915 + Silent SNP G G A rs114115413 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 92.0 37.0 114.0 0.0 0.402174 0 G|0.989;A|0.011 0.011 strong . . . . NM_178527 exon13 c.C1470T p.H490H TGAAACGTGGGAA . PASS Atlas-SNP TPGS1 91978 hgsc.bcm.edu 37 19 507560 507560 + Silent SNP G G A rs61746565 byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 24.0 23.0 18.0 0.0 0.958333 0 G|0.991;A|0.009 0.009 strong . . . . NM_033513 exon1 c.G54A p.T18T TTTCACGGACAGC . PASS Atlas-SNP ND5 0 hgsc.bcm.edu 37 MT 13789 13789 + Missense_Mutation SNP T T C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 5.0 5.0 11.0 0.0 1 0 . . none . . . . ENST00000361567 exon1 c.T1453C p.Y485H CCCCTCTACCTAA . PASS Atlas-SNP ARHGAP28 79822 hgsc.bcm.edu 37 18 6908976 6908976 + Missense_Mutation SNP G G A rs116232392 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 141.0 54.0 149.0 0.0 0.382979 0 G|0.979;A|0.021 0.021 strong . ARHGAP28 181 . NM_001010000 exon16 c.G1571A p.C524Y CAGAATGTATTAA . PASS Atlas-SNP COL27A1 85301 hgsc.bcm.edu 37 9 116930013 116930013 + Missense_Mutation SNP G G A rs74339956 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 102.0 37.0 84.0 0.0 0.362745 0 G|0.985;A|0.015 0.015 strong . COL27A1 200 . NM_032888 exon3 c.G178A p.G60R AAGGCCGGGAGCC . PASS Atlas-SNP SVEP1 79987 hgsc.bcm.edu 37 9 113170323 113170323 + Silent SNP G G A rs111722103 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 90.0 66.0 90.0 0.0 0.733333 0 G|0.977;A|0.023 0.023 strong SVEP1,NS,carcinoma,0,1 SVEP1 326 1 NM_153366 exon38 c.C7557T p.T2519T GGTAACGGTCTGT . PASS Atlas-SNP HYDIN 54768 hgsc.bcm.edu 37 16 71009054 71009054 + Missense_Mutation SNP C C T rs201855097 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 170.0 45.0 151.0 0.0 0.264706 0 C|0.999;T|0.001 0.001 weak LOC652153,NS,carcinoma,-1,2 HYDIN 788 2 NM_001270974 exon31 c.G4757A p.R1586H TTGCGGCGACTCC . scavenged Atlas-SNP MGAT1 4245 hgsc.bcm.edu 37 5 180219838 180219838 + Missense_Mutation SNP C C T rs61743256 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 82.0 32.0 72.0 0.0 0.390244 0 C|0.993;T|0.007 0.007 strong . MGAT1 48 . NM_001114617 exon3 c.G134A p.G45D GGGTCGCCATCGA . PASS Atlas-SNP SSPO 23145 hgsc.bcm.edu 37 7 149486420 149486420 + Missense_Mutation SNP C C G rs855693 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 92.0 46.0 87.0 0.0 0.5 0 C|0.979;G|0.021 0.021 strong . . . . NM_198455 exon30 c.C4396G p.P1466A TGCCTGCCGCCGG . PASS Atlas-SNP LRP1 4035 hgsc.bcm.edu 37 12 57603647 57603647 + Silent SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 52.0 30.0 45.0 0.0 0.576923 0 . . none LRP1,bladder,carcinoma,0,1 LRP1 428 1 NM_002332 exon80 c.C12435T p.P4145P GCAGCCCGAAGGT . PASS Atlas-SNP SMCO2 0 hgsc.bcm.edu 37 12 27641465 27641465 + Silent SNP A A G rs76288777 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 38.0 17.0 39.0 0.0 0.447368 0 A|0.993;G|0.007 0.007 strong . . . . NM_001145010 exon6 c.A585G p.Q195Q TGATCAAGGGACA . PASS Atlas-SNP ABCG4 64137 hgsc.bcm.edu 37 11 119027691 119027691 + Missense_Mutation SNP C C G rs12271907 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 49.0 29.0 74.0 0.0 0.591837 0 C|0.928;G|0.072;T|0.000 0.072 strong . ABCG4 77 . NM_022169 exon9 c.C1035G p.N345K GAAGAACGAGGTC . PASS Atlas-SNP ROGDI 79641 hgsc.bcm.edu 37 16 4847976 4847976 + Missense_Mutation SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 148.0 87.0 134.0 0.0 0.587838 0 . . none . ROGDI 11 . NM_024589 exon9 c.G658A p.A220T CCCCAGCTGGGCG . PASS Atlas-SNP NDUFAF5 79133 hgsc.bcm.edu 37 20 13797179 13797179 + Silent SNP G G A rs34901599 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 94.0 45.0 108.0 0.0 0.478723 0 G|0.960;A|0.040 0.040 strong . . . . NM_024120 exon9 c.G849A p.A283A AGCTGCGGCAGTG . PASS Atlas-SNP TSHZ2 128553 hgsc.bcm.edu 37 20 51872038 51872038 + Missense_Mutation SNP G G A rs6097319 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 48.0 28.0 45.0 0.0 0.583333 0 G|0.935;A|0.065 0.065 strong . TSHZ2 209 . NM_173485 exon2 c.G2041A p.A681T GGGTGCGCCCTCG . PASS Atlas-SNP F9 2158 hgsc.bcm.edu 37 X 138643939 138643939 + Silent SNP A A G rs112057482 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 136.0 85.0 140.0 0.0 0.625 0 A|0.989;G|0.011 0.011 strong . F9 107 . NM_000133 exon8 c.A1095G p.S365S GAGATCAGCTTTA . PASS Atlas-SNP CCDC40 55036 hgsc.bcm.edu 37 17 78069129 78069129 + Missense_Mutation SNP G G T rs61686936 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 250.0 126.0 215.0 0.0 0.504 0 A|0.000;G|0.981;T|0.019 0.019 strong CCDC40,colon,carcinoma,0,1 CCDC40 198 1 NM_017950 exon18 c.G2900T p.R967L TTGCCCGCAGAGA . PASS Atlas-SNP MTMR9 66036 hgsc.bcm.edu 37 8 11142529 11142529 + Silent SNP T T C rs61752023 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 101.0 53.0 91.0 0.0 0.524752 0 T|0.958;C|0.042 0.042 strong . MTMR9 58 . NM_015458 exon1 c.T132C p.N44N GGACAATACGGAG . PASS Atlas-SNP SIDT2 51092 hgsc.bcm.edu 37 11 117063020 117063020 + Silent SNP C C T rs12285062 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 94.0 49.0 106.0 0.0 0.521277 0 C|0.990;T|0.010 0.010 strong . SIDT2 82 . NM_001040455 exon20 c.C1923T p.H641H CATTCACATCATC . PASS Atlas-SNP FAN1 22909 hgsc.bcm.edu 37 15 31196984 31196984 + Missense_Mutation SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 135.0 67.0 134.0 0.0 0.496296 0 . . none . FAN1 77 . NM_001146095 exon2 c.G118A p.A40T CCACCTGCTAAAC . PASS Atlas-SNP BCAS1 8537 hgsc.bcm.edu 37 20 52611552 52611552 + Missense_Mutation SNP G G A rs60878965 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 63.0 24.0 55.0 0.0 0.380952 0 G|0.916;A|0.084 0.084 strong . BCAS1 77 . NM_003657 exon6 c.C926T p.T309M CCTACCGTGTCTT . PASS Atlas-SNP SEL1L 6400 hgsc.bcm.edu 37 14 81969158 81969158 + Silent SNP A A G rs35377988 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 94.0 35.0 78.0 0.0 0.37234 0 A|0.957;G|0.043 0.043 strong . SEL1L 67 . NM_001244984 exon6 c.T684C p.A228A TAAAAGAGCATAT . PASS Atlas-SNP SALL4 57167 hgsc.bcm.edu 37 20 50408614 50408614 + Silent SNP A A G rs76870996 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 117.0 49.0 125.0 0.0 0.418803 0 A|0.988;G|0.012 0.012 strong . SALL4 168 . NM_020436 exon2 c.T408C p.N136N GCCGCCATTCTCC . PASS Atlas-SNP DSC1 1823 hgsc.bcm.edu 37 18 28710615 28710615 + Silent SNP C C A rs1816634 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 256.0 105.0 244.0 0.0 0.410156 0 C|0.914;A|0.086 0.086 strong . DSC1 240 . NM_024421 exon16 c.G2547T p.S849S GTTATACGAACAA . PASS Atlas-SNP CD109 135228 hgsc.bcm.edu 37 6 74407182 74407182 + Missense_Mutation SNP G G T rs9446983 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 51.0 118.0 0.0 0.548387 0 G|0.986;T|0.014 0.014 strong CD109,NS,carcinoma,-1,1 CD109 170 1 NM_133493 exon2 c.G134T p.G45V CTATTGGGGTGGA . PASS Atlas-SNP SYNE2 23224 hgsc.bcm.edu 37 14 64688335 64688335 + Silent SNP G G A rs75079588 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 161.0 88.0 113.0 0.0 0.546584 0 G|0.994;A|0.006 0.006 strong SYNE2,NS,carcinoma,0,1 SYNE2 577 1 NM_182914 exon112 c.G20103A p.A6701A GTTAGCGAGTGCC . PASS Atlas-SNP MICU1 10367 hgsc.bcm.edu 37 10 74183034 74183034 + Silent SNP G G A rs186054834 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 160.0 69.0 164.0 0.0 0.43125 0 G|0.999;A|0.001 0.001 strong . . . . NM_001195518 exon9 c.C1029T p.T343T CATGGCGGTCAGC . PASS Atlas-SNP ARHGAP30 257106 hgsc.bcm.edu 37 1 161022247 161022247 + Missense_Mutation SNP C C T rs149524176 byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 89.0 35.0 87.0 0.0 0.393258 0 C|0.999;T|0.001 0.001 strong LOC257106,NS,carcinoma,-1,2 ARHGAP30 105 2 NM_001025598 exon8 c.G923A p.R308Q GCCCCCCGTGGAA . PASS Atlas-SNP DOC2B 8447 hgsc.bcm.edu 37 17 31199 31199 + Silent SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 38.0 14.0 47.0 0.0 0.368421 0 . . none . DOC2B 6 . NM_003585 exon1 c.C72T p.P24P GGGGCCGGGGCAC . PASS Atlas-SNP TTC4 7268 hgsc.bcm.edu 37 1 55188437 55188437 + Missense_Mutation SNP C C T rs62000412 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 85.0 46.0 102.0 0.0 0.541176 0 C|0.986;T|0.014 0.014 strong . TTC4 21 . NM_004623 exon5 c.C559T p.L187F AAGAAGCTTCTGG . PASS Atlas-SNP LILRB2 10288 hgsc.bcm.edu 37 19 54782165 54782165 + Missense_Mutation SNP C C T rs4993133 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 142.0 61.0 190.0 0.0 0.429577 0 C|0.995;T|0.005 0.005 strong . LILRB2 94 . NM_005874 exon7 c.G1207A p.D403N AGGGGTCGGAGTT . PASS Atlas-SNP TTN 7273 hgsc.bcm.edu 37 2 179412452 179412452 + Missense_Mutation SNP C C T rs67665715 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 438.0 243.0 387.0 0.0 0.554795 0 C|0.967;T|0.033 0.033 strong . TTN 18412 . NM_001267550 exon339 c.G93901A p.V31301I CTGTGACGCTAAA . PASS Atlas-SNP EFCAB4B 84766 hgsc.bcm.edu 37 12 3747496 3747496 + Missense_Mutation SNP G G C rs58583720 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 81.0 46.0 72.0 0.0 0.567901 0 A|0.002;C|0.001;G|0.997 0.001 strong . EFCAB4B 100 . NM_001144958 exon14 c.C1396G p.R466G GCGGCCGGGGGTA . PASS Atlas-SNP COMT 1312 hgsc.bcm.edu 37 22 19950268 19950268 + Silent SNP G G A rs740602 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 109.0 47.0 116.0 0.0 0.431193 0 A|0.059;C|0.007 0.059 strong . COMT 10 . NM_000754 exon3 c.G219A p.Q73Q CGCACAGAGCGTG . PASS Atlas-SNP PPL 5493 hgsc.bcm.edu 37 16 4935257 4935257 + Silent SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 135.0 48.0 152.0 0.0 0.355556 0 . . none . PPL 168 . NM_002705 exon22 c.C3399T p.L1133L GCGGGTGAGATCG . PASS Atlas-SNP CEACAM21 90273 hgsc.bcm.edu 37 19 42092225 42092225 + Splice_Site SNP G G A rs62119455 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 158.0 158.0 140.0 1.0 1 0.00714286 G|0.981;A|0.019 0.019 strong . CEACAM21 52 . NM_001098506 exon6 c.882+1G>A . TCCTAGGTAAGAC . PASS Atlas-SNP WDR55 54853 hgsc.bcm.edu 37 5 140048792 140048792 + Silent SNP C C A rs35080423 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 61.0 32.0 70.0 1.0 0.52459 0.0142857 C|0.991;A|0.009 0.009 strong WDR55,NS,carcinoma,+2,1 WDR55 27 1 NM_017706 exon6 c.C789A p.T263T AGTCACCGAGAGT . scavenged Atlas-SNP KIRREL2 84063 hgsc.bcm.edu 37 19 36351906 36351906 + Silent SNP C C A rs73928338 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 69.0 30.0 50.0 0.0 0.434783 0 C|0.994;A|0.006 0.006 strong . KIRREL2 170 . NM_199180 exon8 c.C1024A p.R342R CTTCCACGGGTAA . PASS Atlas-SNP CEP170 9859 hgsc.bcm.edu 37 1 243329093 243329093 + Silent SNP G G C rs2789194 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 217.0 108.0 222.0 0.0 0.497696 0 G|0.978;C|0.022 0.022 strong . CEP170 153 . NM_014812 exon13 c.C2169G p.G723G AGAGCTGCCTAAG . PASS Atlas-SNP C16orf62 57020 hgsc.bcm.edu 37 16 19590444 19590444 + Silent SNP T T C rs11866050 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 108.0 61.0 95.0 0.0 0.564815 0 T|0.937;C|0.063 0.063 strong . C16orf62 164 . NM_020314 exon6 c.T771C p.F257F TGACTTTGAGGAG . PASS Atlas-SNP EGLN2 112398 hgsc.bcm.edu 37 19 41306771 41306771 + Silent SNP G G A rs143206553 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 63.0 31.0 45.0 0.0 0.492063 0 G|0.993;A|0.007 0.007 strong . EGLN2 31 . NM_053046 exon2 c.G294A p.A98A TGCAGCGCTGGTC . PASS Atlas-SNP C17orf85 55421 hgsc.bcm.edu 37 17 3728315 3728315 + Silent SNP C C T rs218719 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 27.0 11.0 30.0 0.0 0.407407 0 C|0.932;T|0.068 0.068 strong . C17orf85 66 . NM_001114118 exon7 c.G717A p.E239E CAAAGACTCCTCT . PASS Atlas-SNP VAV2 7410 hgsc.bcm.edu 37 9 136640122 136640122 + Silent SNP G G A rs7875953 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 135.0 86.0 102.0 0.0 0.637037 0 G|0.963;A|0.037 0.037 strong VAV2_ENST00000371850,colon,carcinoma,0,2 VAV2 165 2 NM_001134398 exon25 c.C2070T p.H690H GCTGGCGTGGGAC . PASS Atlas-SNP TGM6 343641 hgsc.bcm.edu 37 20 2377204 2377204 + Silent SNP C C T rs16984872 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 266.0 124.0 252.0 0.0 0.466165 0 C|0.960;T|0.040 0.040 strong TGM6,NS,carcinoma,0,1 TGM6 126 1 NM_198994 exon4 c.C477T p.S159S GCTCAGCGACAGC . PASS Atlas-SNP LUZP1 7798 hgsc.bcm.edu 37 1 23418576 23418576 + Missense_Mutation SNP T T C rs144862656 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 126.0 59.0 108.0 0.0 0.468254 0 T|0.997;C|0.003 0.003 strong . LUZP1 83 . NM_033631 exon4 c.A2179G p.T727A CCATGGTATTGGT . PASS Atlas-SNP BTBD1 53339 hgsc.bcm.edu 37 15 83725291 83725291 + Silent SNP T T A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 87.0 35.0 69.0 0.0 0.402299 0 . . none BTBD1,NS,carcinoma,-2,1 BTBD1 32 1 NM_025238 exon2 c.A408T p.L136L TGAATATAGAAAT . PASS Atlas-SNP UGT3A1 133688 hgsc.bcm.edu 37 5 35957462 35957462 + Silent SNP G G A rs10428673 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 135.0 69.0 110.0 0.0 0.511111 0 G|0.991;A|0.009 0.009 strong . UGT3A1 95 . NM_152404 exon5 c.C903T p.G301G CATGGAGCCAAAG . PASS Atlas-SNP LRIG1 26018 hgsc.bcm.edu 37 3 66433458 66433458 + Silent SNP G G A rs34042409 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 89.0 41.0 95.0 0.0 0.460674 0 G|0.941;A|0.059 0.059 strong . LRIG1 138 . NM_015541 exon15 c.C2439T p.C813C GATGATGCACACC . PASS Atlas-SNP ZFP14 57677 hgsc.bcm.edu 37 19 36832427 36832427 + Missense_Mutation SNP A A T rs115297808 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 118.0 61.0 136.0 0.0 0.516949 0 A|0.990;T|0.010 0.010 strong . ZFP14 68 . NM_020917 exon5 c.T301A p.F101I ACTGAAATGAATA . PASS Atlas-SNP TRPM6 140803 hgsc.bcm.edu 37 9 77418802 77418802 + Missense_Mutation SNP G G A rs115354606 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 88.0 61.0 82.0 0.0 0.693182 0 G|0.969;A|0.031 0.031 strong . TRPM6 377 . NM_017662 exon15 c.C1639T p.H547Y TCTGGTGCTGGGA . PASS Atlas-SNP RPAP3 79657 hgsc.bcm.edu 37 12 48075597 48075597 + Silent SNP A A G rs36123489 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 96.0 46.0 68.0 0.0 0.479167 0 A|0.952;G|0.048 0.048 strong . RPAP3 45 . NM_024604 exon10 c.T996C p.Y332Y TTCTTCATATCTA . PASS Atlas-SNP GPATCH4 54865 hgsc.bcm.edu 37 1 156567847 156567847 + Missense_Mutation SNP G G C rs141345590 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 182.0 91.0 175.0 0.0 0.5 0 G|0.988;C|0.012 0.012 strong . GPATCH4 34 . NM_015590 exon5 c.C328G p.L110V GATACAGCAAGTT . PASS Atlas-SNP MASP2 10747 hgsc.bcm.edu 37 1 11103408 11103408 + Silent SNP G G A rs7536030 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 47.0 21.0 52.0 0.0 0.446809 0 G|0.904;A|0.096 0.096 strong MASP2,colon,carcinoma,0,1 MASP2 71 1 NM_006610 exon5 c.C729T p.Y243Y AAAGTCGTAGGGA . PASS Atlas-SNP MGA 23269 hgsc.bcm.edu 37 15 42019421 42019421 + Silent SNP A A G rs61736067 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 87.0 41.0 97.0 0.0 0.471264 0 A|0.988;G|0.012 0.012 strong . MGA 264 . NM_001080541 exon10 c.A3474G p.P1158P TTACCCATTATGG . PASS Atlas-SNP ALDH1L1 10840 hgsc.bcm.edu 37 3 125855665 125855665 + Missense_Mutation SNP T T G rs9282691 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 49.0 79.0 0.0 0.526882 0 T|0.935;G|0.065 0.065 strong . ALDH1L1 138 . NM_001270364 exon11 c.A1316C p.E439A ACGAACTCCCCCC . PASS Atlas-SNP PTPRN2 5799 hgsc.bcm.edu 37 7 157959888 157959888 + Silent SNP G G A rs73745197 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 70.0 40.0 80.0 0.0 0.571429 0 G|0.973;A|0.027 0.027 strong . PTPRN2 243 . NM_130843 exon6 c.C645T p.D215D CAGGAGGTCCTCG . PASS Atlas-SNP PNMT 5409 hgsc.bcm.edu 37 17 37826249 37826249 + Silent SNP A A G rs5638 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 53.0 23.0 44.0 0.0 0.433962 0 A|0.933;G|0.067 0.067 strong . PNMT 17 . NM_002686 exon3 c.A456G p.K152K GGTGAAACGGGTC . PASS Atlas-SNP SLC7A4 6545 hgsc.bcm.edu 37 22 21385427 21385427 + Missense_Mutation SNP G G C rs80061703 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 54.0 34.0 39.0 0.0 0.62963 0 G|0.969;C|0.031 0.031 strong . SLC7A4 50 . NM_004173 exon2 c.C675G p.D225E GCCTTCGTCAGCG . PASS Atlas-SNP HCN3 57657 hgsc.bcm.edu 37 1 155247408 155247408 + Silent SNP G G T rs184885598 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 13.0 8.0 2.0 0.0 0.615385 0 G|0.983;T|0.017 0.017 strong . HCN3 74 . NM_020897 exon1 c.G27T p.A9A GGCGGCGGGGGCC . PASS Atlas-SNP LY75 4065 hgsc.bcm.edu 37 2 160690646 160690646 + Silent SNP T T C rs6722188 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 150.0 86.0 182.0 0.0 0.573333 0 T|0.880;C|0.120 0.120 strong . LY75 151 . NM_002349 exon27 c.A3750G p.P1250P CTGAAATGGTATC . PASS Atlas-SNP NCKAP1 10787 hgsc.bcm.edu 37 2 183817154 183817154 + Silent SNP T T C rs111993802 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 188.0 97.0 193.0 0.0 0.515957 0 T|0.987;C|0.013 0.013 strong . NCKAP1 105 . NM_205842 exon24 c.A2598G p.S866S TTGTGATGAAATA . PASS Atlas-SNP ITGAD 3681 hgsc.bcm.edu 37 16 31429479 31429479 + Silent SNP T T C rs78517822 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 205.0 96.0 225.0 0.0 0.468293 0 T|0.947;C|0.053 0.053 strong . ITGAD 154 . NM_005353 exon21 c.T2583C p.S861S CTGCAGTGTCAAC . PASS Atlas-SNP OR2G2 81470 hgsc.bcm.edu 37 1 247751936 247751936 + Missense_Mutation SNP T T G rs146039934 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 347.0 176.0 354.0 0.0 0.507205 0 T|0.994;G|0.006 0.006 strong . OR2G2 88 . NM_001001915 exon1 c.T275G p.M92R AACCCATGAAAAC . PASS Atlas-SNP GPR113 165082 hgsc.bcm.edu 37 2 26540951 26540951 + Silent SNP G G A rs116141676 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 145.0 59.0 125.0 0.0 0.406897 0 G|0.986;A|0.014 0.014 strong . GPR113 134 . NM_001145168 exon2 c.C219T p.S73S GCCAAAGCTAGAA . PASS Atlas-SNP ANKRD27 84079 hgsc.bcm.edu 37 19 33131227 33131227 + Silent SNP C C T rs10410241 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 209.0 91.0 224.0 0.0 0.435407 0 C|0.924;T|0.076 0.076 strong ANKRD27,colon,carcinoma,-1,1 ANKRD27 86 1 NM_032139 exon11 c.G969A p.T323T GATCTCCGTTTTC . PASS Atlas-SNP UPP2 151531 hgsc.bcm.edu 37 2 158971664 158971664 + Missense_Mutation SNP A A C rs7561584 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 88.0 35.0 118.0 0.0 0.397727 0 A|0.994;C|0.006 0.006 strong . UPP2 60 . NM_001135098 exon5 c.A403C p.M135L CTGTTTATGCACA . PASS Atlas-SNP BPIFB2 80341 hgsc.bcm.edu 37 20 31598909 31598909 + Silent SNP G G A rs61734339 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 42.0 116.0 0.0 0.451613 0 G|0.992;A|0.008 0.008 strong . . . . NM_025227 exon3 c.G189A p.A63A AGAGGCGCTTCAG . PASS Atlas-SNP PVRL1 5818 hgsc.bcm.edu 37 11 119509485 119509485 + Missense_Mutation SNP G G A rs73571271 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 41.0 21.0 62.0 0.0 0.512195 0 G|0.978;A|0.022 0.022 strong . PVRL1 133 . NM_203285 exon7 c.C1183T p.P395S GAGAAGGCTCCGG . PASS Atlas-SNP FAM186B 84070 hgsc.bcm.edu 37 12 49994658 49994658 + Missense_Mutation SNP C C G rs74086906 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 288.0 114.0 283.0 0.0 0.395833 0 C|0.964;G|0.036 0.036 strong . FAM186B 72 . NM_032130 exon4 c.G765C p.R255S CAGGCTCCTGTTC . PASS Atlas-SNP ANKRD18B 441459 hgsc.bcm.edu 37 9 33572355 33572355 + Silent SNP C C G rs200701439 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 350.0 14.0 313.0 0.0 0.04 0 C|0.998;G|0.002 0.002 weak . ANKRD18B 46 . NM_001244752 exon16 c.C3030G p.L1010L TCTTCTCTAGAAT . PASS Atlas-SNP C18orf32 497661 hgsc.bcm.edu 37 18 47008736 47008736 + Silent SNP G G A rs148432146 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 96.0 56.0 104.0 0.0 0.583333 0 G|0.999;A|0.001 0.001 strong . C18orf32 8 . NM_001199346 exon3 c.C210T p.I70I ATCACAGATTTCT . PASS Atlas-SNP CD8B 926 hgsc.bcm.edu 37 2 87073817 87073817 + Missense_Mutation SNP G G C rs1126874 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 413.0 29.0 402.0 0.0 0.0702179 0 . . weak CD8B_ENST00000393759,NS,carcinoma,0,2 CD8B 37 2 NM_004931 exon4 c.C573G p.I191M CAGGTGGATGGCC . scavenged Atlas-SNP ATP10B 23120 hgsc.bcm.edu 37 5 160047491 160047491 + Missense_Mutation SNP A A C rs375262733 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 241.0 100.0 199.0 0.0 0.414938 0 . . weak . ATP10B 201 . NM_025153 exon15 c.T2279G p.L760R CAGAGGAGGCTGA . PASS Atlas-SNP KRTAP13-4 284827 hgsc.bcm.edu 37 21 31802629 31802629 + Silent SNP C C T rs73356729 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 242.0 104.0 208.0 0.0 0.429752 0 C|0.963;T|0.037 0.037 strong . KRTAP13-4 46 . NM_181600 exon1 c.C36T p.S12S CTCCTCCCGCTCC . PASS Atlas-SNP ZNF407 55628 hgsc.bcm.edu 37 18 72344202 72344202 + Silent SNP T T C rs374837339 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 119.0 66.0 112.0 0.0 0.554622 0 . . weak . ZNF407 231 . NM_001146190 exon1 c.T1227C p.S409S TAACAGTGTAACC . PASS Atlas-SNP IQCE 23288 hgsc.bcm.edu 37 7 2611908 2611908 + Silent SNP G G C rs147584030 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 65.0 29.0 51.0 0.0 0.446154 0 G|0.994;C|0.006 0.006 strong . IQCE 66 . NM_152558 exon5 c.G342C p.L114L CTGTCTGACAGAC . PASS Atlas-SNP FAT3 120114 hgsc.bcm.edu 37 11 92538422 92538422 + Silent SNP C C T rs59542280 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 140.0 65.0 150.0 0.0 0.464286 0 C|0.988;T|0.012 0.012 strong . FAT3 1822 . NM_001008781 exon10 c.C9000T p.L3000L CTTTCTCAATATC . PASS Atlas-SNP KIF7 374654 hgsc.bcm.edu 37 15 90192363 90192363 + Silent SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 57.0 32.0 48.0 0.0 0.561404 0 . . none . KIF7 130 . NM_198525 exon4 c.C765T p.G255G CTCTGAGCCCGCC . PASS Atlas-SNP ZSCAN2 54993 hgsc.bcm.edu 37 15 85164530 85164530 + Silent SNP C C T rs115131715 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 61.0 35.0 79.0 0.0 0.57377 0 C|0.988;T|0.012 0.012 strong . ZSCAN2 43 . NM_181877 exon3 c.C1104T p.G368G ATGCGGCGAAAGC . PASS Atlas-SNP FRMD7 90167 hgsc.bcm.edu 37 X 131212487 131212487 + Missense_Mutation SNP G G C rs61742429 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 215.0 84.0 204.0 0.0 0.390698 0 G|0.982;C|0.018 0.018 strong . FRMD7 69 . NM_194277 exon12 c.C1558G p.H520D AGCTATGTGGACT . PASS Atlas-SNP SNED1 25992 hgsc.bcm.edu 37 2 242012729 242012729 + Missense_Mutation SNP G G A rs6721345 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 161.0 72.0 150.0 0.0 0.447205 0 G|0.966;A|0.034 0.034 strong . SNED1 76 . NM_001080437 exon27 c.G3866A p.R1289Q CCAAGCGGGTCAG . PASS Atlas-SNP TTC40 54777 hgsc.bcm.edu 37 10 134628208 134628208 + Missense_Mutation SNP C C T rs61733298 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 79.0 37.0 99.0 0.0 0.468354 0 C|0.968;T|0.032 0.032 strong . TTC40 100 . NM_001200049 exon52 c.G7231A p.D2411N CTGAGTCGACTAT . PASS Atlas-SNP AMDHD2 51005 hgsc.bcm.edu 37 16 2578131 2578131 + Silent SNP C C G rs35816046 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 98.0 37.0 84.0 0.0 0.377551 0 G|0.019;C|0.981 0.019 strong . AMDHD2 33 . NM_001145815 exon6 c.C699G p.L233L CCACCTCTTCAAC . PASS Atlas-SNP TTC8 123016 hgsc.bcm.edu 37 14 89338786 89338786 + Missense_Mutation SNP A A G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 63.0 24.0 60.0 0.0 0.380952 0 . . none . TTC8 42 . NM_144596 exon13 c.A1337G p.H446R AGGGCCACGTTGA . PASS Atlas-SNP TTN 7273 hgsc.bcm.edu 37 2 179610477 179610477 + Silent SNP A A G rs16866488 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 168.0 88.0 163.0 0.0 0.52381 0 A|0.987;G|0.013 0.013 strong . TTN 18412 . NM_133379 exon46 c.T16650C p.D5550D TTTTCCATCTTTG . PASS Atlas-SNP C11orf82 220042 hgsc.bcm.edu 37 11 82644059 82644059 + Missense_Mutation SNP G G C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 33.0 17.0 42.0 0.0 0.515152 0 . . none . C11orf82 71 . NM_145018 exon6 c.G1679C p.R560T CTATCAGAATCTC . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195505893 195505893 + Silent SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 240.0 14.0 167.0 0.0 0.0583333 0 . . none . MUC4 1505 . NM_018406 exon2 c.C12558T p.S4186S ACCTGTGGATGCT . PASS Atlas-SNP LYPD3 27076 hgsc.bcm.edu 37 19 43967423 43967423 + Silent SNP G G A rs79420167 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 34.0 15.0 18.0 0.0 0.441176 0 G|0.987;A|0.013 0.013 strong . LYPD3 24 . NM_014400 exon4 c.C399T p.Y133Y GGGCGGGTATGCA . PASS Atlas-SNP APOB 338 hgsc.bcm.edu 37 2 21224843 21224843 + Missense_Mutation SNP G G A rs12713450 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 118.0 60.0 100.0 1.0 0.508475 0.01 G|0.968;A|0.032 0.032 strong APOB,NS,carcinoma,+1,1 APOB 761 1 NM_000384 exon29 c.C13451T p.T4484M TTCTTCGTCGCAA . scavenged Atlas-SNP CHAD 1101 hgsc.bcm.edu 37 17 48542690 48542690 + Missense_Mutation SNP G G A rs2231510 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 109.0 50.0 105.0 0.0 0.458716 0 G|0.966;A|0.034 0.034 strong . CHAD 36 . NM_001267 exon3 c.C1049T p.T350I CTCTTGGTGGGGA . PASS Atlas-SNP PKN2 5586 hgsc.bcm.edu 37 1 89273241 89273241 + Missense_Mutation SNP A A G rs12085658 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 101.0 50.0 103.0 0.0 0.49505 0 A|0.992;G|0.008 0.008 strong . PKN2 109 . NM_006256 exon14 c.A1964G p.Q655R ATCTACAAGATTT . PASS Atlas-SNP KIAA1211 57482 hgsc.bcm.edu 37 4 57180546 57180546 + Missense_Mutation SNP G G A rs145781098 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 49.0 24.0 39.0 0.0 0.489796 0 G|0.994;A|0.006 0.006 strong . KIAA1211 178 . NM_020722 exon8 c.G878A p.R293Q AGCAGCGGAGCCT . PASS Atlas-SNP PRUNE2 158471 hgsc.bcm.edu 37 9 79319725 79319725 + Missense_Mutation SNP T T C rs375144440 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 149.0 104.0 132.0 0.0 0.697987 0 . . weak . PRUNE2 331 . NM_015225 exon8 c.A7465G p.T2489A TATCTGTTTCTAC . PASS Atlas-SNP BRWD1 54014 hgsc.bcm.edu 37 21 40570830 40570830 + Missense_Mutation SNP G G C rs2234547 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 172.0 84.0 155.0 0.0 0.488372 0 G|0.997;C|0.003 0.003 strong . BRWD1 325 . NM_018963 exon40 c.C5512G p.H1838D TTTTATGACATTT . PASS Atlas-SNP LRRN3 54674 hgsc.bcm.edu 37 7 110763563 110763563 + Silent SNP T T C rs214865 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 144.0 75.0 107.0 0.0 0.520833 0 T|0.892;C|0.108 0.108 strong . LRRN3 132 . NM_018334 exon2 c.T735C p.D245D TTACGATAACAGG . PASS Atlas-SNP SLC9A9 285195 hgsc.bcm.edu 37 3 143185920 143185920 + Silent SNP A A G rs61734421 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 314.0 151.0 311.0 0.0 0.480892 0 A|0.993;G|0.007 0.007 strong . SLC9A9 117 . NM_173653 exon12 c.T1428C p.F476F TCCTCCAAATACC . PASS Atlas-SNP OGFR 11054 hgsc.bcm.edu 37 20 61443871 61443871 + Missense_Mutation SNP C C T rs77478162 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 65.0 32.0 60.0 0.0 0.492308 0 C|0.984;T|0.016 0.016 strong . OGFR 63 . NM_007346 exon7 c.C904T p.H302Y CTGCCCCATCCGC . PASS Atlas-SNP BPIFA2 140683 hgsc.bcm.edu 37 20 31757078 31757078 + Missense_Mutation SNP G G A rs6059139 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 95.0 31.0 91.0 0.0 0.326316 0 G|0.962;A|0.038 0.038 strong . . . . NM_080574 exon2 c.G127A p.G43R CACGAGGGACTTG . PASS Atlas-SNP CLASP2 23122 hgsc.bcm.edu 37 3 33759474 33759474 + Silent SNP C C T rs112019256 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 14.0 5.0 23.0 0.0 0.357143 0 C|0.333;T|0.667 0.667 weak . CLASP2 138 . NM_015097 exon1 c.G21A p.E7E GAAGTACTCCATG . PASS Atlas-SNP SCN4A 6329 hgsc.bcm.edu 37 17 62018737 62018737 + Silent SNP G G A rs59081944 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 228.0 101.0 186.0 0.0 0.442982 0 G|0.983;A|0.017 0.017 strong . SCN4A 205 . NM_000334 exon24 c.C4905T p.I1635I GTAGGCGATGAAC . PASS Atlas-SNP CEP89 84902 hgsc.bcm.edu 37 19 33450806 33450806 + Missense_Mutation SNP C C T rs73926195 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 144.0 73.0 131.0 0.0 0.506944 0 C|0.944;T|0.056 0.056 strong CEP89,colon,carcinoma,-1,4 CEP89 82 4 NM_032816 exon3 c.G305A p.R102Q ACCTACCGAGGCC . PASS Atlas-SNP SOX30 11063 hgsc.bcm.edu 37 5 157053365 157053365 + Missense_Mutation SNP C C T rs889057 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 78.0 38.0 97.0 0.0 0.487179 0 C|0.998;T|0.002 0.002 strong . SOX30 67 . NM_178424 exon5 c.G2245A p.V749M TGAGCACTTTTTC . PASS Atlas-SNP MACF1 23499 hgsc.bcm.edu 37 1 39907949 39907949 + Missense_Mutation SNP A A G rs682351 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 68.0 34.0 72.0 0.0 0.5 0 A|0.986;G|0.014 0.014 strong . MACF1 909 . NM_012090 exon73 c.A12728G p.K4243R AACTCAAACACCT . PASS Atlas-SNP APBA3 9546 hgsc.bcm.edu 37 19 3759802 3759802 + Missense_Mutation SNP C C A rs35932323 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 59.0 32.0 71.0 0.0 0.542373 0 C|0.975;A|0.025 0.025 strong . APBA3 28 . NM_004886 exon2 c.G461T p.W154L TCCACCCATTCTG . PASS Atlas-SNP HRC 3270 hgsc.bcm.edu 37 19 49657754 49657754 + Silent SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 136.0 6.0 117.0 0.0 0.0441176 0 . . none . HRC 85 . NM_002152 exon1 c.C741T p.D247D ATCATCGTCATCT . PASS Atlas-SNP CD180 4064 hgsc.bcm.edu 37 5 66479383 66479383 + Missense_Mutation SNP T T C rs2230523 bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 146.0 66.0 174.0 0.0 0.452055 0 T|0.978;C|0.022 0.022 strong CD180,NS,carcinoma,+1,2 CD180 78 2 NM_005582 exon3 c.A1288G p.T430A AGCGGGTAAATGC . PASS Atlas-SNP KIRREL2 84063 hgsc.bcm.edu 37 19 36351545 36351545 + Missense_Mutation SNP C C A rs73928337 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 109.0 50.0 107.0 0.0 0.458716 0 C|0.994;A|0.006 0.006 strong KIRREL2_ENST00000262625,NS,carcinoma,-1,2 KIRREL2 170 2 NM_199180 exon7 c.C904A p.R302S GCCAACCGCAGTA . PASS Atlas-SNP TNPO2 30000 hgsc.bcm.edu 37 19 12816559 12816559 + Silent SNP G G T rs7248726 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 149.0 78.0 127.0 0.0 0.52349 0 G|0.849;T|0.151 0.151 strong . TNPO2 108 . NM_013433 exon15 c.C1692A p.P564P CAGTGGGGGCATC . PASS Atlas-SNP CLUAP1 23059 hgsc.bcm.edu 37 16 3554799 3554799 + Silent SNP T T C rs34672214 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 192.0 84.0 243.0 0.0 0.4375 0 T|0.955;C|0.045 0.045 strong . CLUAP1 32 . NM_015041 exon2 c.T102C p.L34L TGGACTTGTATCT . PASS Atlas-SNP SPEM1 374768 hgsc.bcm.edu 37 17 7324588 7324588 + Silent SNP G G A rs78583740 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 98.0 52.0 70.0 0.0 0.530612 0 G|0.961;A|0.039 0.039 strong . SPEM1 41 . NM_199339 exon3 c.G594A p.L198L CGAGCTGGGCCTA . PASS Atlas-SNP DUSP27 92235 hgsc.bcm.edu 37 1 167096770 167096770 + Missense_Mutation SNP G G C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 94.0 41.0 96.0 0.0 0.43617 0 . . none . DUSP27 235 . NM_001080426 exon5 c.G2402C p.C801S TGTCCTGCAACAC . PASS Atlas-SNP SEC14L5 9717 hgsc.bcm.edu 37 16 5061191 5061191 + Silent SNP C C T rs8055468 bycluster;byfrequency;by2hit2allele;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 146.0 69.0 140.0 0.0 0.472603 0 C|0.968;T|0.032 0.032 strong . SEC14L5 79 . NM_014692 exon15 c.C1896T p.D632D TGTGGACGATGTC . PASS Atlas-SNP KIF1C 10749 hgsc.bcm.edu 37 17 4925674 4925674 + Silent SNP C C T rs73345356 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 80.0 42.0 94.0 0.0 0.525 0 C|0.964;T|0.036 0.036 strong KIF1C,colon,carcinoma,0,1 KIF1C 70 1 NM_006612 exon22 c.C2298T p.H766H CCGCCACGGGCGG . PASS Atlas-SNP CCDC88C 440193 hgsc.bcm.edu 37 14 91805804 91805804 + Silent SNP C C T rs61220159 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 230.0 124.0 193.0 0.0 0.53913 0 C|0.968;T|0.032 0.032 strong . CCDC88C 192 . NM_001080414 exon8 c.G627A p.L209L CACGATCAGCTGC . PASS Atlas-SNP CDNF 441549 hgsc.bcm.edu 37 10 14862140 14862140 + Missense_Mutation SNP C C A rs61740068 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 128.0 60.0 166.0 0.0 0.46875 0 C|0.985;A|0.015 0.015 strong . CDNF 19 . NM_001029954 exon4 c.G403T p.A135S CTGATGCCAAGTC . PASS Atlas-SNP NCOR2 9612 hgsc.bcm.edu 37 12 124841276 124841276 + Silent SNP G G A rs200441401 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 192.0 94.0 182.0 0.0 0.489583 0 G|1.000;A|0.000 0.000 strong . NCOR2 475 . NM_006312 exon25 c.C3153T p.S1051S CAGGCCGGAAGTC . PASS Atlas-SNP KIAA1609 57707 hgsc.bcm.edu 37 16 84520496 84520496 + Missense_Mutation SNP C C G rs34244563 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 145.0 72.0 149.0 0.0 0.496552 0 C|0.989;G|0.011 0.011 strong . KIAA1609 39 . NM_020947 exon5 c.G699C p.E233D TTGACGCTCAGGG . PASS Atlas-SNP SVEP1 79987 hgsc.bcm.edu 37 9 113233738 113233738 + Silent SNP T T C rs61732942 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 267.0 181.0 249.0 1.0 0.677903 0.00401606 T|0.963;C|0.037 0.037 strong . SVEP1 326 . NM_153366 exon16 c.A2904G p.A968A TTCTGATGCAAGC . PASS Atlas-SNP LILRB3 11025 hgsc.bcm.edu 37 19 54720967 54720967 + Missense_Mutation SNP G G A rs114510580 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 333.0 140.0 280.0 0.0 0.42042 0 G|0.962;A|0.038 0.038 strong . LILRB3 67 . NM_001081450 exon13 c.C1894T p.H632Y GCTAGTGGATGGC . PASS Atlas-SNP MAML3 55534 hgsc.bcm.edu 37 4 140811131 140811131 + Missense_Mutation SNP G G T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 7.0 74.0 0.0 0.0752688 0 . . none . MAML3 192 . NM_018717 exon2 c.C1459A p.Q487K GCTGTTGCTGTTT . PASS Atlas-SNP TBX15 6913 hgsc.bcm.edu 37 1 119427937 119427937 + Silent SNP G G A rs145938710 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 70.0 36.0 67.0 0.0 0.514286 0 G|0.998;A|0.002 0.002 strong . TBX15 95 . NM_152380 exon8 c.C909T p.A303A CTGCAAGGCAGCC . PASS Atlas-SNP FLG 2312 hgsc.bcm.edu 37 1 152276474 152276474 + Missense_Mutation SNP G G A rs9436065 bycluster;by2hit2allele;byhapmap TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 572.0 364.0 367.0 0.0 0.636364 0 G|0.997;A|0.003 0.003 weak . FLG 900 . NM_002016 exon3 c.C10888T p.H3630Y GCTGGTGGTGGGA . PASS Atlas-SNP GAA 2548 hgsc.bcm.edu 37 17 78092081 78092081 + Silent SNP G G T rs17853996 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 134.0 67.0 148.0 0.0 0.5 0 G|0.997;T|0.003 0.003 strong . GAA 66 . NM_001079803 exon19 c.G2571T p.L857L GGAGCTGTTCTGG . PASS Atlas-SNP OR2A5 393046 hgsc.bcm.edu 37 7 143747796 143747796 + Missense_Mutation SNP C C A rs61741408 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 165.0 85.0 159.0 0.0 0.515152 0 C|0.997;A|0.003 0.003 strong OR2A5,colon,carcinoma,+1,5 OR2A5 78 5 NM_012365 exon1 c.C302A p.T101N TGCAGACCTTTTT . PASS Atlas-SNP ZFYVE9 9372 hgsc.bcm.edu 37 1 52705174 52705174 + Silent SNP A A G rs34437486 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 154.0 70.0 140.0 0.0 0.454545 0 A|0.991;G|0.009 0.009 strong . ZFYVE9 131 . NM_007323 exon4 c.A2085G p.V695V TCCAGTATGGGTA . PASS Atlas-SNP MC1R 4157 hgsc.bcm.edu 37 16 89986566 89986566 + Silent SNP C C T rs3212367 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 162.0 75.0 163.0 0.0 0.462963 0 C|0.978;T|0.022 0.022 strong . MC1R 20 . NM_002386 exon1 c.C900T p.F300F CGCCTTCCACAGC . PASS Atlas-SNP ABCC10 89845 hgsc.bcm.edu 37 6 43413669 43413669 + Silent SNP G G A rs112977568 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 87.0 45.0 104.0 0.0 0.517241 0 G|0.992;A|0.008 0.008 strong . ABCC10 118 . NM_001198934 exon15 c.G3363A p.G1121G CACAGGGGCCACC . PASS Atlas-SNP TMEM176A 55365 hgsc.bcm.edu 37 7 150498773 150498773 + Silent SNP C C T rs10239586 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 30.0 17.0 28.0 0.0 0.566667 0 C|0.993;T|0.007 0.007 strong . TMEM176A 35 . NM_018487 exon2 c.C135T p.T45T GGCCACCCAGGCC . PASS Atlas-SNP SMCHD1 23347 hgsc.bcm.edu 37 18 2740798 2740798 + Silent SNP A A T rs115632137 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 129.0 74.0 129.0 0.0 0.573643 0 A|0.973;T|0.027 0.027 strong . SMCHD1 88 . NM_015295 exon28 c.A3612T p.S1204S TAGCTCAAATTTG . PASS Atlas-SNP SPINK14 408187 hgsc.bcm.edu 37 5 147553829 147553829 + Silent SNP C C T rs79779038 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 55.0 55.0 135.0 0.0 1 0 C|0.919;T|0.081 0.081 strong . SPINK14 9 . NM_001001325 exon3 c.C144T p.S48S CTTGAGCTGGTAC . PASS Atlas-SNP CCDC157 550631 hgsc.bcm.edu 37 22 30761995 30761995 + Silent SNP G G A rs61732271 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 20.0 5.0 21.0 0.0 0.25 0 G|0.990;A|0.010 0.010 strong . CCDC157 86 . NM_001017437 exon3 c.G6A p.A2A GATGGCGCACCTG . PASS Atlas-SNP NEIL3 55247 hgsc.bcm.edu 37 4 178231219 178231219 + Missense_Mutation SNP C C T rs34007209 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 57.0 33.0 32.0 0.0 0.578947 0 C|0.884;T|0.116 0.116 strong NEIL3,NS,carcinoma,0,2 NEIL3 89 2 NM_018248 exon1 c.C112T p.R38C CAGGGCCGCGCCT . PASS Atlas-SNP HNRNPA2B1 3181 hgsc.bcm.edu 37 7 26236235 26236235 + Silent SNP T T C rs34317198 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 170.0 78.0 195.0 0.0 0.458824 0 T|0.935;C|0.065 0.065 strong . HNRNPA2B1 70 . NM_031243 exon6 c.A555G p.R185R AGCCTTTCTTACT . PASS Atlas-SNP MFSD6L 162387 hgsc.bcm.edu 37 17 8701701 8701701 + Silent SNP A A G rs16957601 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 12.0 9.0 15.0 0.0 0.75 0 A|0.974;G|0.026 0.026 strong . MFSD6L 46 . NM_152599 exon1 c.T738C p.F246F GAGGATAAAAGTC . PASS Atlas-SNP BAI1 575 hgsc.bcm.edu 37 8 143599594 143599594 + Silent SNP C C T rs75573695 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 145.0 67.0 160.0 0.0 0.462069 0 C|0.964;T|0.036 0.036 strong . BAI1 146 . NM_001702 exon18 c.C2913T p.S971S CGTGTCCGTGTGG . PASS Atlas-SNP GPC2 221914 hgsc.bcm.edu 37 7 99773879 99773879 + Silent SNP G G A rs74662631 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 276.0 136.0 231.0 0.0 0.492754 0 G|0.985;A|0.015 0.015 strong . GPC2 49 . NM_152742 exon2 c.C276T p.S92S GGAGCCGCTGTCC . PASS Atlas-SNP EHMT1 79813 hgsc.bcm.edu 37 9 140707590 140707590 + Silent SNP C C T rs35943616 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 64.0 64.0 47.0 0.0 1 0 C|0.899;T|0.101 0.101 strong . EHMT1 196 . NM_024757 exon20 c.C3000T p.P1000P GGCCCCCGACAGG . PASS Atlas-SNP CCDC66 285331 hgsc.bcm.edu 37 3 56650054 56650054 + Missense_Mutation SNP T T C rs111934125 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 84.0 8.0 86.0 0.0 0.0952381 0 C|1.000;|0.000 1.000 weak CCDC66_ENST00000394672,caecum,carcinoma,0,2 CCDC66 145 2 NM_001141947 exon13 c.T1816C p.S606P ACGACTTCTAAGA . PASS Atlas-SNP CBFB 865 hgsc.bcm.edu 37 16 67116169 67116169 + Silent SNP C C T rs78053453 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 88.0 38.0 80.0 0.0 0.431818 0 C|0.951;T|0.049 0.049 strong CBFB_ENST00000412916,NS,carcinoma,+1,2 CBFB 52 2 NM_022845 exon5 c.C453T p.R151R GACACGCGAATTT . PASS Atlas-SNP LNX2 222484 hgsc.bcm.edu 37 13 28130473 28130473 + Silent SNP G G A rs115119970 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 85.0 29.0 73.0 0.0 0.341176 0 G|0.988;A|0.012 0.012 strong . LNX2 70 . NM_153371 exon7 c.C1446T p.T482T AGCAACGGTCATG . PASS Atlas-SNP FBF1 85302 hgsc.bcm.edu 37 17 73929118 73929118 + Missense_Mutation SNP G G A rs149283443 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 55.0 35.0 61.0 0.0 0.636364 0 G|0.997;A|0.003 0.003 strong . FBF1 48 . NM_001080542 exon4 c.C83T p.T28I ACACCTGTGGTGT . PASS Atlas-SNP ABCC4 10257 hgsc.bcm.edu 37 13 95696540 95696540 + Silent SNP C C T rs11568695 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 111.0 54.0 127.0 0.0 0.486486 0 C|0.950;T|0.050 0.050 strong ABCC4_ENST00000376887,colon,carcinoma,-1,2 ABCC4 248 2 NM_005845 exon28 c.G3609A p.A1203A TGCCGTCGCTTCA . PASS Atlas-SNP ITPR2 3709 hgsc.bcm.edu 37 12 26834833 26834833 + Silent SNP G G A rs35412320 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 119.0 44.0 101.0 0.0 0.369748 0 G|0.991;A|0.009 0.009 strong ITPR2,colon,carcinoma,-2,1 ITPR2 270 1 NM_002223 exon13 c.C1383T p.N461N TGTGCCGTTTTCT . PASS Atlas-SNP CALM3 808 hgsc.bcm.edu 37 19 47112207 47112207 + Silent SNP C C T rs35617141 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 83.0 47.0 86.0 0.0 0.566265 0 C|0.990;T|0.010 0.010 strong . CALM3 9 . NM_005184 exon5 c.C390T p.D130D GGCTGACATCGAT . PASS Atlas-SNP OR4D2 124538 hgsc.bcm.edu 37 17 56247794 56247794 + Missense_Mutation SNP C C T rs148697791 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 362.0 191.0 361.0 1.0 0.527624 0.00277008 C|0.995;T|0.005 0.005 strong . OR4D2 48 . NM_001004707 exon1 c.C778T p.R260W TATGCCCGGCCCT . PASS Atlas-SNP RINT1 60561 hgsc.bcm.edu 37 7 105182995 105182995 + Silent SNP G G A rs7805216 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 218.0 106.0 180.0 0.0 0.486239 0 G|0.939;A|0.061 0.061 strong . RINT1 65 . NM_021930 exon4 c.G414A p.A138A GACTGCGCAACCT . PASS Atlas-SNP RNASE4 6038 hgsc.bcm.edu 37 14 21167837 21167837 + Missense_Mutation SNP G G A rs59543367 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 30.0 22.0 36.0 0.0 0.733333 0 G|0.994;A|0.006 0.006 strong . RNASE4 18 . NM_002937 exon2 c.G307A p.V103I GAGGGTGTAGTGA . PASS Atlas-SNP AKAP8L 26993 hgsc.bcm.edu 37 19 15512393 15512393 + Silent SNP G G A rs61739315 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 48.0 19.0 42.0 0.0 0.395833 0 G|0.991;A|0.009 0.009 strong . AKAP8L 64 . NM_014371 exon5 c.C384T p.C128C CGAGTCGCAGGAC . PASS Atlas-SNP GPNMB 10457 hgsc.bcm.edu 37 7 23300352 23300352 + Silent SNP G G T rs35115002 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 73.0 40.0 83.0 0.0 0.547945 0 G|0.995;T|0.005 0.005 strong . GPNMB 88 . NM_002510 exon6 c.G978T p.P326P GCCACCGCCACCA . PASS Atlas-SNP ZNF446 55663 hgsc.bcm.edu 37 19 58991075 58991075 + Silent SNP C C T rs140158663 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 99.0 43.0 87.0 0.0 0.434343 0 C|0.998;T|0.002 0.002 strong . ZNF446 22 . NM_017908 exon5 c.C693T p.Y231Y GAAGTACGGCACA . PASS Atlas-SNP ZSCAN25 221785 hgsc.bcm.edu 37 7 99227027 99227027 + Missense_Mutation SNP C C T rs142120776 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 59.0 28.0 57.0 0.0 0.474576 0 C|0.998;T|0.002 0.002 strong . . . . NM_145115 exon8 c.C1019T p.T340I TCAAAACCCACAG . PASS Atlas-SNP HDAC9 9734 hgsc.bcm.edu 37 7 18914209 18914209 + Silent SNP G G T rs17140166 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 80.0 35.0 64.0 0.0 0.4375 0 G|0.975;T|0.025 0.025 strong . HDAC9 560 . NM_178425 exon21 c.G2793T p.V931V CAAAGTGACGGCA . PASS Atlas-SNP THRSP 7069 hgsc.bcm.edu 37 11 77775157 77775157 + Missense_Mutation SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 120.0 62.0 128.0 0.0 0.516667 0 . . none . THRSP 18 . NM_003251 exon1 c.G230A p.R77Q TGCCGCGGGAGGA . PASS Atlas-SNP CBLN3 643866 hgsc.bcm.edu 37 14 24898135 24898135 + Silent SNP C C T rs57646536 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 99.0 50.0 121.0 0.0 0.50505 0 C|0.963;T|0.037 0.037 strong . CBLN3 21 . NM_001039771 exon1 c.G126A p.E42E CTCCCCCTCCAGC . PASS Atlas-SNP RGAG4 340526 hgsc.bcm.edu 37 X 71350294 71350294 + Missense_Mutation SNP A A G rs146618350 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 238.0 237.0 205.0 0.0 0.995798 0 A|0.994;G|0.006 0.006 strong . RGAG4 63 . NM_001024455 exon1 c.T1097C p.M366T GCCCTCATGCGCT . PASS Atlas-SNP ANKRD36B 57730 hgsc.bcm.edu 37 2 98201527 98201527 + Silent SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 1172.0 406.0 1252.0 1.0 0.346416 0.000798722 . . none . . . . NM_025190 exon3 c.C330T p.A110A TGGATCGGCGCCA . PASS Atlas-SNP PRSS36 146547 hgsc.bcm.edu 37 16 31151927 31151927 + Silent SNP G G A rs61976958 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 69.0 28.0 75.0 0.0 0.405797 0 G|0.983;A|0.017 0.017 strong . PRSS36 50 . NM_173502 exon13 c.C2053T p.L685L AGCTCAGCTCCAG . PASS Atlas-SNP ROBO4 54538 hgsc.bcm.edu 37 11 124764176 124764176 + Silent SNP T T C rs11820142 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 90.0 38.0 97.0 0.0 0.422222 0 T|0.971;C|0.029 0.029 strong . ROBO4 130 . NM_019055 exon8 c.A1239G p.P413P GGAGCCTGGCATA . PASS Atlas-SNP ROR2 4920 hgsc.bcm.edu 37 9 94499797 94499797 + Silent SNP A A G rs16907720 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 38.0 26.0 50.0 0.0 0.684211 0 A|0.902;G|0.098 0.098 strong . ROR2 167 . NM_004560 exon5 c.T498C p.D166D GTAATCATCCCTG . PASS Atlas-SNP BEST1 7439 hgsc.bcm.edu 37 11 61730427 61730427 + Missense_Mutation SNP G G T rs115979721 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 165.0 81.0 193.0 0.0 0.490909 0 G|0.977;T|0.023 0.023 strong . BEST1 85 . NM_001139443 exon9 c.G1621T p.A541S TCCCTTGCTCTGA . PASS Atlas-SNP ANKUB1 389161 hgsc.bcm.edu 37 3 149485581 149485581 + Missense_Mutation SNP C C T rs75855073 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 77.0 38.0 76.0 0.0 0.493506 0 C|0.974;T|0.026 0.026 strong . ANKUB1 27 . NM_001144960 exon5 c.G868A p.V290I ATAATACACAGTC . PASS Atlas-SNP MED13 9969 hgsc.bcm.edu 37 17 60087932 60087932 + Missense_Mutation SNP T T C rs114223275 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 102.0 45.0 121.0 0.0 0.441176 0 T|0.999;C|0.001 0.001 strong . MED13 181 . NM_005121 exon9 c.A1946G p.E649G ACACTTTCCTGTC . PASS Atlas-SNP PPP1R15A 23645 hgsc.bcm.edu 37 19 49377120 49377120 + Silent SNP C C T rs34899467 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 35.0 93.0 0.0 0.460526 0 C|0.984;T|0.016 0.016 strong . PPP1R15A 48 . NM_014330 exon2 c.C630T p.A210A TTCTGCCTTGTCT . PASS Atlas-SNP MAP10 54627 hgsc.bcm.edu 37 1 232942276 232942276 + Missense_Mutation SNP G G A rs61735495 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 90.0 50.0 67.0 0.0 0.555556 0 G|0.988;A|0.012 0.012 strong . . . . NM_019090 exon1 c.G1507A p.E503K GCACACGAACATC . PASS Atlas-SNP URI1 8725 hgsc.bcm.edu 37 19 30500195 30500195 + Missense_Mutation SNP G G C rs151025990 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 95.0 47.0 88.0 0.0 0.494737 0 G|0.998;C|0.002 0.002 strong . . . . NM_003796 exon8 c.G970C p.A324P CATGAGGCTTTAG . PASS Atlas-SNP ZBTB4 57659 hgsc.bcm.edu 37 17 7365289 7365289 + Silent SNP A A T rs114898274 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 40.0 110.0 0.0 0.430108 0 A|0.992;T|0.008 0.008 strong . ZBTB4 163 . NM_001128833 exon4 c.T3012A p.V1004V TCTCTCAACCCCT . PASS Atlas-SNP TACC2 10579 hgsc.bcm.edu 37 10 123970513 123970513 + Silent SNP G G A rs35913854 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 52.0 23.0 54.0 0.0 0.442308 0 G|0.936;A|0.064 0.064 strong . TACC2 271 . NM_206862 exon9 c.G6573A p.T2191T GGAGACGCCCCTT . PASS Atlas-SNP NOS2 4843 hgsc.bcm.edu 37 17 26085931 26085931 + Silent SNP G G A rs75831953 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 451.0 212.0 422.0 0.0 0.470067 0 . . weak . NOS2 113 . NM_000625 exon26 c.C3330T p.V1110V GTCCTCGACCTGC . PASS Atlas-SNP ARHGEF4 50649 hgsc.bcm.edu 37 2 131803624 131803624 + Silent SNP C C T rs114004756 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 180.0 73.0 166.0 0.0 0.405556 0 C|0.996;T|0.004 0.004 strong . ARHGEF4 89 . NM_015320 exon14 c.C1935T p.P645P CCGGCCCTGCTAC . PASS Atlas-SNP HIST1H2BD 3017 hgsc.bcm.edu 37 6 26158456 26158456 + Missense_Mutation SNP C C T rs62623440 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 145.0 61.0 174.0 0.0 0.42069 0 C|0.990;T|0.010 0.010 strong . HIST1H2BD 45 . NM_021063 exon1 c.C59T p.T20I CGGTGACTAAGGC . PASS Atlas-SNP PSG3 5671 hgsc.bcm.edu 37 19 43237080 43237080 + Missense_Mutation SNP T T C rs76931703 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 235.0 116.0 237.0 0.0 0.493617 0 T|0.988;C|0.012 0.012 strong . PSG3 82 . NM_021016 exon3 c.A565G p.M189V GAGTCATAGGGAG . PASS Atlas-SNP CXCR6 10663 hgsc.bcm.edu 37 3 45987980 45987980 + Missense_Mutation SNP G G A rs2234355 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 137.0 67.0 171.0 0.0 0.489051 0 G|0.857;A|0.143 0.143 strong . CXCR6 17 . NM_006564 exon2 c.G7A p.E3K ATGGCAGAGCATG . PASS Atlas-SNP GNA12 2768 hgsc.bcm.edu 37 7 2834754 2834754 + Silent SNP T T C rs2230877 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 90.0 47.0 70.0 0.0 0.522222 0 T|0.980;C|0.020 0.020 strong . GNA12 35 . NM_007353 exon2 c.A333G p.A111A ATCTCGTGCATCA . PASS Atlas-SNP XRCC4 7518 hgsc.bcm.edu 37 5 82400773 82400773 + Missense_Mutation SNP C C G rs28383138 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 144.0 69.0 136.0 0.0 0.479167 0 C|0.993;G|0.007 0.007 strong . XRCC4 37 . NM_003401 exon2 c.C35G p.S12C TTGTTTCTGAACC . PASS Atlas-SNP VPS13A 23230 hgsc.bcm.edu 37 9 79875104 79875104 + Silent SNP A A G rs73466058 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 150.0 93.0 145.0 0.0 0.62 0 A|0.987;G|0.013 0.013 strong . VPS13A 735 . NM_001018038 exon23 c.A2391G p.P797P TGAACCAGTAACT . PASS Atlas-SNP ITIH6 347365 hgsc.bcm.edu 37 X 54783952 54783952 + Missense_Mutation SNP A A G rs150850201 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 227.0 115.0 153.0 0.0 0.506608 0 A|0.982;G|0.018 0.018 strong . . . . NM_198510 exon8 c.T2555C p.I852T AATAAGATTTTAG . PASS Atlas-SNP CPNE7 27132 hgsc.bcm.edu 37 16 89645360 89645360 + Silent SNP G G A rs149812493 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 86.0 37.0 72.0 0.0 0.430233 0 G|0.988;A|0.012 0.012 strong . CPNE7 56 . NM_014427 exon3 c.G453A p.T151T CTGCACGGAATCC . PASS Atlas-SNP HEXIM2 124790 hgsc.bcm.edu 37 17 43246456 43246456 + Silent SNP G G A rs34207107 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 100.0 101.0 1.0 1 0.00990099 G|0.962;A|0.038 0.038 strong . HEXIM2 19 . NM_144608 exon4 c.G141A p.P47P GACACCGCGGATG . PASS Atlas-SNP KRT32 3882 hgsc.bcm.edu 37 17 39623496 39623496 + Missense_Mutation SNP C C T rs115680799 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 95.0 47.0 80.0 0.0 0.494737 0 C|0.981;T|0.019 0.019 strong . KRT32 57 . NM_002278 exon1 c.G82A p.G28S TCACGCCGCTGGA . PASS Atlas-SNP TSPEAR 54084 hgsc.bcm.edu 37 21 45953576 45953576 + Silent SNP C C T rs148713881 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 101.0 44.0 85.0 0.0 0.435644 0 C|0.990;T|0.010 0.010 strong TSPEAR,caecum,carcinoma,0,1 TSPEAR 110 1 NM_144991 exon3 c.G534A p.P178P GTCCACCGGGAGG . PASS Atlas-SNP PENK 5179 hgsc.bcm.edu 37 8 57354380 57354380 + Silent SNP T T C rs76702938 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 107.0 58.0 115.0 0.0 0.542056 0 T|0.999;C|0.001 0.001 strong . PENK 59 . NM_001135690 exon4 c.A255G p.R85R ATTTTCTCTGAGG . PASS Atlas-SNP RUFY4 285180 hgsc.bcm.edu 37 2 218954716 218954716 + Missense_Mutation SNP A A G rs116710266 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 280.0 153.0 214.0 0.0 0.546429 0 A|0.982;G|0.018 0.018 strong . RUFY4 59 . NM_198483 exon13 c.A1655G p.Y552C TGGATTACAAGAA . PASS Atlas-SNP MUC1 4582 hgsc.bcm.edu 37 1 155161714 155161714 + Missense_Mutation SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 6.0 4.0 5.0 0.0 0.666667 0 . . none . MUC1 94 . NM_001204286 exon2 c.C446T p.S149L GGGGCCGAGGTGA . PASS Atlas-SNP SIDT2 51092 hgsc.bcm.edu 37 11 117050007 117050007 + Missense_Mutation SNP G G A rs61729992 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 44.0 15.0 43.0 0.0 0.340909 0 G|0.991;A|0.009 0.009 strong . SIDT2 82 . NM_001040455 exon1 c.G28A p.V10M TTCTTGGTGCTCT . PASS Atlas-SNP RAB19 401409 hgsc.bcm.edu 37 7 140125878 140125878 + Silent SNP C C T rs4585665 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 91.0 41.0 81.0 0.0 0.450549 0 C|0.989;T|0.011 0.011 strong . RAB19 21 . NM_001008749 exon4 c.C582T p.N194N CCTGAACGGCCTC . PASS Atlas-SNP KRTAP4-11 653240 hgsc.bcm.edu 37 17 39274212 39274212 + Missense_Mutation SNP C C T rs187464255 by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 118.0 37.0 120.0 0.0 0.313559 0 C|0.982;T|0.018 0.018 strong . KRTAP4-11 94 . NM_033059 exon1 c.G356A p.C119Y CTGCAGCAGCTGG . PASS Atlas-SNP ZNF213 7760 hgsc.bcm.edu 37 16 3188789 3188789 + Silent SNP G G A rs35931391 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 112.0 62.0 95.0 0.0 0.553571 0 G|0.949;A|0.051 0.051 strong . ZNF213 36 . NM_004220 exon4 c.G567A p.T189T AGAGACGACGGAC . PASS Atlas-SNP DNAH14 127602 hgsc.bcm.edu 37 1 225339732 225339732 + Missense_Mutation SNP C C T rs115743416 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 126.0 62.0 138.0 0.0 0.492063 0 C|0.993;T|0.007 0.007 strong DNAH14_ENST00000430092,colon,carcinoma,-1,2 DNAH14 300 2 NM_001373 exon31 c.C4915T p.R1639C GAAATTCGTATCA . PASS Atlas-SNP ELMO2 63916 hgsc.bcm.edu 37 20 45014804 45014804 + Silent SNP G G A rs201990540 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 111.0 5.0 95.0 1.0 0.045045 0.0105263 G|0.998;A|0.002 0.002 strong ELMO2,NS,carcinoma,-1,1 ELMO2 51 1 NM_182764 exon8 c.C636T p.A212A TTCCTCGGCTATC . scavenged Atlas-SNP TEAD2 8463 hgsc.bcm.edu 37 19 49852070 49852070 + Missense_Mutation SNP G G A rs201393859 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 127.0 57.0 114.0 0.0 0.448819 0 G|0.995;A|0.005 0.005 strong . TEAD2 70 . NM_001256660 exon9 c.C637T p.P213S GTGGGGGCAGGGG . PASS Atlas-SNP GPRIN3 285513 hgsc.bcm.edu 37 4 90168945 90168945 + Missense_Mutation SNP A A C rs34322172 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 183.0 93.0 173.0 0.0 0.508197 0 A|0.992;C|0.008 0.008 strong . GPRIN3 90 . NM_198281 exon2 c.T2317G p.S773A ACACAGAAGACGG . PASS Atlas-SNP MLKL 197259 hgsc.bcm.edu 37 16 74709233 74709233 + Missense_Mutation SNP C C A rs144526386 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 49.0 103.0 0.0 0.526882 0 C|0.986;A|0.014 0.014 strong . MLKL 51 . NM_001142497 exon4 c.G605T p.G202V GCTGAGCCAGTCT . PASS Atlas-SNP TMEM201 199953 hgsc.bcm.edu 37 1 9671935 9671935 + Silent SNP C C T rs4073292 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 86.0 44.0 82.0 0.0 0.511628 0 C|0.934;T|0.066 0.066 strong . TMEM201 63 . NM_001130924 exon10 c.C1890T p.A630A GGAGGCCGCCACC . PASS Atlas-SNP ZNF195 7748 hgsc.bcm.edu 37 11 3383015 3383015 + Missense_Mutation SNP G G A rs7125523 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 50.0 29.0 39.0 0.0 0.58 0 G|0.980;A|0.020 0.020 strong . ZNF195 77 . NM_001242841 exon5 c.C343T p.R115C GGGCACGGTGGTT . PASS Atlas-SNP RAB11FIP5 26056 hgsc.bcm.edu 37 2 73339675 73339675 + Silent SNP C C T rs143108301 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 69.0 30.0 44.0 0.0 0.434783 0 C|1.000;T|0.000 0.000 weak . RAB11FIP5 66 . NM_015470 exon1 c.G231A p.L77L CGGCGGCAGCTCG . PASS Atlas-SNP FNDC1 84624 hgsc.bcm.edu 37 6 159654408 159654408 + Missense_Mutation SNP G G A rs73799344 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 55.0 25.0 50.0 0.0 0.454545 0 G|0.959;A|0.041 0.041 strong . FNDC1 250 . NM_032532 exon11 c.G2864A p.S955N AACAGAGCACAGA . PASS Atlas-SNP CXCR2 3579 hgsc.bcm.edu 37 2 219000193 219000193 + Silent SNP A A G rs2228414 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 214.0 124.0 253.0 0.0 0.579439 0 A|0.985;G|0.015 0.015 strong . CXCR2 54 . NM_001168298 exon4 c.A669G p.P223P CGTGCCACTGCTG . PASS Atlas-SNP ND3 0 hgsc.bcm.edu 37 MT 10321 10321 + Missense_Mutation SNP T T C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 8.0 8.0 8.0 0.0 1 0 . . none . . . . ENST00000361227 exon1 c.T263C p.V88A TAATAGTTATGTC . PASS Atlas-SNP CEP85L 387119 hgsc.bcm.edu 37 6 118803091 118803091 + Missense_Mutation SNP C C G rs9489410 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 72.0 32.0 59.0 0.0 0.444444 0 C|0.982;G|0.018 0.018 strong . CEP85L 26 . NM_001178035 exon9 c.G1605C p.Q535H CAGAATCTGCAGC . PASS Atlas-SNP PPP1R26 9858 hgsc.bcm.edu 37 9 138379608 138379608 + Silent SNP C C T rs139160467 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 22.0 8.0 24.0 0.0 0.363636 0 C|0.989;T|0.011 0.011 strong . . . . NM_014811 exon4 c.C3252T p.T1084T GTCCACCCAGCTC . PASS Atlas-SNP OR3A1 4994 hgsc.bcm.edu 37 17 3195603 3195603 + Nonsense_Mutation SNP T T A rs7218125 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 277.0 148.0 254.0 0.0 0.534296 0 T|0.972;A|0.028 0.028 strong . OR3A1 46 . NM_002550 exon1 c.A274T p.K92X CACGCTTGCGGGA . PASS Atlas-SNP CYBA 1535 hgsc.bcm.edu 37 16 88713213 88713213 + Silent SNP C C G rs2228472 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 67.0 36.0 65.0 0.0 0.537313 0 C|0.949;G|0.051 0.051 strong . CYBA 12 . NM_000101 exon4 c.G237C p.L79L CCCGAACAGCTTC . PASS Atlas-SNP IFNA10 3446 hgsc.bcm.edu 37 9 21206724 21206724 + Nonsense_Mutation SNP G G A rs145785282 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 702.0 210.0 599.0 0.0 0.299145 0 G|0.996;A|0.004 0.004 strong . IFNA10 29 . NM_002171 exon1 c.C373T p.Q125X CCTCCTGTATCAC . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195507227 195507227 + Missense_Mutation SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 70.0 46.0 283.0 0.0 0.657143 0 . . none MUC4_ENST00000463781,NS,carcinoma,0,2 MUC4 1505 2 NM_018406 exon2 c.G11224A p.V3742I GGGTGACGTGACC . PASS Atlas-SNP PNPLA1 285848 hgsc.bcm.edu 37 6 36269946 36269946 + Missense_Mutation SNP A A G rs145856102 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 133.0 63.0 132.0 0.0 0.473684 0 A|0.998;G|0.002 0.002 strong . PNPLA1 92 . NM_001145717 exon6 c.A1084G p.T362A TCTTCAACTCCAC . PASS Atlas-SNP BRAF 673 hgsc.bcm.edu 37 7 140481425 140481425 + Silent SNP T T C rs56216404 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 112.0 59.0 103.0 0.0 0.526786 0 T|0.995;C|0.005 0.005 strong . BRAF 36346 . NM_004333 exon11 c.A1383G p.Q461Q AATTCTTTGTCCC . PASS Atlas-SNP NPL 80896 hgsc.bcm.edu 37 1 182787797 182787797 + Silent SNP G G A rs58343016 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 60.0 30.0 59.0 0.0 0.5 0 G|0.983;A|0.017 0.017 strong . NPL 55 . NM_001200052 exon9 c.G579A p.Q193Q GCAACAGTTTGCT . PASS Atlas-SNP DGUOK 1716 hgsc.bcm.edu 37 2 74174013 74174013 + Silent SNP G G A rs1804599 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 70.0 38.0 64.0 0.0 0.542857 0 G|0.986;A|0.014 0.014 strong . DGUOK 16 . NM_080918 exon3 c.G423A p.E141E CTTTGAGAGGTCT . PASS Atlas-SNP PRMT10 90826 hgsc.bcm.edu 37 4 148594177 148594177 + Missense_Mutation SNP C C T rs73853975 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 151.0 77.0 114.0 0.0 0.509934 0 C|0.946;T|0.054 0.054 strong . PRMT10 68 . NM_138364 exon4 c.G676A p.E226K CTGCTTCCATCTT . PASS Atlas-SNP AGAP7 653268 hgsc.bcm.edu 37 10 51465429 51465429 + Missense_Mutation SNP C C T rs183573385 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 650.0 348.0 591.0 0.0 0.535385 0 C|0.996;T|0.004 0.004 strong . AGAP7 33 . NM_001077685 exon7 c.G1027A p.D343N CCATGTCCTTGGA . PASS Atlas-SNP CARD14 79092 hgsc.bcm.edu 37 17 78177668 78177668 + Missense_Mutation SNP G G A rs34822755 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 283.0 139.0 287.0 0.0 0.491166 0 G|0.991;A|0.009 0.009 strong . CARD14 98 . NM_024110 exon16 c.G2267A p.C756Y AGCAGTGCACCGT . PASS Atlas-SNP USP24 23358 hgsc.bcm.edu 37 1 55545240 55545240 + Missense_Mutation SNP T T C rs116203669 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 89.0 41.0 81.0 0.0 0.460674 0 T|0.996;C|0.004 0.004 strong . USP24 323 . NM_015306 exon60 c.A7171G p.M2391V CAGACATGAACAA . PASS Atlas-SNP GEMIN4 50628 hgsc.bcm.edu 37 17 650371 650371 + Silent SNP C C T rs61735317 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 118.0 66.0 100.0 0.0 0.559322 0 C|0.978;T|0.022 0.022 strong . GEMIN4 116 . NM_015721 exon2 c.G912A p.S304S GGCCAGCGAGGTC . PASS Atlas-SNP C1orf61 10485 hgsc.bcm.edu 37 1 156377720 156377720 + Silent SNP G G A rs141938076 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 124.0 53.0 106.0 0.0 0.427419 0 G|0.998;A|0.002 0.002 strong . C1orf61 15 . NM_006365 exon5 c.C219T p.S73S CCTGGTGGAGATT . PASS Atlas-SNP LSM4 25804 hgsc.bcm.edu 37 19 18420501 18420501 + Silent SNP G G A rs148380214 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 35.0 26.0 17.0 0.0 0.742857 0 G|0.997;A|0.003 0.003 strong . LSM4 15 . NM_012321 exon4 c.C315T p.G105G AGCGCCGCCCATG . PASS Atlas-SNP RFWD3 55159 hgsc.bcm.edu 37 16 74664698 74664698 + Silent SNP A A G rs78796563 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 75.0 44.0 86.0 1.0 0.586667 0.0116279 A|0.981;G|0.019 0.019 strong RFWD3,NS,carcinoma,0,1 RFWD3 49 1 NM_018124 exon10 c.T1735C p.L579L CTACTAACTCCTG . scavenged Atlas-SNP SENP7 57337 hgsc.bcm.edu 37 3 101090924 101090924 + Missense_Mutation SNP T T A rs116197973 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 158.0 73.0 145.0 0.0 0.462025 0 T|0.988;A|0.012 0.012 strong . SENP7 170 . NM_020654 exon7 c.A724T p.T242S GCGCAGTCTGCTT . PASS Atlas-SNP PRSS38 339501 hgsc.bcm.edu 37 1 228003879 228003879 + Silent SNP C C T rs112241411 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 254.0 131.0 190.0 0.0 0.515748 0 C|0.982;T|0.018 0.018 strong PRSS38,colon,carcinoma,0,1 PRSS38 55 1 NM_183062 exon2 c.C237T p.Y79Y GCACTACGCAGGC . PASS Atlas-SNP DSG1 1828 hgsc.bcm.edu 37 18 28908178 28908178 + Missense_Mutation SNP G G C rs74368609 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 104.0 56.0 81.0 0.0 0.538462 0 G|0.992;C|0.008 0.008 strong . DSG1 176 . NM_001942 exon4 c.G243C p.Q81H AAACCAGCAAGTT . PASS Atlas-SNP KRTAP4-2 85291 hgsc.bcm.edu 37 17 39334314 39334314 + Missense_Mutation SNP A A T rs200720939 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 246.0 26.0 179.0 0.0 0.105691 0 . . weak KRTAP4-2_ENST00000458321,NS,haematopoietic_neoplasm,0,4 KRTAP4-2 93 4 NM_033062 exon1 c.T103A p.C35S GGCAGCAGGTGGT . scavenged Atlas-SNP ARHGAP25 9938 hgsc.bcm.edu 37 2 69049916 69049916 + Missense_Mutation SNP G G A rs61734450 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 68.0 31.0 69.0 0.0 0.455882 0 G|0.998;A|0.002 0.002 strong ARHGAP25,NS,carcinoma,0,1 ARHGAP25 175 1 NM_001007231 exon10 c.G1645A p.E549K GGAGAAGAGGAAA . PASS Atlas-SNP PLEKHM1 9842 hgsc.bcm.edu 37 17 43552942 43552942 + Silent SNP G G A rs71373588 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 281.0 131.0 247.0 1.0 0.466192 0.00404858 G|0.993;A|0.007 0.007 strong . PLEKHM1 69 . NM_014798 exon4 c.C447T p.Y149Y GGGCTGGTAGTAC . PASS Atlas-SNP C20orf27 54976 hgsc.bcm.edu 37 20 3736160 3736160 + Missense_Mutation SNP G G A rs140915844 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 65.0 27.0 48.0 0.0 0.415385 0 G|0.999;A|0.001 0.001 strong . C20orf27 17 . NM_001039140 exon4 c.C332T p.P111L AGGCTGGGGACAG . PASS Atlas-SNP MAATS1 89876 hgsc.bcm.edu 37 3 119466025 119466025 + Missense_Mutation SNP G G A rs9853426 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 146.0 75.0 134.0 0.0 0.513699 0 G|0.983;A|0.017 0.017 strong . . . . NM_033364 exon15 c.G1966A p.A656T ACCGAAGCGAATA . PASS Atlas-SNP TEX13A 56157 hgsc.bcm.edu 37 X 104464674 104464674 + Silent SNP G G A rs183606927 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 80.0 25.0 71.0 0.0 0.3125 0 G|0.992;A|0.008 0.008 strong . TEX13A 55 . NM_031274 exon2 c.C408T p.L136L CTCCACGAGGCTG . PASS Atlas-SNP PIF1 80119 hgsc.bcm.edu 37 15 65112116 65112116 + Silent SNP C C T rs145376177 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 90.0 45.0 71.0 0.0 0.5 0 C|1.000;T|0.000 0.000 weak . PIF1 43 . NM_025049 exon8 c.G1263A p.V421V CGTGGCCACAATC . PASS Atlas-SNP IGFALS 3483 hgsc.bcm.edu 37 16 1842454 1842454 + Missense_Mutation SNP G G A rs34680334 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 13.0 9.0 11.0 0.0 0.692308 0 G|0.947;A|0.053 0.053 strong . IGFALS 29 . NM_001146006 exon2 c.C79T p.H27Y CCGAGTGAGCCTG . PASS Atlas-SNP C5AR2 27202 hgsc.bcm.edu 37 19 47844899 47844899 + Silent SNP C C T rs34085015 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 86.0 48.0 107.0 0.0 0.55814 0 C|0.992;T|0.008 0.008 strong . . . . NM_001271750 exon2 c.C843T p.L281L TGCCCTCGCTCAC . PASS Atlas-SNP MST1L 11223 hgsc.bcm.edu 37 1 17087474 17087474 + Missense_Mutation SNP C C T rs71193817 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 868.0 93.0 684.0 0.0 0.107143 0 C|0.500;T|0.500 0.500 weak . . . . NM_001271733 exon2 c.G191A p.R64H CCACAGCGACCAG . PASS Atlas-SNP KRT31 3881 hgsc.bcm.edu 37 17 39551533 39551533 + Silent SNP G G A rs6503626 bycluster;byfrequency;by2hit2allele;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 210.0 101.0 236.0 0.0 0.480952 0 G|0.988;A|0.012 0.012 strong . KRT31 158 . NM_002277 exon5 c.C840T p.N280N CAGGGCGTTGACT . PASS Atlas-SNP FAM135A 57579 hgsc.bcm.edu 37 6 71235647 71235647 + Missense_Mutation SNP C C T rs16869301 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 99.0 41.0 96.0 0.0 0.414141 0 C|0.974;T|0.026 0.026 strong . FAM135A 181 . NM_001162529 exon13 c.C2860T p.P954S CAGAGTCCTGATA . PASS Atlas-SNP GPR137 56834 hgsc.bcm.edu 37 11 64051853 64051853 + Silent SNP G G A rs75052600 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 48.0 26.0 38.0 0.0 0.541667 0 G|0.986;A|0.014 0.014 strong . GPR137 52 . NM_001170726 exon1 c.G15A p.V5V GGCTGTGAGGACA . PASS Atlas-SNP FAM159A 348378 hgsc.bcm.edu 37 1 53099242 53099242 + Missense_Mutation SNP G G A rs182623287 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 46.0 23.0 41.0 0.0 0.5 0 G|0.999;A|0.001 0.001 strong . FAM159A 22 . NM_001042693 exon1 c.G77A p.G26D CGGGGGGCGAGGC . PASS Atlas-SNP C15orf40 123207 hgsc.bcm.edu 37 15 83673653 83673653 + Silent SNP A A C rs74028206 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 101.0 53.0 122.0 0.0 0.524752 0 A|0.985;C|0.015 0.015 strong . C15orf40 18 . NM_001160114 exon4 c.T438G p.V146V GCATTCAACAAGT . PASS Atlas-SNP KRT33B 3884 hgsc.bcm.edu 37 17 39521752 39521752 + Silent SNP G G A rs61741664 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 200.0 100.0 168.0 0.0 0.5 0 G|0.981;A|0.019 0.019 strong . KRT33B 46 . NM_002279 exon4 c.C642T p.D214D AGCAGCGTCCACC . PASS Atlas-SNP TMEM255B 348013 hgsc.bcm.edu 37 13 114507956 114507956 + Silent SNP G G A rs56032548 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 60.0 29.0 54.0 0.0 0.483333 0 G|0.922;A|0.078 0.078 strong . . . . NM_182614 exon8 c.G768A p.T256T CCTGACGCCCGAG . PASS Atlas-SNP HUS1 3364 hgsc.bcm.edu 37 7 48008869 48008869 + Missense_Mutation SNP G G C rs138848570 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 53.0 21.0 51.0 0.0 0.396226 0 G|0.996;C|0.004 0.004 strong . HUS1 36 . NM_004507 exon6 c.C587G p.T196S AATTCAGTTTCTA . PASS Atlas-SNP OR5D18 219438 hgsc.bcm.edu 37 11 55587591 55587591 + Silent SNP C C T rs142792552 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 345.0 163.0 309.0 1.0 0.472464 0.00323625 C|0.997;T|0.003 0.003 strong . OR5D18 121 . NM_001001952 exon1 c.C486T p.C162C GACGTGCTCTGCT . PASS Atlas-SNP VPS33B 26276 hgsc.bcm.edu 37 15 91550232 91550232 + Silent SNP G G A rs59648701 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 33.0 32.0 14.0 0.0 0.969697 0 G|0.978;A|0.022 0.022 strong . VPS33B 42 . NM_018668 exon9 c.C648T p.G216G GGTTTCGCCATCC . PASS Atlas-SNP LRIG1 26018 hgsc.bcm.edu 37 3 66431280 66431280 + Missense_Mutation SNP C C T rs9877201 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 85.0 36.0 73.0 0.0 0.423529 0 C|0.879;T|0.121 0.121 strong LRIG1,NS,carcinoma,0,1 LRIG1 138 1 NM_015541 exon18 c.G2776A p.G926S GGCCACCGTGTTC . PASS Atlas-SNP CDH13 1012 hgsc.bcm.edu 37 16 83378487 83378487 + Silent SNP T T C rs145120824 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 120.0 48.0 126.0 0.0 0.4 0 T|0.996;C|0.004 0.004 strong . CDH13 97 . NM_001220488 exon7 c.T798C p.D266D CACTGATGTCAAT . PASS Atlas-SNP VASN 114990 hgsc.bcm.edu 37 16 4431880 4431880 + Silent SNP C C T rs13333950 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 58.0 31.0 45.0 0.0 0.534483 0 C|0.962;T|0.038 0.038 strong . VASN 21 . NM_138440 exon2 c.C1002T p.N334N CAAGAACGCTGGC . PASS Atlas-SNP UQCRH 7388 hgsc.bcm.edu 37 1 46775856 46775856 + Nonsense_Mutation SNP C C A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 193.0 100.0 182.0 0.0 0.518135 0 . . none . UQCRH 4 . NM_006004 exon3 c.C111A p.C37X GCAATGCGAGCAG . PASS Atlas-SNP GGTLC1 92086 hgsc.bcm.edu 37 20 23966316 23966316 + Silent SNP T T C rs111546926 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 87.0 45.0 73.0 0.0 0.517241 0 T|0.937;C|0.063 0.063 strong . GGTLC1 37 . NM_178311 exon5 c.A519G p.R173R AATGTTTCTCTCC . PASS Atlas-SNP GIMAP8 155038 hgsc.bcm.edu 37 7 150164189 150164189 + Silent SNP C C A rs143212982 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 201.0 104.0 180.0 0.0 0.517413 0 A|0.002;C|0.998;G|0.001 0.002 strong GIMAP8,NS,carcinoma,-1,1 GIMAP8 136 1 NM_175571 exon2 c.C403A p.R135R TTCACTCGGAAGG . PASS Atlas-SNP PCNT 5116 hgsc.bcm.edu 37 21 47766113 47766113 + Missense_Mutation SNP T T G rs34500739 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 129.0 71.0 100.0 0.0 0.550388 0 T|0.949;G|0.051 0.051 strong . PCNT 283 . NM_006031 exon4 c.T711G p.H237Q CCTGCATCAGAGT . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195508692 195508692 + Missense_Mutation SNP G G C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 115.0 74.0 154.0 1.0 0.643478 0.00649351 . . none MUC4_ENST00000463781,NS,carcinoma,0,1 MUC4 1505 1 NM_018406 exon2 c.C9759G p.D3253E GGAAGTGTCGGTG . scavenged Atlas-SNP PSG2 5670 hgsc.bcm.edu 37 19 43576029 43576029 + Missense_Mutation SNP C C T rs112235686 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 195.0 89.0 194.0 0.0 0.45641 0 C|0.998;T|0.002 0.002 strong PSG2,colon,carcinoma,+1,2 PSG2 84 2 NM_031246 exon4 c.G787A p.A263T AGTTCGCGAAGCA . PASS Atlas-SNP TRPC4 7223 hgsc.bcm.edu 37 13 38211046 38211046 + Silent SNP T T C rs731860 bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 112.0 63.0 102.0 0.0 0.5625 0 T|0.959;C|0.041 0.041 strong . TRPC4 389 . NM_003306 exon11 c.A2943G p.R981R TCACAATCTTGTG . PASS Atlas-SNP TEX33 339669 hgsc.bcm.edu 37 22 37397876 37397876 + Splice_Site SNP A A G rs148258673 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 101.0 44.0 107.0 0.0 0.435644 0 A|0.997;G|0.003 0.003 strong . TEX33 25 . NM_001163857 exon4 c.489+2T>C . TATGACACCTGCT . PASS Atlas-SNP WDR93 56964 hgsc.bcm.edu 37 15 90281381 90281381 + Silent SNP T T C rs35017767 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 153.0 90.0 151.0 0.0 0.588235 0 T|0.955;C|0.045 0.045 strong . WDR93 63 . NM_020212 exon16 c.T1875C p.C625C AAATTGTACCATT . PASS Atlas-SNP SPATA6L 55064 hgsc.bcm.edu 37 9 4625546 4625546 + Silent SNP C C T rs12338523 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 98.0 52.0 78.0 0.0 0.530612 0 C|0.994;T|0.006 0.006 strong . SPATA6L 3 . NM_001039395 exon5 c.G276A p.R92R AGGCCTCCGTGAC . PASS Atlas-SNP DOCK8 81704 hgsc.bcm.edu 37 9 328144 328144 + Silent SNP G G A rs35746964 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 146.0 80.0 157.0 0.0 0.547945 0 G|0.996;A|0.004 0.004 strong DOCK8_ENST00000453981,colon,carcinoma,0,2 DOCK8 401 2 NM_203447 exon9 c.G1017A p.P339P CTACCCGTCCTCA . PASS Atlas-SNP CD1B 910 hgsc.bcm.edu 37 1 158299299 158299299 + Silent SNP C C T rs11806249 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 325.0 151.0 286.0 0.0 0.464615 0 C|0.984;T|0.016 0.016 strong . CD1B 78 . NM_001764 exon4 c.G747A p.Q249Q CCCTAGCTGAGTG . PASS Atlas-SNP ZFYVE19 84936 hgsc.bcm.edu 37 15 41105979 41105979 + Silent SNP C C G rs116749518 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 51.0 90.0 0.0 0.51 0 C|0.997;G|0.003 0.003 strong . ZFYVE19 31 . NM_001077268 exon9 c.C1179G p.P393P TCGACCCTGGACG . PASS Atlas-SNP BBS9 27241 hgsc.bcm.edu 37 7 33545253 33545253 + Missense_Mutation SNP A A G rs140882212 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 59.0 34.0 41.0 0.0 0.576271 0 A|1.000;G|0.000 0.000 strong . BBS9 194 . NM_198428 exon20 c.A2294G p.E765G CTCAAGAATTGGT . PASS Atlas-SNP XYLT2 64132 hgsc.bcm.edu 37 17 48434008 48434008 + Missense_Mutation SNP C C T rs151294421 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 21.0 9.0 35.0 0.0 0.428571 0 C|0.996;T|0.004 0.004 strong . XYLT2 51 . NM_022167 exon8 c.C1619T p.T540I AGAACACCTACGA . PASS Atlas-SNP ITPRIPL2 162073 hgsc.bcm.edu 37 16 19126578 19126578 + Silent SNP T T C rs114869688 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 88.0 38.0 106.0 0.0 0.431818 0 T|0.995;C|0.005 0.005 strong ITPRIPL2,colon,carcinoma,+1,1 ITPRIPL2 40 1 NM_001034841 exon1 c.T795C p.T265T GGCCACTGTGCGT . PASS Atlas-SNP VRK2 7444 hgsc.bcm.edu 37 2 58350340 58350340 + Silent SNP T T C rs17049354 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 72.0 38.0 76.0 0.0 0.527778 0 T|0.962;C|0.038 0.038 strong . VRK2 46 . NM_001130480 exon8 c.T648C p.F216F AGAGTTTACCAGC . PASS Atlas-SNP FGF12 2257 hgsc.bcm.edu 37 3 192078253 192078253 + Missense_Mutation SNP T T C rs142373936 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 213.0 92.0 214.0 0.0 0.431925 0 T|1.000;C|0.000 0.000 strong . FGF12 88 . NM_021032 exon2 c.A274G p.T92A CAATGGTACCATC . PASS Atlas-SNP PKHD1L1 93035 hgsc.bcm.edu 37 8 110491801 110491801 + Silent SNP T T C rs116618272 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 87.0 40.0 89.0 0.0 0.45977 0 T|0.993;C|0.007 0.007 strong . PKHD1L1 522 . NM_177531 exon54 c.T9111C p.F3037F TTCTTTTTGGCAA . PASS Atlas-SNP KRTAP9-2 83899 hgsc.bcm.edu 37 17 39383351 39383351 + Missense_Mutation SNP T T C rs146532415 byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 400.0 149.0 336.0 1.0 0.3725 0.00297619 T|0.993;C|0.007 0.007 strong . KRTAP9-2 24 . NM_031961 exon1 c.T445C p.C149R CCAGCCTGCTGTG . PASS Atlas-SNP CRYZ 1429 hgsc.bcm.edu 37 1 75175865 75175865 + Missense_Mutation SNP C C T rs17095822 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 303.0 145.0 229.0 0.0 0.478548 0 C|0.979;T|0.021 0.021 strong . CRYZ 28 . NM_001130043 exon6 c.G547A p.E183K CTTCCTCAGTACC . PASS Atlas-SNP CYP4F12 66002 hgsc.bcm.edu 37 19 15794411 15794411 + Silent SNP C C T rs61731191 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 210.0 58.0 140.0 0.0 0.27619 0 C|0.985;T|0.015 0.015 strong . CYP4F12 89 . NM_023944 exon7 c.C756T p.D252D CCATGACGGGCGG . PASS Atlas-SNP HELT 391723 hgsc.bcm.edu 37 4 185940196 185940196 + Silent SNP A A T rs370662812 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 114.0 60.0 112.0 0.0 0.526316 0 . . weak . HELT 34 . NM_001029887 exon1 c.A114T p.A38A GATGGCAGGGAAG . PASS Atlas-SNP SEL1L3 23231 hgsc.bcm.edu 37 4 25849329 25849329 + Missense_Mutation SNP T T C rs16877661 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 103.0 52.0 107.0 0.0 0.504854 0 T|0.984;C|0.016 0.016 strong . SEL1L3 62 . NM_015187 exon2 c.A320G p.Q107R CAAGGCTGAGAGC . PASS Atlas-SNP MPZL3 196264 hgsc.bcm.edu 37 11 118100634 118100634 + Missense_Mutation SNP T T A rs7105729 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 74.0 49.0 69.0 0.0 0.662162 0 T|0.954;A|0.046 0.046 strong . MPZL3 22 . NM_198275 exon6 c.A683T p.D228V TCTGAATCCTGGA . PASS Atlas-SNP NCOR1 9611 hgsc.bcm.edu 37 17 15968887 15968887 + Silent SNP T T C rs7210057 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 314.0 150.0 299.0 1.0 0.477707 0.00334448 T|0.979;C|0.021 0.021 strong . NCOR1 240 . NM_001190440 exon32 c.A4911G p.Q1637Q CATCTGTTGTGAG . PASS Atlas-SNP C5orf47 133491 hgsc.bcm.edu 37 5 173416508 173416508 + Missense_Mutation SNP C C T rs115473626 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 49.0 21.0 55.0 0.0 0.428571 0 C|0.984;T|0.016 0.016 strong . C5orf47 14 . NM_001144954 exon1 c.C242T p.P81L CGACCCCTGGTGT . PASS Atlas-SNP C10orf95 79946 hgsc.bcm.edu 37 10 104210861 104210861 + Missense_Mutation SNP C C A rs73349055 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 16.0 7.0 27.0 0.0 0.4375 0 C|0.954;A|0.046 0.046 strong . C10orf95 5 . NM_024886 exon2 c.G127T p.G43W GGCCCCCCAGGCG . PASS Atlas-SNP LAMA1 284217 hgsc.bcm.edu 37 18 6961950 6961950 + Silent SNP T T C rs145257845 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 300.0 163.0 310.0 0.0 0.543333 0 T|0.998;C|0.002 0.002 strong . LAMA1 458 . NM_005559 exon52 c.A7446G p.L2482L CTCCAGTAAACAG . PASS Atlas-SNP IL16 3603 hgsc.bcm.edu 37 15 81592384 81592384 + Missense_Mutation SNP C C T rs17875513 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 50.0 21.0 58.0 0.0 0.42 0 C|0.955;T|0.045 0.045 strong . IL16 254 . NM_001172128 exon14 c.C2717T p.S906L TGTCCTCGGGGTC . PASS Atlas-SNP ZYG11B 79699 hgsc.bcm.edu 37 1 53262456 53262456 + Silent SNP G G A rs11206020 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 131.0 55.0 126.0 0.0 0.419847 0 G|0.962;A|0.038 0.038 strong . ZYG11B 61 . NM_024646 exon8 c.G1485A p.R495R TGTCAGGGTAAGT . PASS Atlas-SNP CLTCL1 8218 hgsc.bcm.edu 37 22 19196449 19196449 + Missense_Mutation SNP T T C rs182543131 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 96.0 53.0 103.0 0.0 0.552083 0 T|0.999;C|0.001 0.001 strong . CLTCL1 115 . NM_001835 exon21 c.A3425G p.Q1142R GCTGACTGAACAA . PASS Atlas-SNP BCO2 83875 hgsc.bcm.edu 37 11 112071464 112071464 + Missense_Mutation SNP C C T rs115780398 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 64.0 35.0 78.0 0.0 0.546875 0 C|0.994;T|0.006 0.006 strong BCO2,colon,carcinoma,0,1 BCO2 44 1 NM_031938 exon7 c.C994T p.R332W AATACGCGGTTTC . PASS Atlas-SNP KNDC1 85442 hgsc.bcm.edu 37 10 135012583 135012583 + Missense_Mutation SNP C C A rs111276772 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 55.0 28.0 23.0 0.0 0.509091 0 C|0.983;A|0.017 0.017 strong . KNDC1 155 . NM_152643 exon14 c.C2571A p.D857E TGATGACCAGAGT . PASS Atlas-SNP SCN9A 6335 hgsc.bcm.edu 37 2 167145106 167145106 + Silent SNP C C A rs58465962 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 50.0 50.0 89.0 0.0 1 0 C|0.964;A|0.036 0.036 strong . SCN9A 296 . NM_002977 exon10 c.G1155T p.V385V GAAAATCACTACG . PASS Atlas-SNP NOTCH2 4853 hgsc.bcm.edu 37 1 120480583 120480583 + Silent SNP G G A rs7543643 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 123.0 62.0 135.0 0.0 0.504065 0 G|0.925;A|0.075 0.075 strong . NOTCH2 348 . NM_001200001 exon20 c.C3234T p.C1078C CTGAACGCAAGTA . PASS Atlas-SNP CNGA2 1260 hgsc.bcm.edu 37 X 150912171 150912171 + Missense_Mutation SNP G G A rs150539917 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 80.0 34.0 91.0 0.0 0.425 0 G|0.964;A|0.036 0.036 strong . CNGA2 136 . NM_005140 exon7 c.G1196A p.R399Q AGTTCCGAAAGGT . PASS Atlas-SNP CYP4F12 66002 hgsc.bcm.edu 37 19 15791074 15791074 + Missense_Mutation SNP A A G rs114254919 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 372.0 95.0 266.0 0.0 0.255376 0 A|0.989;G|0.011 0.011 strong CYP4F12,colon,carcinoma,-1,1 CYP4F12 89 1 NM_023944 exon4 c.A364G p.N122D AAGGATAATCTCT . PASS Atlas-SNP CNGB1 1258 hgsc.bcm.edu 37 16 57935443 57935443 + Missense_Mutation SNP C C A rs16942445 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 46.0 97.0 0.0 0.494624 0 C|0.957;A|0.043 0.043 strong . CNGB1 105 . NM_001297 exon28 c.G2881T p.A961S AGAGTGCGACTTT . PASS Atlas-SNP SSPO 23145 hgsc.bcm.edu 37 7 149489037 149489037 + Missense_Mutation SNP T T C rs1635802 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 75.0 38.0 60.0 0.0 0.506667 0 T|0.977;C|0.023 0.023 strong . . . . NM_198455 exon35 c.T5378C p.L1793P GAGGCCTGCACAG . PASS Atlas-SNP ND4 0 hgsc.bcm.edu 37 MT 12049 12049 + Silent SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 10.0 10.0 5.0 0.0 1 0 . . none . . . . ENST00000361381 exon1 c.C1290T p.F430F CTCATTCACACGA . PASS Atlas-SNP ZNF362 149076 hgsc.bcm.edu 37 1 33745781 33745781 + Missense_Mutation SNP G G A rs143005937 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 137.0 81.0 103.0 0.0 0.591241 0 G|0.989;A|0.011 0.011 strong . ZNF362 31 . NM_152493 exon5 c.G406A p.A136T GCGGGCGCGGGCA . PASS Atlas-SNP MYO5B 4645 hgsc.bcm.edu 37 18 47506874 47506874 + Silent SNP G G T rs16951352 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 134.0 60.0 139.0 0.0 0.447761 0 G|0.993;T|0.007 0.007 strong . MYO5B 178 . NM_001080467 exon9 c.C996A p.I332I GTGCAAGATAGAA . PASS Atlas-SNP KRTAP10-12 386685 hgsc.bcm.edu 37 21 46117553 46117553 + Missense_Mutation SNP C C A rs35076450 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 265.0 136.0 221.0 1.0 0.513208 0.00452489 C|0.995;A|0.005 0.005 strong . KRTAP10-12 21 . NM_198699 exon1 c.C437A p.P146Q CCTCCCCGTGTCA . PASS Atlas-SNP POLRMT 5442 hgsc.bcm.edu 37 19 617573 617573 + Missense_Mutation SNP G G A rs142850300 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 38.0 25.0 37.0 0.0 0.657895 0 G|0.995;A|0.005 0.005 strong . POLRMT 91 . NM_005035 exon19 c.C3578T p.S1193F TACTCAGAGCAGA . PASS Atlas-SNP C2orf43 60526 hgsc.bcm.edu 37 2 20886706 20886706 + Missense_Mutation SNP T T C rs147773589 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 167.0 89.0 191.0 0.0 0.532934 0 T|0.998;C|0.002 0.002 strong . C2orf43 28 . NM_021925 exon7 c.A935G p.D312G ATCATGTCTGCCA . PASS Atlas-SNP KIF1C 10749 hgsc.bcm.edu 37 17 4918122 4918122 + Silent SNP A A G rs57144955 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 63.0 30.0 76.0 0.0 0.47619 0 A|0.964;G|0.036 0.036 strong . KIF1C 70 . NM_006612 exon18 c.A1656G p.P552P CCAGCCAGATGGA . PASS Atlas-SNP PDE4DIP 9659 hgsc.bcm.edu 37 1 144852477 144852477 + Missense_Mutation SNP G G A rs148370554 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 118.0 6.0 83.0 0.0 0.0508475 0 . . weak . PDE4DIP 817 . NM_014644 exon44 c.C7022T p.P2341L GTACATGGCAGAG . PASS Atlas-SNP SHROOM3 57619 hgsc.bcm.edu 37 4 77476809 77476809 + Silent SNP T T C rs75039400 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 95.0 40.0 64.0 0.0 0.421053 0 T|0.980;C|0.020 0.020 strong . SHROOM3 134 . NM_020859 exon2 c.T216C p.A72A GCAGGCTGGGGAT . PASS Atlas-SNP ADD2 119 hgsc.bcm.edu 37 2 70933494 70933494 + Missense_Mutation SNP T T C rs201443444 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 111.0 54.0 111.0 0.0 0.486486 0 T|0.978;C|0.022 0.022 strong . ADD2 261 . NM_001185055 exon2 c.A95G p.Q32R TGCCCCTGCGGGG . PASS Atlas-SNP NLRP6 171389 hgsc.bcm.edu 37 11 284477 284477 + Missense_Mutation SNP T T C rs74044411 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 79.0 30.0 87.0 0.0 0.379747 0 T|0.940;C|0.060 0.060 strong . NLRP6 4 . NM_138329 exon7 c.T2375C p.V792A ACAGGGTACAGCT . PASS Atlas-SNP TMEFF2 23671 hgsc.bcm.edu 37 2 192922499 192922499 + Missense_Mutation SNP G G A rs61744272 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 128.0 68.0 130.0 0.0 0.53125 0 G|0.982;A|0.018 0.018 strong . TMEFF2 54 . NM_016192 exon5 c.C442T p.H148Y CTTCATGGACTGT . PASS Atlas-SNP KRTAP10-10 353333 hgsc.bcm.edu 37 21 46057343 46057343 + Silent SNP C C A rs76468958 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 219.0 103.0 192.0 0.0 0.47032 0 C|0.960;A|0.040 0.040 strong . KRTAP10-10 37 . NM_181688 exon1 c.C9A p.A3A GGCCGCCTCCACC . PASS Atlas-SNP PARP15 165631 hgsc.bcm.edu 37 3 122354796 122354796 + Missense_Mutation SNP G G C rs145474072 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 115.0 58.0 127.0 0.0 0.504348 0 G|0.995;C|0.005 0.005 strong . PARP15 115 . NM_001113523 exon12 c.G1886C p.R629P AGGGACGTGCAGG . PASS Atlas-SNP CUL5 8065 hgsc.bcm.edu 37 11 107943124 107943124 + Silent SNP T T C rs111339569 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 62.0 28.0 81.0 0.0 0.451613 0 T|0.987;C|0.013 0.013 strong . CUL5 71 . NM_003478 exon9 c.T940C p.L314L AAAGACTTGGAGG . PASS Atlas-SNP OR5AK2 390181 hgsc.bcm.edu 37 11 56756565 56756565 + Silent SNP G G A rs62001001 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 251.0 116.0 247.0 0.0 0.462151 0 G|0.987;A|0.013 0.013 strong OR5AK2,NS,carcinoma,0,1 OR5AK2 45 1 NM_001005323 exon1 c.G177A p.T59T ACTCACGTACTTT . PASS Atlas-SNP SPEG 10290 hgsc.bcm.edu 37 2 220347907 220347907 + Missense_Mutation SNP A A G rs200747365 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 84.0 42.0 88.0 0.0 0.5 0 A|1.000;G|0.000 0.000 strong . SPEG 272 . NM_005876 exon30 c.A5722G p.M1908V GTGACCATGCCCA . PASS Atlas-SNP C21orf2 755 hgsc.bcm.edu 37 21 45755646 45755646 + Silent SNP C C T rs146104157 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 178.0 79.0 140.0 0.0 0.44382 0 C|0.997;T|0.003 0.003 strong . C21orf2 10 . NM_004928 exon3 c.G138A p.T46T CCTGAGCGTGATC . PASS Atlas-SNP ZMIZ2 83637 hgsc.bcm.edu 37 7 44804989 44804989 + Missense_Mutation SNP G G A rs114574038 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 77.0 34.0 68.0 0.0 0.441558 0 G|0.990;A|0.010 0.010 strong . ZMIZ2 82 . NM_031449 exon16 c.G2053A p.V685M GTGCCCGTGAAGC . PASS Atlas-SNP ARHGEF2 9181 hgsc.bcm.edu 37 1 155935158 155935158 + Silent SNP T T C rs149517516 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 170.0 87.0 158.0 0.0 0.511765 0 T|0.995;C|0.005 0.005 strong . ARHGEF2 81 . NM_001162383 exon6 c.A516G p.S172S GGACTGTGAGAGG . PASS Atlas-SNP STK32C 282974 hgsc.bcm.edu 37 10 134038817 134038817 + Missense_Mutation SNP C C T rs148669059 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 102.0 54.0 137.0 0.0 0.529412 0 C|0.996;T|0.004 0.004 strong . STK32C 61 . NM_173575 exon7 c.G796A p.V266I CGTTGACAAAAGA . PASS Atlas-SNP CST4 1472 hgsc.bcm.edu 37 20 23669598 23669598 + Silent SNP C C T rs73902132 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 109.0 40.0 93.0 0.0 0.366972 0 C|0.964;T|0.036 0.036 strong . CST4 37 . NM_001899 exon1 c.G9A p.R3R CAGAGGCCGGGCC . PASS Atlas-SNP LUZP6 767558 hgsc.bcm.edu 37 7 135612057 135612057 + Missense_Mutation SNP G G C rs78834486 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 61.0 33.0 80.0 0.0 0.540984 0 G|0.993;C|0.007 0.007 strong . . . . NM_001128619 exon4 c.C142G p.P48A TACTTGGGATATT . PASS Atlas-SNP ZNF93 81931 hgsc.bcm.edu 37 19 20044886 20044886 + Silent SNP T T C rs10401345 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 81.0 81.0 65.0 0.0 1 0 T|0.908;C|0.092 0.092 strong ZNF93,NS,carcinoma,0,1 ZNF93 81 1 NM_031218 exon4 c.T1122C p.C374C AGAATGTGGCAAA . PASS Atlas-SNP CEP68 23177 hgsc.bcm.edu 37 2 65298657 65298657 + Missense_Mutation SNP A A G rs13389745 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 202.0 101.0 163.0 0.0 0.5 0 A|0.929;G|0.071 0.071 strong . CEP68 69 . NM_015147 exon3 c.A427G p.I143V ACAACTATTTGCT . PASS Atlas-SNP APBA2 321 hgsc.bcm.edu 37 15 29398914 29398914 + Silent SNP C C T rs8032178 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 222.0 107.0 231.0 0.0 0.481982 0 C|0.932;T|0.068 0.068 strong . APBA2 132 . NM_005503 exon11 c.C1809T p.G603G GAATGGCGGCCCG . PASS Atlas-SNP ABHD12 26090 hgsc.bcm.edu 37 20 25319977 25319977 + Missense_Mutation SNP C C T rs11904930 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 108.0 48.0 126.0 0.0 0.444444 0 C|0.993;T|0.007 0.007 strong . ABHD12 46 . NM_001042472 exon2 c.G202A p.V68M ACCACACGCCCTT . PASS Atlas-SNP EVPL 2125 hgsc.bcm.edu 37 17 74006079 74006079 + Silent SNP G G A rs79450818 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 115.0 70.0 107.0 0.0 0.608696 0 G|0.987;A|0.013 0.013 strong . EVPL 155 . NM_001988 exon22 c.C3207T p.D1069D CTTCACGTCCACC . PASS Atlas-SNP TENM3 55714 hgsc.bcm.edu 37 4 183720831 183720831 + Missense_Mutation SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 10.0 8.0 3.0 0.0 0.8 0 . . none . . . . NM_001080477 exon27 c.G7427A p.S2476N AGGTGAGCCGGCG . PASS Atlas-SNP SLC2A7 155184 hgsc.bcm.edu 37 1 9083094 9083094 + Missense_Mutation SNP G G T rs61744620 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 83.0 45.0 77.0 0.0 0.542169 0 G|0.974;T|0.026 0.026 strong SLC2A7,rectum,carcinoma,-1,2 SLC2A7 56 2 NM_207420 exon3 c.C194A p.A65E AATGTTGCGTGTC . PASS Atlas-SNP GABRG3 2567 hgsc.bcm.edu 37 15 27777751 27777751 + Silent SNP T T C rs16950126 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 147.0 75.0 99.0 0.0 0.510204 0 T|0.932;C|0.068 0.068 strong . GABRG3 115 . NM_033223 exon10 c.T1128C p.Y376Y GAACTATTCCCTC . PASS Atlas-SNP IPO13 9670 hgsc.bcm.edu 37 1 44433055 44433055 + Silent SNP G G A rs34392712 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 117.0 59.0 98.0 0.0 0.504274 0 G|0.989;A|0.011 0.011 strong . IPO13 86 . NM_014652 exon19 c.G2682A p.K894K GAACAAGCACTGC . PASS Atlas-SNP AHNAK2 113146 hgsc.bcm.edu 37 14 105411096 105411096 + Missense_Mutation SNP T T G rs146355838 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 254.0 252.0 238.0 2.0 0.992126 0.00840336 T|0.971;G|0.029 0.029 strong . AHNAK2 719 . NM_138420 exon7 c.A10692C p.L3564F CGTCTTTAAACTG . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195511781 195511781 + Missense_Mutation SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 187.0 47.0 404.0 1.0 0.251337 0.00247525 . . none MUC4_ENST00000463781,NS,carcinoma,+1,3 MUC4 1505 3 NM_018406 exon2 c.C6670T p.P2224S GAAGAGGGATGGC . PASS Atlas-SNP SLC22A24 283238 hgsc.bcm.edu 37 11 62886706 62886706 + Missense_Mutation SNP C C T rs116063135 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 162.0 84.0 165.0 0.0 0.518519 0 C|0.988;T|0.012 0.012 strong . SLC22A24 31 . NM_001136506 exon3 c.G608A p.R203H AAGAAGCGCAGTA . PASS Atlas-SNP NEIL3 55247 hgsc.bcm.edu 37 4 178257364 178257364 + Missense_Mutation SNP G G C rs17064658 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 88.0 41.0 95.0 0.0 0.465909 0 G|0.975;C|0.025 0.025 strong . NEIL3 89 . NM_018248 exon4 c.G516C p.Q172H AAAACAGAAAGGC . PASS Atlas-SNP DNMT3B 1789 hgsc.bcm.edu 37 20 31388080 31388080 + Silent SNP C C T rs17123657 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 106.0 56.0 94.0 0.0 0.528302 0 C|0.944;T|0.056 0.056 strong DNMT3B_ENST00000201963,NS,carcinoma,+2,4 DNMT3B 196 4 NM_006892 exon17 c.C1881T p.D627D GAACGACGTGAGG . PASS Atlas-SNP TNFRSF25 8718 hgsc.bcm.edu 37 1 6525257 6525257 + Silent SNP C C T rs45438594 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 88.0 49.0 115.0 0.0 0.556818 0 C|0.965;T|0.035 0.035 strong . TNFRSF25 22 . NM_148966 exon3 c.G186A p.T62T GGGCTCCGTGCAA . PASS Atlas-SNP SLMAP 7871 hgsc.bcm.edu 37 3 57743531 57743531 + Silent SNP A A G rs147270008 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 223.0 106.0 224.0 0.0 0.475336 0 A|1.000;G|0.000 0.000 weak . SLMAP 46 . NM_007159 exon1 c.A153G p.L51L AGTGCTATCAAGG . PASS Atlas-SNP AURKC 6795 hgsc.bcm.edu 37 19 57743518 57743518 + Silent SNP C C T rs142351971 byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 66.0 19.0 68.0 0.0 0.287879 0 C|0.999;T|0.001 0.001 strong AURKC_ENST00000302804,colon,carcinoma,+2,2 AURKC 97 2 NM_001015878 exon3 c.C222T p.L74L GGTTCTCTTCAAG . PASS Atlas-SNP KIAA1755 85449 hgsc.bcm.edu 37 20 36841536 36841536 + Missense_Mutation SNP G G A rs142596886 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 56.0 23.0 72.0 0.0 0.410714 0 G|0.999;A|0.001 0.001 strong . KIAA1755 145 . NM_001029864 exon14 c.C3511T p.R1171C TGAGGCGAGGGAC . PASS Atlas-SNP FANCA 2175 hgsc.bcm.edu 37 16 89839752 89839752 + Silent SNP C C T rs17232917 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 94.0 52.0 90.0 0.0 0.553191 0 C|0.960;T|0.040 0.040 strong . FANCA 99 . NM_000135 exon22 c.G1941A p.E647E GGGCTCCTCAGCA . PASS Atlas-SNP EFCAB13 124989 hgsc.bcm.edu 37 17 45471443 45471443 + Silent SNP G G A rs7217678 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 159.0 68.0 162.0 0.0 0.427673 0 G|0.977;A|0.023 0.023 strong C17orf57,NS,carcinoma,+1,1 . . 1 NM_152347 exon16 c.G1779A p.T593T CAACACGGAATGC . PASS Atlas-SNP ZC3H4 23211 hgsc.bcm.edu 37 19 47575291 47575291 + Silent SNP A A G rs79459609 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 97.0 50.0 117.0 0.0 0.515464 0 A|0.983;G|0.017 0.017 strong . ZC3H4 96 . NM_015168 exon13 c.T1890C p.P630P CATGTCAGGATGC . PASS Atlas-SNP RAD21 5885 hgsc.bcm.edu 37 8 117864867 117864867 + Missense_Mutation SNP A A C rs75160167 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 203.0 86.0 197.0 0.0 0.423645 0 A|0.992;C|0.008 0.008 strong . RAD21 95 . NM_006265 exon10 c.T1242G p.D414E GAATTCATCCAAA . PASS Atlas-SNP CXXC1 30827 hgsc.bcm.edu 37 18 47809710 47809710 + Silent SNP A A G rs150530383 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 147.0 74.0 108.0 0.0 0.503401 0 A|0.999;G|0.001 0.001 strong . CXXC1 50 . NM_001101654 exon13 c.T1608C p.D536D ATACACATCACAG . PASS Atlas-SNP ARHGAP20 57569 hgsc.bcm.edu 37 11 110451470 110451470 + Missense_Mutation SNP T T C rs151169911 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 127.0 58.0 164.0 0.0 0.456693 0 T|0.999;C|0.001 0.001 strong . ARHGAP20 150 . NM_020809 exon16 c.A2200G p.I734V AAAGAATTGCATC . PASS Atlas-SNP OTOF 9381 hgsc.bcm.edu 37 2 26699033 26699033 + Silent SNP G G A rs73920285 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 91.0 38.0 85.0 0.0 0.417582 0 G|0.953;A|0.047 0.047 strong OTOF_ENST00000402415,NS,carcinoma,0,3 OTOF 524 3 NM_194248 exon23 c.C2829T p.G943G ATGCAGGCCCAGG . PASS Atlas-SNP CASP5 838 hgsc.bcm.edu 37 11 104871193 104871193 + Silent SNP A A G rs45501691 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 118.0 68.0 139.0 0.0 0.576271 0 A|0.954;G|0.046 0.046 strong . CASP5 213 . NM_001136112 exon6 c.T786C p.A262A TCTGGCAGCAAAT . PASS Atlas-SNP NLRC5 84166 hgsc.bcm.edu 37 16 57060136 57060136 + Missense_Mutation SNP G G T rs149735722 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 46.0 19.0 44.0 1.0 0.413043 0.0227273 G|0.998;T|0.002 0.002 strong NLRC5,NS,carcinoma,+1,1 NLRC5 186 1 NM_032206 exon5 c.G1281T p.Q427H AGGCCAGTCTGTG . scavenged Atlas-SNP ZNF559 84527 hgsc.bcm.edu 37 19 9453160 9453160 + Nonsense_Mutation SNP C C T rs150358404 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 59.0 33.0 49.0 0.0 0.559322 0 C|0.999;T|0.001 0.001 strong ZNF559,NS,carcinoma,-1,4 ZNF559 77 4 NM_001202406 exon6 c.C1225T p.R409X CACAGGCGAACTC . PASS Atlas-SNP ZNF330 27309 hgsc.bcm.edu 37 4 142155072 142155072 + Missense_Mutation SNP T T A rs34631212 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 164.0 74.0 131.0 0.0 0.451219 0 T|0.968;A|0.032 0.032 strong . ZNF330 31 . NM_014487 exon10 c.T892A p.L298M TCAGATTTGTTTA . PASS Atlas-SNP SLCO1B1 10599 hgsc.bcm.edu 37 12 21358933 21358933 + Missense_Mutation SNP G G C rs59502379 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 150.0 55.0 156.0 0.0 0.366667 0 G|0.988;C|0.012 0.012 strong . SLCO1B1 151 . NM_006446 exon11 c.G1463C p.G488A TAGCAGGTTGCAA . PASS Atlas-SNP KITLG 4254 hgsc.bcm.edu 37 12 88912624 88912624 + Silent SNP G G A rs17015782 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 94.0 41.0 83.0 0.0 0.43617 0 G|0.988;A|0.012 0.012 strong . KITLG 26 . NM_003994 exon4 c.C213T p.S71S CATCTCGCTTATC . PASS Atlas-SNP HGF 3082 hgsc.bcm.edu 37 7 81388042 81388042 + Silent SNP T T C rs5745635 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 148.0 148.0 159.0 0.0 1 0 T|0.896;C|0.104 0.104 strong HGF,spleen,lymphoid_neoplasm,-2,1 HGF 171 1 NM_000601 exon3 c.A333G p.E111E GCCAAATTCTTTT . PASS Atlas-SNP HSD17B11 51170 hgsc.bcm.edu 37 4 88278484 88278484 + Silent SNP T T G rs34025653 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 176.0 68.0 179.0 0.0 0.386364 0 T|0.938;G|0.062 0.062 strong . HSD17B11 28 . NM_016245 exon5 c.A642C p.T214T CAGACATGTTGTT . PASS Atlas-SNP SMTNL2 342527 hgsc.bcm.edu 37 17 4497137 4497137 + Missense_Mutation SNP T T C rs9916524 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 118.0 45.0 129.0 0.0 0.381356 0 T|0.951;C|0.049 0.049 strong . SMTNL2 57 . NM_001114974 exon4 c.T751C p.W251R TTCACGTGGTCTG . PASS Atlas-SNP LDB3 11155 hgsc.bcm.edu 37 10 88476458 88476458 + Missense_Mutation SNP G G A rs113817827 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 235.0 105.0 251.0 0.0 0.446809 0 G|0.998;A|0.002 0.002 strong . LDB3 164 . NM_001171610 exon10 c.G1621A p.V541I GGGACCGTCCAGA . PASS Atlas-SNP B4GALNT4 338707 hgsc.bcm.edu 37 11 380390 380390 + Silent SNP C C T rs115057328 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 104.0 64.0 73.0 0.0 0.615385 0 C|0.995;T|0.005 0.005 strong . B4GALNT4 83 . NM_178537 exon18 c.C2814T p.A938A GCTGGCCTTCGCG . PASS Atlas-SNP NSUN2 54888 hgsc.bcm.edu 37 5 6622139 6622139 + Silent SNP G G T rs148924682 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 109.0 48.0 118.0 0.0 0.440367 0 G|0.990;T|0.010 0.010 strong NSUN2,NS,carcinoma,-1,1 NSUN2 82 1 NM_017755 exon6 c.C612A p.V204V AAAGGGGACATTC . PASS Atlas-SNP UPK3A 7380 hgsc.bcm.edu 37 22 45683309 45683309 + Silent SNP C C T rs62001037 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 67.0 30.0 67.0 0.0 0.447761 0 C|0.973;T|0.027 0.027 strong . UPK3A 14 . NM_006953 exon3 c.C465T p.P155P CGCACCCCTGTCG . PASS Atlas-SNP LRRC24 441381 hgsc.bcm.edu 37 8 145748075 145748075 + Silent SNP T T G rs112652028 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 53.0 21.0 49.0 0.0 0.396226 0 T|0.986;G|0.014 0.014 strong . LRRC24 11 . NM_001024678 exon5 c.A1326C p.G442G CAGCGCTCCCTCC . PASS Atlas-SNP OR2K2 26248 hgsc.bcm.edu 37 9 114090277 114090277 + Missense_Mutation SNP G G A rs73656223 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 78.0 44.0 85.0 0.0 0.564103 0 G|0.982;A|0.018 0.018 strong . OR2K2 77 . NM_205859 exon1 c.C437T p.T146M GAGACCGTAGCCA . PASS Atlas-SNP PAPL 0 hgsc.bcm.edu 37 19 39575987 39575987 + Silent SNP G G A rs544041 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 122.0 121.0 126.0 0.0 0.991803 0 G|0.870;A|0.130 0.130 strong . . . . NM_001004318 exon2 c.G78A p.G26G CCTGGGGGCTCCC . PASS Atlas-SNP GMPPA 29926 hgsc.bcm.edu 37 2 220370746 220370746 + Silent SNP G G A rs13428617 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 72.0 32.0 57.0 0.0 0.444444 0 G|0.979;A|0.021 0.021 strong . GMPPA 50 . NM_205847 exon11 c.G945A p.E315E GGGTGAGGGTGTG . PASS Atlas-SNP C21orf2 755 hgsc.bcm.edu 37 21 45750713 45750713 + Missense_Mutation SNP C C T rs62000360 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 155.0 80.0 157.0 0.0 0.516129 0 C|0.976;T|0.024 0.024 strong . C21orf2 10 . NM_004928 exon6 c.G635A p.R212K CTGCCCCTGTGGC . PASS Atlas-SNP POFUT2 23275 hgsc.bcm.edu 37 21 46685550 46685550 + Silent SNP C C T rs112907087 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 48.0 23.0 62.0 0.0 0.479167 0 C|0.992;T|0.008 0.008 strong . POFUT2 77 . NM_133635 exon9 c.G1137A p.R379R AAAAAACCTGCAA . PASS Atlas-SNP KIAA1683 80726 hgsc.bcm.edu 37 19 18368524 18368524 + Silent SNP C C T rs61740686 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 95.0 93.0 56.0 0.0 0.978947 0 C|0.964;T|0.036 0.036 strong . KIAA1683 190 . NM_001145304 exon4 c.G3570A p.T1190T CACCCACGTGACG . PASS Atlas-SNP DNAJC21 134218 hgsc.bcm.edu 37 5 34937649 34937649 + Silent SNP G G A rs77480286 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 228.0 108.0 257.0 1.0 0.473684 0.00389105 G|0.992;A|0.008 0.008 strong DNAJC21,caecum,carcinoma,0,1 DNAJC21 54 1 NM_001012339 exon5 c.G657A p.A219A GCAGGCGCATCGA . PASS Atlas-SNP GPR182 11318 hgsc.bcm.edu 37 12 57389536 57389536 + Silent SNP G G A rs61740222 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 103.0 53.0 88.0 0.0 0.514563 0 G|0.987;A|0.013 0.013 strong . GPR182 35 . NM_007264 exon2 c.G543A p.S181S CCTCTCGGCCATC . PASS Atlas-SNP FNDC3B 64778 hgsc.bcm.edu 37 3 171969312 171969312 + Silent SNP G G C rs34553291 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 39.0 17.0 29.0 0.0 0.435897 0 G|0.993;C|0.007 0.007 strong FNDC3B,rectum,carcinoma,+1,1 FNDC3B 118 1 NM_001135095 exon6 c.G771C p.S257S AAAGTCGAATGAT . PASS Atlas-SNP INSL4 3641 hgsc.bcm.edu 37 9 5233664 5233664 + Silent SNP A A G rs7030463 bycluster;byfrequency;by2hit2allele;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 61.0 33.0 55.0 0.0 0.540984 0 A|0.967;G|0.033 0.033 strong INSL4,right_upper_lobe,carcinoma,+2,1 INSL4 20 1 NM_002195 exon2 c.A207G p.S69S GGTGTCAACCTCC . PASS Atlas-SNP NXN 64359 hgsc.bcm.edu 37 17 706933 706933 + Missense_Mutation SNP C C T rs61731770 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 88.0 52.0 93.0 0.0 0.590909 0 C|0.977;T|0.023 0.023 strong . NXN 32 . NM_022463 exon7 c.G1114A p.V372I CGGCTACGAAGAA . PASS Atlas-SNP PTX4 390667 hgsc.bcm.edu 37 16 1536357 1536357 + Silent SNP G G A rs112226694 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 37.0 99.0 0.0 0.486842 0 G|0.979;A|0.021 0.021 strong . PTX4 46 . NM_001013658 exon3 c.C1005T p.F335F GATCACGAAGTGG . PASS Atlas-SNP CALHM2 51063 hgsc.bcm.edu 37 10 105207176 105207176 + Silent SNP G G A rs2232663 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 85.0 85.0 77.0 0.0 1 0 G|0.925;A|0.075 0.075 strong . CALHM2 30 . NM_015916 exon4 c.C705T p.A235A CACCTCGGCCGTG . PASS Atlas-SNP NUMA1 4926 hgsc.bcm.edu 37 11 71725612 71725612 + Silent SNP A A G rs142372284 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 87.0 39.0 54.0 0.0 0.448276 0 A|0.995;G|0.005 0.005 strong . NUMA1 142 . NM_006185 exon15 c.T2937C p.N979N CAGCTCATTGCCC . PASS Atlas-SNP SERPINB12 89777 hgsc.bcm.edu 37 18 61234091 61234091 + Silent SNP C C T rs35623491 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 74.0 35.0 88.0 0.0 0.472973 0 C|0.962;T|0.038 0.038 strong . SERPINB12 55 . NM_080474 exon7 c.C1065T p.N355N TGAAAACGGTACC . PASS Atlas-SNP DNAH2 146754 hgsc.bcm.edu 37 17 7722048 7722048 + Missense_Mutation SNP G G A rs61743907 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 101.0 50.0 92.0 0.0 0.49505 0 G|0.989;A|0.011 0.011 strong . DNAH2 498 . NM_020877 exon69 c.G10624A p.A3542T AACATCGCGGCTG . PASS Atlas-SNP ZACN 353174 hgsc.bcm.edu 37 17 74076504 74076504 + Silent SNP G G A rs8066946 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 79.0 45.0 74.0 0.0 0.56962 0 G|0.913;A|0.087 0.087 strong . ZACN 29 . NM_180990 exon5 c.G543A p.T181T CAACACGGGTGCT . PASS Atlas-SNP CENPL 91687 hgsc.bcm.edu 37 1 173772506 173772506 + Silent SNP T T G rs16846420 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 171.0 85.0 176.0 0.0 0.497076 0 T|0.876;G|0.124 0.124 strong . CENPL 26 . NM_001127181 exon6 c.A696C p.A232A TCCATTTGCAAGG . PASS Atlas-SNP PKHD1L1 93035 hgsc.bcm.edu 37 8 110413806 110413806 + Silent SNP G G A rs200316129 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 107.0 56.0 136.0 0.0 0.523364 0 G|1.000;A|0.000 0.000 strong PKHD1L1,NS,carcinoma,0,1 PKHD1L1 522 1 NM_177531 exon14 c.G1362A p.Q454Q TCTGCAGAAAGGA . PASS Atlas-SNP PDE6A 5145 hgsc.bcm.edu 37 5 149323781 149323781 + Silent SNP G G A rs149256612 byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 66.0 24.0 67.0 0.0 0.363636 0 G|1.000;A|0.000 0.000 strong . PDE6A 98 . NM_000440 exon1 c.C456T p.N152N GGGGACGTTAGCA . PASS Atlas-SNP MEGF8 1954 hgsc.bcm.edu 37 19 42874900 42874900 + Silent SNP C C T rs28483598 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 144.0 82.0 108.0 0.0 0.569444 0 C|0.981;T|0.019 0.019 strong . MEGF8 358 . NM_001271938 exon40 c.C7053T p.C2351C CGTGTGCGTGAAC . PASS Atlas-SNP ZNF697 90874 hgsc.bcm.edu 37 1 120165412 120165412 + Silent SNP G G A rs61734323 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 153.0 72.0 154.0 0.0 0.470588 0 G|0.994;A|0.006 0.006 strong . ZNF697 26 . NM_001080470 exon3 c.C1554T p.N518N CGGCTTGTTGCCC . PASS Atlas-SNP FBXO16 157574 hgsc.bcm.edu 37 8 28321153 28321153 + Silent SNP A A G rs7822086 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 133.0 58.0 172.0 0.0 0.43609 0 A|0.932;G|0.068 0.068 strong . FBXO16 29 . NM_172366 exon4 c.T318C p.P106P GCTCCGAGGGTCC . PASS Atlas-SNP ZNF684 127396 hgsc.bcm.edu 37 1 41006341 41006341 + Silent SNP T T C rs74575870 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 311.0 133.0 287.0 0.0 0.427653 0 T|0.973;C|0.027 0.027 strong . ZNF684 37 . NM_152373 exon3 c.T99C p.Y33Y CCTGTATTGGGAT . PASS Atlas-SNP CHSY3 337876 hgsc.bcm.edu 37 5 129520932 129520932 + Silent SNP T T G rs73788438 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 119.0 55.0 122.0 0.0 0.462185 0 T|0.966;G|0.034 0.034 strong CHSY3,colon,carcinoma,+2,2 CHSY3 92 2 NM_175856 exon3 c.T2097G p.L699L AGGTCTTGGTCTT . PASS Atlas-SNP ARFGEF2 10564 hgsc.bcm.edu 37 20 47588949 47588949 + Silent SNP G G A rs116550473 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 67.0 32.0 64.0 0.0 0.477612 0 G|0.996;A|0.004 0.004 strong . ARFGEF2 160 . NM_006420 exon11 c.G1512A p.T504T TCTGACGAGGATC . PASS Atlas-SNP PRKAG2 51422 hgsc.bcm.edu 37 7 151257665 151257665 + Silent SNP A A G rs28763998 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 45.0 119.0 0.0 0.45 0 A|0.955;G|0.045 0.045 strong . PRKAG2 86 . NM_016203 exon15 c.T1623C p.I541I ACCCACAATACTA . PASS Atlas-SNP NBPF7 343505 hgsc.bcm.edu 37 1 120384162 120384162 + Missense_Mutation SNP G G A rs78204967 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 204.0 99.0 245.0 2.0 0.485294 0.00816326 G|0.983;A|0.017 0.017 strong NBPF7,NS,carcinoma,0,1 NBPF7 46 1 NM_001047980 exon3 c.C400T p.R134W CTTCCCGTAACTT . scavenged Atlas-SNP OR2H1 26716 hgsc.bcm.edu 37 6 29430356 29430356 + Missense_Mutation SNP G G C rs148433584 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 453.0 227.0 464.0 0.0 0.501104 0 G|0.995;C|0.005 0.005 strong . OR2H1 38 . NM_030883 exon3 c.G810C p.K270N GGGCAAGTTCTTT . PASS Atlas-SNP HYDIN 54768 hgsc.bcm.edu 37 16 71101206 71101206 + Silent SNP A A G rs75778420 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 54.0 22.0 70.0 0.0 0.407407 0 A|0.919;G|0.081 0.081 strong . HYDIN 788 . NM_001198542 exon15 c.T2143C p.L715L TAATTAAGAGCGC . PASS Atlas-SNP SSFA2 6744 hgsc.bcm.edu 37 2 182780817 182780817 + Missense_Mutation SNP C C T rs16867510 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 188.0 92.0 191.0 1.0 0.489362 0.0052356 C|0.965;T|0.035 0.035 strong SSFA2,colon,carcinoma,0,1 SSFA2 130 1 NM_001130445 exon11 c.C2450T p.A817V GTGAGGCGCCGCG . scavenged Atlas-SNP TCEB3B 51224 hgsc.bcm.edu 37 18 44559578 44559578 + Silent SNP G G A rs149717505 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 154.0 77.0 170.0 0.0 0.5 0 G|0.998;A|0.002 0.002 strong . TCEB3B 141 . NM_016427 exon1 c.C2058T p.S686S CTGGCTGGAGGGA . PASS Atlas-SNP TTC21A 199223 hgsc.bcm.edu 37 3 39180100 39180100 + Missense_Mutation SNP G G A rs80238762 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 236.0 111.0 236.0 1.0 0.470339 0.00423729 G|0.989;A|0.011 0.011 strong . TTC21A 96 . NM_145755 exon28 c.G3871A p.E1291K GCCATTGAAATCT . PASS Atlas-SNP ARVCF 421 hgsc.bcm.edu 37 22 19960666 19960666 + Missense_Mutation SNP G G A rs115736959 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 38.0 19.0 24.0 0.0 0.5 0 G|0.985;A|0.015 0.015 strong . ARVCF 54 . NM_001670 exon14 c.C2414T p.A805V ACCAACGCTGGCA . PASS Atlas-SNP GSG2 83903 hgsc.bcm.edu 37 17 3627619 3627619 + Silent SNP C C T rs1185511 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 7.0 5.0 0.0 0.0 0.714286 . C|0.779;T|0.221 0.221 strong . GSG2 48 . NM_031965 exon1 c.C390T p.C130C ACCCTGCGGCCCG . PASS Atlas-SNP TMEM64 169200 hgsc.bcm.edu 37 8 91637929 91637929 + Silent SNP T T C rs75193995 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 174.0 77.0 207.0 0.0 0.442529 0 T|0.995;C|0.005 0.005 strong . TMEM64 31 . NM_001008495 exon3 c.A1113G p.T371T AGAAAATGTTAGG . PASS Atlas-SNP SEZ6L 23544 hgsc.bcm.edu 37 22 26688401 26688401 + Silent SNP T T C rs16981666 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 60.0 32.0 62.0 0.0 0.533333 0 T|0.927;C|0.073 0.073 strong . SEZ6L 174 . NM_001184777 exon2 c.T124C p.L42L AGCCCTTTGGGTC . PASS Atlas-SNP USP17L7 392197 hgsc.bcm.edu 37 8 11991328 11991328 + Missense_Mutation SNP G G A rs144333235 by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 65.0 18.0 51.0 0.0 0.276923 0 G|0.983;A|0.017 0.017 strong . . . . NM_001256869 exon1 c.C191T p.P64L TCCCTGGGAGCAA . PASS Atlas-SNP UGGT2 55757 hgsc.bcm.edu 37 13 96648384 96648384 + Missense_Mutation SNP T T C rs73562939 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 215.0 98.0 212.0 0.0 0.455814 0 T|0.976;C|0.024 0.024 strong . UGGT2 127 . NM_020121 exon7 c.A763G p.T255A TATTAGTCACAGC . PASS Atlas-SNP ORM2 5005 hgsc.bcm.edu 37 9 117094119 117094119 + Silent SNP G G A rs148394636 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 182.0 46.0 176.0 0.0 0.252747 0 G|0.931;A|0.069 0.069 strong . ORM2 13 . NM_000608 exon5 c.G450A p.E150E GCCAGAGACGACC . PASS Atlas-SNP EIF4G2 1982 hgsc.bcm.edu 37 11 10821185 10821185 + Silent SNP G G A rs11542384 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 198.0 86.0 191.0 0.0 0.434343 0 T|0.000;G|0.885;C|0.000;A|0.115 0.115 strong . EIF4G2 89 . NM_001172705 exon19 c.C2238T p.S746S TTGAGGGGATGGA . PASS Atlas-SNP PVR 5817 hgsc.bcm.edu 37 19 45150763 45150763 + Silent SNP G G A rs10421291 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 94.0 41.0 86.0 0.0 0.43617 0 G|0.937;A|0.063 0.063 strong . PVR 23 . NM_001135769 exon2 c.G348A p.E116E CGTAGAGGATGAA . PASS Atlas-SNP CYLD 1540 hgsc.bcm.edu 37 16 50783696 50783696 + Silent SNP C C T rs34564491 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 60.0 26.0 50.0 0.0 0.433333 0 C|0.991;T|0.009 0.009 strong . CYLD 150 . NM_001042355 exon3 c.C87T p.S29S ATGCAGCGTTACA . PASS Atlas-SNP VCAN 1462 hgsc.bcm.edu 37 5 82835852 82835852 + Missense_Mutation SNP C C T rs61733401 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 175.0 80.0 166.0 0.0 0.457143 0 C|0.965;T|0.035 0.035 strong . VCAN 498 . NM_004385 exon8 c.C7030T p.P2344S GAAGGACCCACGG . PASS Atlas-SNP ITGA9 3680 hgsc.bcm.edu 37 3 37536020 37536020 + Silent SNP C C T rs62001860 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 312.0 150.0 326.0 1.0 0.480769 0.00306748 C|0.994;T|0.006 0.006 strong . ITGA9 98 . NM_002207 exon5 c.C573T p.H191H GGAACACGGCTCC . PASS Atlas-SNP GPSM2 29899 hgsc.bcm.edu 37 1 109465084 109465084 + Missense_Mutation SNP T T A rs61758992 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 178.0 78.0 197.0 0.0 0.438202 0 T|1.000;A|0.000 0.000 weak . GPSM2 56 . NM_013296 exon13 c.T1486A p.L496I GACTTATTAAGCC . PASS Atlas-SNP WFIKKN2 124857 hgsc.bcm.edu 37 17 48913352 48913352 + Silent SNP G G A rs117494161 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 107.0 63.0 110.0 0.0 0.588785 0 G|0.982;A|0.018 0.018 strong . WFIKKN2 69 . NM_175575 exon1 c.G54A p.A18A GGCAGCGCTGCTG . PASS Atlas-SNP NOTCH4 4855 hgsc.bcm.edu 37 6 32184785 32184785 + Missense_Mutation SNP C C G rs11963697 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 210.0 95.0 178.0 0.0 0.452381 0 C|0.989;G|0.011;T|0.000 0.011 strong . NOTCH4 201 . NM_004557 exon11 c.G1798C p.V600L CTCCAACGGGACA . PASS Atlas-SNP PREB 10113 hgsc.bcm.edu 37 2 27354306 27354306 + Silent SNP C C T rs61276776 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 87.0 38.0 96.0 0.0 0.436782 0 C|0.989;T|0.011 0.011 strong . PREB 37 . NM_013388 exon9 c.G1230A p.Q410Q GGCACTCTGGAGC . PASS Atlas-SNP DCAF15 90379 hgsc.bcm.edu 37 19 14066772 14066772 + Missense_Mutation SNP T T C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 113.0 5.0 87.0 0.0 0.0442478 0 . . none . DCAF15 30 . NM_138353 exon4 c.T415C p.Y139H GACCTGTACCTGA . PASS Atlas-SNP HBS1L 10767 hgsc.bcm.edu 37 6 135359073 135359073 + Silent SNP G G A rs115458424 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 126.0 70.0 115.0 0.0 0.555556 0 G|0.979;A|0.021 0.021 strong . HBS1L 75 . NM_001145207 exon5 c.C522T p.P174P ATCAAAGGGTTTG . PASS Atlas-SNP PCNT 5116 hgsc.bcm.edu 37 21 47754576 47754576 + Missense_Mutation SNP A A C rs200285580 alternate_allele TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 333.0 48.0 293.0 0.0 0.144144 0 A|0.999;G|0.001 . alt . PCNT 283 . NM_006031 exon3 c.A533C p.Q178P ACCACCAACCGGA . PASS Atlas-SNP GPR150 285601 hgsc.bcm.edu 37 5 94957071 94957071 + Silent SNP A A T rs375018988 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 21.0 14.0 21.0 0.0 0.666667 0 . . weak . GPR150 7 . NM_199243 exon1 c.A1092T p.R364R CCGGCGACAGCTG . PASS Atlas-SNP GCAT 23464 hgsc.bcm.edu 37 22 38211728 38211728 + Silent SNP A A G rs34340481 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 263.0 119.0 214.0 0.0 0.452471 0 A|0.958;G|0.042 0.042 strong . GCAT 27 . NM_001171690 exon7 c.A951G p.P317P CCGGCCATACCTC . PASS Atlas-SNP LY75 4065 hgsc.bcm.edu 37 2 160738803 160738803 + Missense_Mutation SNP G G A rs35675007 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 77.0 27.0 77.0 0.0 0.350649 0 G|0.996;A|0.004 0.004 strong LY75,NS,carcinoma,+1,1 LY75 151 1 NM_002349 exon7 c.C1078T p.R360C CACAGCGGGTATC . PASS Atlas-SNP PPARGC1B 133522 hgsc.bcm.edu 37 5 149200008 149200008 + Missense_Mutation SNP G G A rs45518035 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 45.0 28.0 30.0 0.0 0.622222 0 G|0.994;A|0.006 0.006 strong . PPARGC1B 74 . NM_133263 exon2 c.G91A p.G31R GGGTCCGGGGAGG . PASS Atlas-SNP ERBB2 2064 hgsc.bcm.edu 37 17 37863268 37863268 + Silent SNP G G A rs4252610 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 137.0 63.0 128.0 0.0 0.459854 0 G|0.982;A|0.018 0.018 strong . ERBB2 429 . NM_004448 exon2 c.G99A p.L33L GAAGCTGCGGCTC . PASS Atlas-SNP PCDHAC2 56134 hgsc.bcm.edu 37 5 140346670 140346670 + Silent SNP C C A rs155809 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 28.0 11.0 28.0 0.0 0.392857 0 C|0.979;A|0.021 0.021 strong . PCDHAC2 142 . NM_031883 exon1 c.C319A p.R107R ATTGATCGGGAGG . PASS Atlas-SNP OAS2 4939 hgsc.bcm.edu 37 12 113444285 113444285 + Silent SNP C C T rs16942424 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 106.0 54.0 70.0 0.0 0.509434 0 C|0.957;T|0.043 0.043 strong . OAS2 86 . NM_002535 exon8 c.C1536T p.S512S TAAATCCTCGGAC . PASS Atlas-SNP ND4 0 hgsc.bcm.edu 37 MT 11252 11252 + Missense_Mutation SNP A A G rs3915952 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 13.0 13.0 12.0 0.0 1 0 A|0.936;G|0.064 0.064 strong . . . . ENST00000361381 exon1 c.A493G p.I165V GCACTAATTTACA . PASS Atlas-SNP SLC25A37 51312 hgsc.bcm.edu 37 8 23429093 23429093 + Missense_Mutation SNP G G T rs116050502 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 65.0 40.0 50.0 0.0 0.615385 0 G|0.994;T|0.006 0.006 strong . SLC25A37 27 . NM_016612 exon4 c.G742T p.A248S GCCCTCGCCGCGG . PASS Atlas-SNP SP100 6672 hgsc.bcm.edu 37 2 231380146 231380146 + Missense_Mutation SNP G G A rs61733089 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 78.0 40.0 80.0 0.0 0.512821 0 G|0.991;A|0.009 0.009 strong . SP100 167 . NM_003113 exon25 c.G2431A p.A811T AACACCGCTGCAG . PASS Atlas-SNP RELN 5649 hgsc.bcm.edu 37 7 103205949 103205949 + Silent SNP G G C rs78221963 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 65.0 31.0 70.0 0.0 0.476923 0 G|0.993;C|0.007 0.007 strong . RELN 593 . NM_173054 exon34 c.C4986G p.T1662T CAAAAAGGTAGAT . PASS Atlas-SNP CLUAP1 23059 hgsc.bcm.edu 37 16 3576475 3576475 + Missense_Mutation SNP A A C rs35603863 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 107.0 55.0 97.0 0.0 0.514019 0 A|0.981;C|0.019 0.019 strong . CLUAP1 32 . NM_015041 exon9 c.A919C p.K307Q CTGCTCAAGAGTG . PASS Atlas-SNP WHSC1L1 54904 hgsc.bcm.edu 37 8 38205133 38205133 + Missense_Mutation SNP G G A rs13034 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 189.0 86.0 224.0 0.0 0.455026 0 G|0.983;A|0.017 0.017 strong . WHSC1L1 137 . NM_017778 exon2 c.C557T p.T186M GATTTCGTGTGCT . PASS Atlas-SNP RGPD3 653489 hgsc.bcm.edu 37 2 107084716 107084716 + Missense_Mutation SNP C C T rs190902687 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 437.0 193.0 341.0 0.0 0.441648 0 C|0.992;T|0.008 0.008 strong . RGPD3 316 . NM_001144013 exon1 c.G29A p.R10Q ACGTACCGCTCCC . PASS Atlas-SNP ITGAD 3681 hgsc.bcm.edu 37 16 31422531 31422531 + Silent SNP T T C rs368058587 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 229.0 104.0 179.0 0.0 0.454148 0 . . weak . ITGAD 154 . NM_005353 exon13 c.T1491C p.P497P CTTGCCTAGGGGG . PASS Atlas-SNP SSPO 23145 hgsc.bcm.edu 37 7 149522163 149522163 + Missense_Mutation SNP C C G rs73727642 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 66.0 23.0 85.0 0.0 0.348485 0 C|0.974;G|0.026 0.026 strong . . . . NM_198455 exon96 c.C13950G p.C4650W AGGCTGCCGGGAG . PASS Atlas-SNP KIAA1009 22832 hgsc.bcm.edu 37 6 84925636 84925636 + Silent SNP A A C rs9449840 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 62.0 31.0 74.0 0.0 0.5 0 A|0.936;C|0.064 0.064 strong . KIAA1009 119 . NM_014895 exon4 c.T177G p.L59L TCCAAGAAGTCCT . PASS Atlas-SNP C2orf43 60526 hgsc.bcm.edu 37 2 21001192 21001192 + Missense_Mutation SNP A A G rs139472393 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 91.0 34.0 112.0 0.0 0.373626 0 A|0.999;G|0.001 0.001 strong . C2orf43 28 . NM_021925 exon2 c.T32C p.V11A TCATGCACAGGAA . PASS Atlas-SNP GPR85 54329 hgsc.bcm.edu 37 7 112724147 112724147 + Silent SNP G G A rs28392728 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 94.0 39.0 91.0 0.0 0.414894 0 G|0.978;A|0.022 0.022 strong . GPR85 49 . NM_001146265 exon3 c.C630T p.H210H TCGATCGTGGACG . PASS Atlas-SNP HAS1 3036 hgsc.bcm.edu 37 19 52223026 52223026 + Silent SNP C C A rs61736497 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 27.0 16.0 20.0 0.0 0.592593 0 C|0.947;A|0.053 0.053 strong . HAS1 61 . NM_001523 exon2 c.G135T p.P45P GGCCAGCGGCACC . PASS Atlas-SNP UBE4B 10277 hgsc.bcm.edu 37 1 10211588 10211588 + Silent SNP G G A rs149899336 byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 179.0 86.0 179.0 0.0 0.480447 0 G|0.999;A|0.001 0.001 strong . UBE4B 233 . NM_001105562 exon21 c.G2895A p.L965L CAAGTTGTTGGTA . PASS Atlas-SNP FNDC3A 22862 hgsc.bcm.edu 37 13 49775997 49775997 + Missense_Mutation SNP A A G rs45604939 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 149.0 77.0 116.0 0.0 0.516779 0 A|0.954;G|0.046 0.046 strong . FNDC3A 93 . NM_001079673 exon24 c.A3049G p.T1017A GAGTCAACATCCT . PASS Atlas-SNP PPL 5493 hgsc.bcm.edu 37 16 4935258 4935258 + Missense_Mutation SNP A A T rs145318499 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 149.0 54.0 151.0 0.0 0.362416 0 . . weak . PPL 168 . NM_002705 exon22 c.T3398A p.L1133H CGGGTGAGATCGC . PASS Atlas-SNP CIZ1 25792 hgsc.bcm.edu 37 9 130938650 130938650 + Silent SNP G G A rs45475893 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 119.0 86.0 102.0 0.0 0.722689 0 G|0.994;A|0.006 0.006 strong . CIZ1 75 . NM_001257975 exon11 c.C2013T p.D671D CAGGACGTCCCGG . PASS Atlas-SNP OR8U1 219417 hgsc.bcm.edu 37 11 56143113 56143113 + Missense_Mutation SNP A A G rs116344671 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 197.0 99.0 156.0 0.0 0.502538 0 A|0.974;G|0.026 0.026 strong . OR8U1 59 . NM_001005204 exon1 c.A14G p.N5S ACATCAATTGCAC . PASS Atlas-SNP OR51S1 119692 hgsc.bcm.edu 37 11 4869792 4869792 + Missense_Mutation SNP A A G rs57238061 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 83.0 45.0 77.0 0.0 0.542169 0 A|0.944;G|0.056 0.056 strong . OR51S1 83 . NM_001004758 exon1 c.T647C p.L216S GGGTCCAAACCCA . PASS Atlas-SNP MOB3A 126308 hgsc.bcm.edu 37 19 2078424 2078424 + Silent SNP G G T rs34059622 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 55.0 28.0 65.0 0.0 0.509091 0 G|0.982;T|0.018 0.018 strong . . . . NM_130807 exon3 c.C136A p.R46R CCAGCCGCAGGTC . PASS Atlas-SNP TTN 7273 hgsc.bcm.edu 37 2 179611680 179611680 + Silent SNP G G A rs72648911 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 190.0 99.0 181.0 0.0 0.521053 0 G|0.954;A|0.046 0.046 strong . TTN 18412 . NM_133379 exon46 c.C15447T p.Y5149Y AGGTGTGTAGAAA . PASS Atlas-SNP PKD1L1 168507 hgsc.bcm.edu 37 7 47955167 47955167 + Silent SNP A A G rs17131941 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 43.0 24.0 46.0 0.0 0.55814 0 A|0.981;G|0.019 0.019 strong . PKD1L1 328 . NM_138295 exon8 c.T1090C p.L364L TATCCAACTGAAA . PASS Atlas-SNP HIP1 3092 hgsc.bcm.edu 37 7 75221693 75221693 + Silent SNP C C T rs144446822 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 54.0 35.0 49.0 0.0 0.648148 0 C|0.999;T|0.001 0.001 strong . HIP1 91 . NM_005338 exon3 c.G324A p.P108P CACGTTCGGGTGT . PASS Atlas-SNP CASP4 837 hgsc.bcm.edu 37 11 104825597 104825597 + Missense_Mutation SNP C C T rs56226603 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 180.0 60.0 181.0 0.0 0.333333 0 C|0.969;T|0.031 0.031 strong . CASP4 57 . NM_001225 exon2 c.G139A p.D47N TAGCATCGTAATA . PASS Atlas-SNP TMEM41B 440026 hgsc.bcm.edu 37 11 9305136 9305136 + Silent SNP G G A rs77349011 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 33.0 33.0 58.0 0.0 1 0 G|0.941;A|0.059 0.059 strong TMEM41B,NS,haematopoietic_neoplasm,0,1 TMEM41B 22 1 NM_015012 exon7 c.C711T p.V237V AGGTGCGACACCT . PASS Atlas-SNP GRB10 2887 hgsc.bcm.edu 37 7 50742326 50742326 + Missense_Mutation SNP T T C rs185094083 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 67.0 26.0 66.0 0.0 0.38806 0 T|0.999;C|0.001 0.001 strong . GRB10 155 . NM_005311 exon3 c.A169G p.N57D TATCGTTCACCAG . PASS Atlas-SNP TMEM45B 120224 hgsc.bcm.edu 37 11 129722512 129722512 + Silent SNP C C T rs115605173 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 248.0 132.0 235.0 0.0 0.532258 0 C|0.991;T|0.009 0.009 strong . TMEM45B 25 . NM_138788 exon2 c.C135T p.L45L GCGTCTCGAGATC . PASS Atlas-SNP ANK1 286 hgsc.bcm.edu 37 8 41552840 41552840 + Silent SNP G G A rs34969689 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 180.0 85.0 173.0 0.0 0.472222 0 G|0.987;A|0.013 0.013 strong . ANK1 497 . NM_001142446 exon28 c.C3093T p.I1031I CTCCACGATTACA . PASS Atlas-SNP ZNF217 7764 hgsc.bcm.edu 37 20 52198619 52198619 + Silent SNP C C A rs78786003 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 111.0 52.0 118.0 0.0 0.468468 0 C|0.985;A|0.015 0.015 strong . ZNF217 227 . NM_006526 exon1 c.G747T p.A249A TGTCTGCGCGCTG . PASS Atlas-SNP MGAT4A 11320 hgsc.bcm.edu 37 2 99256447 99256447 + Missense_Mutation SNP T T A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 82.0 42.0 78.0 0.0 0.512195 0 . . none . MGAT4A 51 . NM_012214 exon12 c.A1146T p.K382N TAATGGTTTCATA . PASS Atlas-SNP HDC 3067 hgsc.bcm.edu 37 15 50534789 50534789 + Missense_Mutation SNP A A G rs16963486 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 123.0 65.0 135.0 0.0 0.528455 0 A|0.975;G|0.025 0.025 strong . HDC 86 . NM_002112 exon12 c.T1657C p.F553L CTGAAAAGCAGTC . PASS Atlas-SNP MDH2 4191 hgsc.bcm.edu 37 7 75684273 75684273 + Silent SNP G G A rs77424348 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 77.0 54.0 69.0 0.0 0.701299 0 G|0.984;A|0.016 0.016 strong . MDH2 35 . NM_005918 exon2 c.G192A p.V64V CGGAGTGGCCGCA . PASS Atlas-SNP FAT1 2195 hgsc.bcm.edu 37 4 187524176 187524176 + Missense_Mutation SNP G G A rs200262460 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 123.0 71.0 122.0 0.0 0.577236 0 G|1.000;A|0.000 0.000 strong . FAT1 500 . NM_005245 exon20 c.C11363T p.P3788L ACAGGTGGGCACC . PASS Atlas-SNP PCDHB12 56124 hgsc.bcm.edu 37 5 140589334 140589334 + Silent SNP A A G rs149716951 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 121.0 64.0 138.0 0.0 0.528926 0 A|0.994;G|0.006 0.006 strong . PCDHB12 179 . NM_018932 exon1 c.A855G p.S285S TGCCTCAGAAGAT . PASS Atlas-SNP ATP2A3 489 hgsc.bcm.edu 37 17 3850910 3850910 + Silent SNP A A G rs55837933 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 43.0 26.0 38.0 0.0 0.604651 0 A|0.928;G|0.072 0.072 strong . ATP2A3 148 . NM_174956 exon8 c.T870C p.R290R AGCGCCACGCAGC . PASS Atlas-SNP AHCTF1 25909 hgsc.bcm.edu 37 1 247013733 247013733 + Missense_Mutation SNP T T C rs79472697 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 408.0 167.0 406.0 0.0 0.409314 0 . . weak . AHCTF1 187 . NM_015446 exon33 c.A5602G p.K1868E CTTTTTTAGTAGT . PASS Atlas-SNP CEACAM1 634 hgsc.bcm.edu 37 19 43031514 43031514 + Missense_Mutation SNP G G T rs8111171 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 219.0 124.0 214.0 0.0 0.56621 0 G|0.888;T|0.112 0.112 strong . CEACAM1 43 . NM_001184816 exon2 c.C103A p.Q35K TGAGCTGGGCAGT . PASS Atlas-SNP SACS 26278 hgsc.bcm.edu 37 13 23915089 23915089 + Missense_Mutation SNP G G T rs139993038 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 183.0 71.0 190.0 1.0 0.387978 0.00526316 A|0.000;G|0.999;T|0.001 0.001 strong SACS_ENST00000382298,NS,carcinoma,0,2 SACS 871 2 NM_014363 exon10 c.C2926A p.R976S CCAGACGAATAGT . scavenged Atlas-SNP LRFN2 57497 hgsc.bcm.edu 37 6 40400823 40400823 + Silent SNP C C T rs61731039 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 69.0 35.0 69.0 0.0 0.507246 0 C|0.950;T|0.050 0.050 strong LRFN2,NS,carcinoma,-1,1 LRFN2 133 1 NM_020737 exon2 c.G30A p.A10A GCCAAACGCTAGC . PASS Atlas-SNP MAP1B 4131 hgsc.bcm.edu 37 5 71495320 71495320 + Silent SNP G G A rs115914542 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 163.0 87.0 122.0 0.0 0.533742 0 G|0.999;A|0.001 0.001 strong MAP1B,rectum,carcinoma,0,2 MAP1B 243 2 NM_005909 exon5 c.G6138A p.E2046E TGCAGAGAAAATC . PASS Atlas-SNP HSD3B2 3284 hgsc.bcm.edu 37 1 119962118 119962118 + Missense_Mutation SNP G G A rs4986954 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 196.0 88.0 161.0 0.0 0.44898 0 G|0.996;A|0.004 0.004 strong . HSD3B2 48 . NM_001166120 exon3 c.G220A p.D74N TGCCAGGACGTCT . PASS Atlas-SNP PROKR2 128674 hgsc.bcm.edu 37 20 5283051 5283051 + Missense_Mutation SNP G G A rs148868355 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 78.0 37.0 74.0 0.0 0.474359 0 G|0.999;A|0.001 0.001 strong . PROKR2 90 . NM_144773 exon2 c.C790T p.R264C GCTTGCGAATCTG . PASS Atlas-SNP AKR1C2 1646 hgsc.bcm.edu 37 10 5043749 5043749 + Missense_Mutation SNP G G A rs147648222 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 328.0 172.0 297.0 0.0 0.52439 0 G|0.998;A|0.002 0.002 strong . AKR1C2 68 . NM_001354 exon4 c.C209T p.A70V CCATCTGCAATCT . PASS Atlas-SNP HIP1R 9026 hgsc.bcm.edu 37 12 123341199 123341199 + Missense_Mutation SNP A A C rs7972242 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 88.0 42.0 108.0 0.0 0.477273 0 A|0.954;C|0.046 0.046 strong . HIP1R 68 . NM_003959 exon17 c.A1546C p.K516Q CTGGAGAAGCTCA . PASS Atlas-SNP FILIP1 27145 hgsc.bcm.edu 37 6 76022541 76022541 + Missense_Mutation SNP G G A rs34807169 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 237.0 109.0 241.0 1.0 0.459916 0.00414938 G|0.973;A|0.027 0.027 strong . FILIP1 173 . NM_015687 exon5 c.C3007T p.P1003S ATGTGGGCCTGTC . PASS Atlas-SNP NID2 22795 hgsc.bcm.edu 37 14 52486850 52486850 + Silent SNP G G A rs8007166 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 115.0 60.0 111.0 0.0 0.521739 0 G|0.971;A|0.029 0.029 strong . NID2 201 . NM_007361 exon13 c.C2721T p.C907C ATTGTAGCAGGTA . PASS Atlas-SNP PKHD1L1 93035 hgsc.bcm.edu 37 8 110492328 110492328 + Missense_Mutation SNP A A C rs140472257 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 138.0 58.0 149.0 0.0 0.42029 0 A|0.993;C|0.007 0.007 strong . PKHD1L1 522 . NM_177531 exon55 c.A9287C p.Y3096S CTTCTTACAGAGA . PASS Atlas-SNP N4BP2L2 10443 hgsc.bcm.edu 37 13 33110831 33110831 + Missense_Mutation SNP C C T rs149614093 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 192.0 85.0 184.0 0.0 0.442708 0 C|0.998;T|0.002 0.002 strong . N4BP2L2 90 . NM_014887 exon2 c.G334A p.A112T CGTCTGCGGATAC . PASS Atlas-SNP KRTAP10-1 386677 hgsc.bcm.edu 37 21 45959279 45959279 + Missense_Mutation SNP C C T rs28644341 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 81.0 42.0 89.0 0.0 0.518519 0 C|0.991;T|0.009 0.009 strong . KRTAP10-1 34 . NM_198691 exon1 c.G755A p.C252Y GGGGCACAGCAGG . PASS Atlas-SNP DSCR3 10311 hgsc.bcm.edu 37 21 38605694 38605694 + Missense_Mutation SNP G G A rs145630556 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 74.0 33.0 73.0 0.0 0.445946 0 G|0.998;A|0.002 0.002 strong . DSCR3 21 . NM_006052 exon4 c.C401T p.T134I GTCTTTGTCAAGT . PASS Atlas-SNP PPP1R12C 54776 hgsc.bcm.edu 37 19 55606944 55606944 + Missense_Mutation SNP G G A rs35849605 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 39.0 56.0 0.0 0.513158 0 G|0.958;A|0.042 0.042 strong . PPP1R12C 46 . NM_017607 exon10 c.C1255T p.R419C CAAAGCGCCTGGA . PASS Atlas-SNP PTPRZ1 5803 hgsc.bcm.edu 37 7 121652964 121652964 + Silent SNP T T C rs139671030 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 114.0 52.0 116.0 0.0 0.45614 0 T|0.997;C|0.003 0.003 strong . PTPRZ1 605 . NM_002851 exon12 c.T3864C p.S1288S GTACAGTAATGAT . PASS Atlas-SNP METTL15 196074 hgsc.bcm.edu 37 11 28351963 28351963 + Missense_Mutation SNP A A T rs11030280 bycluster;byfrequency;by2hit2allele;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 242.0 117.0 229.0 1.0 0.483471 0.00436681 A|0.993;T|0.007 0.007 strong . METTL15 63 . NM_001113528 exon7 c.A799T p.I267F TCTGCTATTTATA . PASS Atlas-SNP FAM26F 441168 hgsc.bcm.edu 37 6 116783585 116783585 + Missense_Mutation SNP G G C rs76716752 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 33.0 33.0 15.0 0.0 1 0 G|0.954;C|0.046 0.046 strong . FAM26F 12 . NM_001010919 exon2 c.T493C p.S165P GTGCAGGACCTCC . PASS Atlas-SNP TMPRSS11F 389208 hgsc.bcm.edu 37 4 68934515 68934515 + Silent SNP A A G rs35687346 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 132.0 61.0 129.0 0.0 0.462121 0 A|0.955;G|0.045 0.045 strong . TMPRSS11F 79 . NM_207407 exon7 c.T576C p.S192S GTTTGAAGATGTC . PASS Atlas-SNP BCL9L 283149 hgsc.bcm.edu 37 11 118770054 118770054 + Silent SNP G G A rs12277303 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 95.0 55.0 112.0 0.0 0.578947 0 G|0.948;A|0.052 0.052 strong . BCL9L 254 . NM_182557 exon8 c.C3570T p.N1190N CTGTGCGTTGGGA . PASS Atlas-SNP ZNF540 163255 hgsc.bcm.edu 37 19 38102955 38102955 + Silent SNP T T C rs115588579 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 51.0 26.0 68.0 0.0 0.509804 0 T|0.992;C|0.008 0.008 strong . ZNF540 75 . NM_152606 exon5 c.T774C p.L258L ACAACTTAATCGA . PASS Atlas-SNP CHD3 1107 hgsc.bcm.edu 37 17 7792326 7792326 + Missense_Mutation SNP C C T rs931543 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 47.0 102.0 0.0 0.47 0 C|0.915;T|0.085 0.085 strong . CHD3 169 . NM_001005273 exon1 c.C8T p.A3V TGAAGGCGGCAGA . PASS Atlas-SNP GPR26 2849 hgsc.bcm.edu 37 10 125447511 125447511 + Silent SNP G G A rs62640899 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 67.0 31.0 58.0 0.0 0.462687 0 G|0.970;A|0.030 0.030 strong . GPR26 47 . NM_153442 exon3 c.G849A p.A283A CTTGGCGTACAGC . PASS Atlas-SNP PFAS 5198 hgsc.bcm.edu 37 17 8172141 8172141 + Missense_Mutation SNP G G A rs73975814 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 18.0 10.0 17.0 0.0 0.555556 0 G|0.994;A|0.006 0.006 strong . PFAS 91 . NM_012393 exon27 c.G3673A p.A1225T GAGGGCGCCGTGC . PASS Atlas-SNP KRTAP4-9 100132386 hgsc.bcm.edu 37 17 39262091 39262091 + Missense_Mutation SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 186.0 64.0 126.0 0.0 0.344086 0 . . none . KRTAP4-9 110 . NM_001146041 exon1 c.C451T p.R151C TGCTGCCGCCCCA . PASS Atlas-SNP MAATS1 89876 hgsc.bcm.edu 37 3 119449159 119449159 + Missense_Mutation SNP G G A rs61742290 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 131.0 69.0 108.0 0.0 0.526718 0 G|0.995;A|0.005 0.005 strong C3orf15,NS,carcinoma,+1,2 . . 2 NM_033364 exon8 c.G953A p.R318Q ATGCCCGGTGGTC . PASS Atlas-SNP PDZD2 23037 hgsc.bcm.edu 37 5 32077653 32077653 + Missense_Mutation SNP G G A rs61745726 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 121.0 121.0 106.0 0.0 1 0 G|0.913;A|0.087 0.087 strong . PDZD2 306 . NM_178140 exon18 c.G3623A p.S1208N ATGCCAGCCACCT . PASS Atlas-SNP PDE9A 5152 hgsc.bcm.edu 37 21 44179112 44179112 + Missense_Mutation SNP C C G rs146382324 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 133.0 71.0 99.0 0.0 0.533835 0 C|0.999;G|0.001 0.001 strong . PDE9A 69 . NM_002606 exon11 c.C814G p.L272V CAGATGCTGAGCT . PASS Atlas-SNP TRPC5 7224 hgsc.bcm.edu 37 X 111020096 111020096 + Silent SNP C C A rs141761268 byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 160.0 101.0 177.0 0.0 0.63125 0 C|0.998;A|0.002 0.002 strong . TRPC5 142 . NM_012471 exon11 c.G2367T p.G789G CCGAGCCCCACCA . PASS Atlas-SNP TNRC18 84629 hgsc.bcm.edu 37 7 5417093 5417093 + Silent SNP G G T rs60530083 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 53.0 32.0 28.0 0.0 0.603774 0 G|0.985;T|0.015 0.015 strong . TNRC18 311 . NM_001080495 exon7 c.C2370A p.R790R AGACCAGCGACCT . PASS Atlas-SNP TMEM232 642987 hgsc.bcm.edu 37 5 109941887 109941887 + Missense_Mutation SNP C C T rs73224392 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 217.0 98.0 238.0 0.0 0.451613 0 C|0.965;T|0.035 0.035 strong . TMEM232 57 . NM_001039763 exon9 c.G1004A p.S335N ATAATGCTTGAAA . PASS Atlas-SNP BRD1 23774 hgsc.bcm.edu 37 22 50217387 50217387 + Silent SNP G G A rs11912787 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 104.0 50.0 105.0 0.0 0.480769 0 G|0.899;A|0.101 0.101 strong . BRD1 144 . NM_014577 exon1 c.C579T p.F193F CTTCTCGAAGCGG . PASS Atlas-SNP OR10K1 391109 hgsc.bcm.edu 37 1 158436201 158436201 + Silent SNP T T C rs76117330 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 139.0 62.0 131.0 0.0 0.446043 0 T|0.963;C|0.037 0.037 strong . OR10K1 80 . NM_001004473 exon1 c.T850C p.L284L ACCCCATTGTTCA . PASS Atlas-SNP PLOD2 5352 hgsc.bcm.edu 37 3 145809622 145809622 + Missense_Mutation SNP A A G rs138948307 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 136.0 53.0 115.0 0.0 0.389706 0 A|0.999;G|0.001 0.001 strong . PLOD2 81 . NM_182943 exon8 c.T844C p.C282R ATTCACAAAGAGT . PASS Atlas-SNP KIAA0141 9812 hgsc.bcm.edu 37 5 141313888 141313888 + Silent SNP A A C rs115183657 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 129.0 61.0 88.0 0.0 0.472868 0 A|0.991;C|0.009 0.009 strong . KIAA0141 44 . NM_001142603 exon9 c.A981C p.P327P AGACCCAGCCTCT . PASS Atlas-SNP PEX16 9409 hgsc.bcm.edu 37 11 45932458 45932458 + Silent SNP G G A rs150774189 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 111.0 60.0 91.0 0.0 0.540541 0 G|0.995;A|0.005 0.005 strong . PEX16 24 . NM_004813 exon10 c.C943T p.L315L TGACCAGGCCAAC . PASS Atlas-SNP ERN1 2081 hgsc.bcm.edu 37 17 62149423 62149423 + Silent SNP G G A rs374999844 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 64.0 29.0 72.0 0.0 0.453125 0 . . weak . ERN1 102 . NM_001433 exon6 c.C396T p.T132T CTCTCCGGTCAGG . PASS Atlas-SNP LILRA2 11027 hgsc.bcm.edu 37 19 55098736 55098736 + Missense_Mutation SNP G G C rs73939007 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 257.0 115.0 228.0 1.0 0.447471 0.00438596 G|0.991;C|0.009 0.009 strong . LILRA2 99 . NM_001130917 exon8 c.G1375C p.V459L GGCTTGGTCCTGG . PASS Atlas-SNP STAB2 55576 hgsc.bcm.edu 37 12 104014294 104014294 + Missense_Mutation SNP C C T rs150189813 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 209.0 107.0 195.0 0.0 0.511962 0 C|1.000;T|0.000 0.000 strong . STAB2 370 . NM_017564 exon4 c.C380T p.A127V GTTGTGCTGAAGG . PASS Atlas-SNP FBN3 84467 hgsc.bcm.edu 37 19 8150428 8150428 + Silent SNP G G A rs34514496 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 53.0 26.0 40.0 0.0 0.490566 0 G|0.956;A|0.044 0.044 strong . FBN3 300 . NM_032447 exon55 c.C6906T p.A2302A CACCTCGGCAAAG . PASS Atlas-SNP C10orf71 118461 hgsc.bcm.edu 37 10 50531907 50531907 + Silent SNP C C T rs74528495 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 98.0 42.0 97.0 0.0 0.428571 0 C|0.994;T|0.006 0.006 strong . C10orf71 179 . NM_001135196 exon3 c.C1317T p.P439P TGATCCCCCCTTT . PASS Atlas-SNP VARS 7407 hgsc.bcm.edu 37 6 31747833 31747833 + Missense_Mutation SNP G G A rs1076827 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 74.0 37.0 82.0 0.0 0.5 0 G|0.978;A|0.022 0.022 strong . VARS 76 . NM_006295 exon26 c.C3023T p.P1008L ACGGCCGGGAAGT . PASS Atlas-SNP NOM1 64434 hgsc.bcm.edu 37 7 156745224 156745224 + Silent SNP G G A rs59371845 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 166.0 81.0 170.0 0.0 0.487952 0 G|0.950;A|0.050 0.050 strong . NOM1 73 . NM_138400 exon2 c.G1044A p.E348E TGAGGAGACAGTG . PASS Atlas-SNP ARID3C 138715 hgsc.bcm.edu 37 9 34625800 34625800 + Silent SNP G G A rs144207435 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 146.0 80.0 142.0 0.0 0.547945 0 G|0.997;A|0.003 0.003 strong ARID3C,NS,carcinoma,0,2 ARID3C 33 2 NM_001017363 exon2 c.C330T p.L110L TGCATCGAGCTCA . PASS Atlas-SNP ZNF236 7776 hgsc.bcm.edu 37 18 74640002 74640002 + Missense_Mutation SNP G G A rs76679748 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 200.0 99.0 180.0 0.0 0.495 0 G|0.996;A|0.004 0.004 strong . ZNF236 325 . NM_007345 exon25 c.G4528A p.A1510T CAGGCCGCTGGGC . PASS Atlas-SNP MYH7B 57644 hgsc.bcm.edu 37 20 33574784 33574784 + Missense_Mutation SNP G G A rs115275866 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 50.0 66.0 0.0 0.537634 0 G|0.993;A|0.007 0.007 strong MYH7B,colon,carcinoma,0,1 MYH7B 145 1 NM_020884 exon15 c.G1126A p.A376T CTCATCGCCACCG . PASS Atlas-SNP KLHL2 11275 hgsc.bcm.edu 37 4 166149999 166149999 + Missense_Mutation SNP A A G rs80341433 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 576.0 285.0 736.0 0.0 0.494792 0 A|0.994;G|0.006 0.006 strong . KLHL2 42 . NM_001161521 exon3 c.A205G p.M69V GAAGACATGGAAA . PASS Atlas-SNP C14orf159 80017 hgsc.bcm.edu 37 14 91666248 91666248 + Silent SNP T T C rs28715808 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 155.0 86.0 135.0 0.0 0.554839 0 T|0.967;C|0.033 0.033 strong . C14orf159 57 . NM_001102368 exon11 c.T1443C p.T481T ATCAACTGGTAAG . PASS Atlas-SNP NAT8 9027 hgsc.bcm.edu 37 2 73868446 73868446 + Missense_Mutation SNP C C T rs13424561 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 164.0 83.0 139.0 0.0 0.506098 0 C|0.956;T|0.044 0.044 strong . NAT8 26 . NM_003960 exon2 c.G310A p.E104K CACGCTCACTCAG . PASS Atlas-SNP SERPINB3 6317 hgsc.bcm.edu 37 18 61322998 61322998 + Missense_Mutation SNP G G A rs73962331 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 203.0 71.0 215.0 0.0 0.349754 0 G|0.948;A|0.052 0.052 strong . SERPINB3 90 . NM_006919 exon8 c.C1066T p.P356S AAGTAGGTGATGA . PASS Atlas-SNP COG5 10466 hgsc.bcm.edu 37 7 107204371 107204371 + Missense_Mutation SNP C C T rs73419464 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 112.0 64.0 93.0 0.0 0.571429 0 C|0.970;T|0.030 0.030 strong . COG5 78 . NM_006348 exon1 c.G64A p.A22T CGTCAGCAGCAGA . PASS Atlas-SNP MMP17 4326 hgsc.bcm.edu 37 12 132329666 132329666 + Silent SNP C C T rs36031288 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 118.0 58.0 102.0 0.0 0.491525 0 C|0.961;T|0.039 0.039 strong . MMP17 77 . NM_016155 exon7 c.C972T p.P324P CAGGCCCAGGAAG . PASS Atlas-SNP CD44 960 hgsc.bcm.edu 37 11 35223303 35223303 + Silent SNP G G A rs11033026 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 161.0 160.0 170.0 0.0 0.993789 0 G|0.883;A|0.117 0.117 strong . CD44 48 . NM_000610 exon9 c.G1122A p.E374E TCATGAGGAAGAA . PASS Atlas-SNP PASD1 139135 hgsc.bcm.edu 37 X 150840690 150840690 + Missense_Mutation SNP G G T rs370395923 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 115.0 48.0 84.0 0.0 0.417391 0 . . weak . PASD1 286 . NM_173493 exon14 c.G1473T p.E491D GAAGGAGCAGCAG . PASS Atlas-SNP IL25 64806 hgsc.bcm.edu 37 14 23845061 23845061 + Missense_Mutation SNP T T C rs149802556 byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 262.0 105.0 254.0 1.0 0.400763 0.00393701 T|1.000;C|0.000 0.000 strong . IL25 21 . NM_022789 exon2 c.T506C p.V169A CTTGTGTGTGTGT . PASS Atlas-SNP PTCD2 79810 hgsc.bcm.edu 37 5 71618069 71618069 + Silent SNP A A G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 75.0 24.0 86.0 0.0 0.32 0 . . none . PTCD2 31 . NM_024754 exon2 c.A198G p.A66A TGTTGCATGTAAT . PASS Atlas-SNP FLG 2312 hgsc.bcm.edu 37 1 152283367 152283367 + Missense_Mutation SNP T T C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 622.0 48.0 509.0 0.0 0.0771704 0 . . none . FLG 900 . NM_002016 exon3 c.A3995G p.H1332R GTGTGATGAGTGC . PASS Atlas-SNP LARS2 23395 hgsc.bcm.edu 37 3 45459030 45459030 + Silent SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 29.0 143.0 0.0 0.29 0 . . none . LARS2 48 . NM_015340 exon5 c.C420T p.V140V CGCAGTCGAGAGG . PASS Atlas-SNP TTN 7273 hgsc.bcm.edu 37 2 179441917 179441917 + Missense_Mutation SNP T T C rs72646881 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 116.0 56.0 112.0 0.0 0.482759 0 T|0.967;C|0.033 0.033 strong TTN_ENST00000359218,NS,carcinoma,+2,5 TTN 18412 5 NM_001267550 exon324 c.A69145G p.I23049V TACTGATTTCAAC . PASS Atlas-SNP CSH2 1443 hgsc.bcm.edu 37 17 61950694 61950694 + Missense_Mutation SNP G G A rs61763993 byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 235.0 55.0 248.0 0.0 0.234043 0 G|0.980;A|0.020 0.020 strong . CSH2 37 . NM_022645 exon2 c.C16T p.R6W ACGTCCGGGAGCC . PASS Atlas-SNP GRIK4 2900 hgsc.bcm.edu 37 11 120811161 120811161 + Missense_Mutation SNP G G A rs2230298 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 65.0 30.0 103.0 0.0 0.461538 0 G|0.964;A|0.036 0.036 strong . GRIK4 149 . NM_014619 exon12 c.G1582A p.V528I TACCGCGTTCATA . PASS Atlas-SNP SRGAP2D 100996712 hgsc.bcm.edu 37 1 206566947 206566947 + Nonsense_Mutation SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 647.0 99.0 553.0 0.0 0.153014 0 . . none . . . . NM_001271887 exon3 c.C289T p.Q97X AAAGCCCGGAATG . PASS Atlas-SNP TNR 7143 hgsc.bcm.edu 37 1 175335162 175335162 + Silent SNP T T C rs7516376 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 241.0 114.0 228.0 0.0 0.473029 0 T|0.929;C|0.071 0.071 strong TNR,NS,carcinoma,-1,2 TNR 399 2 NM_003285 exon11 c.A2166G p.P722P AGAGGATGGGGTA . PASS Atlas-SNP INADL 10207 hgsc.bcm.edu 37 1 62288730 62288730 + Missense_Mutation SNP G G C rs1286812 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 219.0 111.0 223.0 0.0 0.506849 0 G|0.992;C|0.008 0.008 strong . INADL 179 . NM_176877 exon15 c.G1797C p.Q599H CCTACAGCCAGAA . PASS Atlas-SNP KRBA2 124751 hgsc.bcm.edu 37 17 8273246 8273246 + Missense_Mutation SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 225.0 61.0 259.0 0.0 0.271111 0 . . none . KRBA2 34 . NM_213597 exon2 c.G685A p.V229I ATAAGACAATAAC . PASS Atlas-SNP KRTAP4-8 728224 hgsc.bcm.edu 37 17 39253819 39253819 + Missense_Mutation SNP G G C rs201814486 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 167.0 46.0 240.0 0.0 0.275449 0 . . weak . KRTAP4-8 57 . NM_031960 exon1 c.C518G p.T173S GGGCAGGTGGAGA . PASS Atlas-SNP RBM11 54033 hgsc.bcm.edu 37 21 15591968 15591968 + Missense_Mutation SNP G G A rs141942958 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 146.0 88.0 143.0 0.0 0.60274 0 G|0.995;A|0.005 0.005 strong RBM11,NS,neuroblastoma,-1,1 RBM11 41 1 NM_144770 exon2 c.G181A p.E61K CACCCAGAATCGG . PASS Atlas-SNP SMG8 55181 hgsc.bcm.edu 37 17 57288251 57288251 + Missense_Mutation SNP C C T rs8068240 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 104.0 44.0 88.0 0.0 0.423077 0 C|0.967;T|0.033 0.033 strong . SMG8 79 . NM_018149 exon1 c.C839T p.P280L AACCTCCTCGGAA . PASS Atlas-SNP SRL 6345 hgsc.bcm.edu 37 16 4245656 4245656 + Silent SNP G G A rs76988584 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 248.0 118.0 220.0 0.0 0.475806 0 G|0.992;A|0.008 0.008 strong . SRL 56 . NM_001098814 exon5 c.C508T p.L170L TCTCTAGGAAATT . PASS Atlas-SNP KRTAP4-8 728224 hgsc.bcm.edu 37 17 39253797 39253797 + Silent SNP G G A rs142150852 by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 227.0 81.0 274.0 0.0 0.356828 0 G|0.982;A|0.018 0.018 strong KRTAP4-8,colon,carcinoma,-2,1 KRTAP4-8 57 1 NM_031960 exon1 c.C540T p.C180C GGAGGCGCAGCAC . PASS Atlas-SNP DEFB110 245913 hgsc.bcm.edu 37 6 49989622 49989622 + Silent SNP A A G rs9473719 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 89.0 46.0 86.0 0.0 0.516854 0 A|0.986;G|0.014 0.014 strong . DEFB110 5 . NM_001037728 exon1 c.T27C p.I9I GTGCAGAATAAAG . PASS Atlas-SNP DLG5 9231 hgsc.bcm.edu 37 10 79603423 79603423 + Silent SNP C C T rs12257229 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 201.0 94.0 195.0 0.0 0.467662 0 C|0.888;T|0.112 0.112 strong . DLG5 154 . NM_004747 exon6 c.G906A p.L302L GTCATACAGTTTG . PASS Atlas-SNP PLA1A 51365 hgsc.bcm.edu 37 3 119336962 119336962 + Missense_Mutation SNP G G A rs2692622 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 239.0 132.0 177.0 0.0 0.552301 0 G|0.946;A|0.054 0.054 strong . PLA1A 65 . NM_015900 exon7 c.G851A p.S284N GTGCCAGCTACAA . PASS Atlas-SNP SCN1A 6323 hgsc.bcm.edu 37 2 166868775 166868775 + Silent SNP A A G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 190.0 119.0 179.0 0.0 0.626316 0 . . none . SCN1A 641 . NM_001165963 exon19 c.T3723C p.Y1241Y ATCAATATATATA . PASS Atlas-SNP ATP13A1 57130 hgsc.bcm.edu 37 19 19766365 19766365 + Silent SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 147.0 79.0 134.0 0.0 0.537415 0 . . none . ATP13A1 82 . NM_020410 exon10 c.C1368T p.I456I TGCAGCGATGGCA . PASS Atlas-SNP HPSE 10855 hgsc.bcm.edu 37 4 84222208 84222208 + Silent SNP A A G rs11031 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 134.0 66.0 121.0 0.0 0.492537 0 A|0.911;G|0.089 0.089 strong . HPSE 55 . NM_001098540 exon11 c.T1377C p.N459N GGTGACATTATGG . PASS Atlas-SNP VWDE 221806 hgsc.bcm.edu 37 7 12381687 12381687 + Missense_Mutation SNP G G A rs116125922 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 89.0 44.0 76.0 0.0 0.494382 0 G|0.990;A|0.010 0.010 strong . VWDE 123 . NM_001135924 exon23 c.C4268T p.T1423I TTACCTGTACTAC . PASS Atlas-SNP RRM2B 50484 hgsc.bcm.edu 37 8 103251034 103251034 + Missense_Mutation SNP A A C rs72554092 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 26.0 15.0 28.0 0.0 0.576923 0 A|0.975;C|0.025 0.025 strong . RRM2B 31 . NM_001172477 exon1 c.T17G p.L6R GGGGGAAGACGCA . PASS Atlas-SNP CNKSR1 10256 hgsc.bcm.edu 37 1 26508997 26508997 + Silent SNP C C T rs2802347 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 182.0 93.0 156.0 0.0 0.510989 0 C|0.940;T|0.060 0.060 strong . CNKSR1 66 . NM_006314 exon6 c.C546T p.H182H CTGCCACAACATC . PASS Atlas-SNP GPR35 2859 hgsc.bcm.edu 37 2 241569535 241569535 + Missense_Mutation SNP C C T rs115880579 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 60.0 27.0 94.0 0.0 0.45 0 C|0.993;T|0.007 0.007 strong GPR35,NS,malignant_melanoma,-1,1 GPR35 43 1 NM_001195382 exon6 c.C259T p.R87C GAGACCCGCATCT . PASS Atlas-SNP GOLGA6L1 283767 hgsc.bcm.edu 37 15 22743130 22743130 + Silent SNP C C T rs376169003 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 256.0 45.0 169.0 0.0 0.175781 0 . . weak . GOLGA6L1 20 . NM_001001413 exon8 c.C1515T p.H505H GATGCACGACCAG . PASS Atlas-SNP CLSTN2 64084 hgsc.bcm.edu 37 3 140281768 140281768 + Silent SNP G G A rs35951028 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 128.0 127.0 114.0 0.0 0.992188 0 G|0.973;A|0.027 0.027 strong . CLSTN2 190 . NM_022131 exon14 c.G2328A p.G776G CAATGGGCGCTAC . PASS Atlas-SNP MACF1 23499 hgsc.bcm.edu 37 1 39853163 39853163 + Silent SNP T T C rs79901102 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 66.0 36.0 74.0 0.0 0.545455 0 T|0.975;C|0.025 0.025 strong . MACF1 909 . NM_012090 exon54 c.T8463C p.H2821H AAACCATTGGGAA . PASS Atlas-SNP HEG1 57493 hgsc.bcm.edu 37 3 124732426 124732426 + Missense_Mutation SNP G G A rs113838848 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 130.0 72.0 123.0 0.0 0.553846 0 G|0.986;A|0.014 0.014 strong . HEG1 109 . NM_020733 exon6 c.C1997T p.S666F GAGGAGGAGGAGG . PASS Atlas-SNP ANKRD36B 57730 hgsc.bcm.edu 37 2 98206013 98206013 + Missense_Mutation SNP C C T rs188661236 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 262.0 127.0 295.0 1.0 0.484733 0.00338983 C|0.989;T|0.011 0.011 strong . . . . NM_025190 exon1 c.G136A p.A46T TATTGGCGTCATA . PASS Atlas-SNP LRRC16A 55604 hgsc.bcm.edu 37 6 25606442 25606442 + Missense_Mutation SNP A A G rs201300946 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 116.0 53.0 99.0 0.0 0.456897 0 . . weak . LRRC16A 168 . NM_017640 exon35 c.A3788G p.K1263R CCCCCAAACCCAG . PASS Atlas-SNP COL6A2 1292 hgsc.bcm.edu 37 21 47535816 47535816 + Missense_Mutation SNP G G A rs61735835 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 58.0 32.0 42.0 0.0 0.551724 0 G|0.991;A|0.009 0.009 strong . COL6A2 351 . NM_058175 exon6 c.G832A p.E278K CCGGGAGAGCCTG . PASS Atlas-SNP DTNBP1 84062 hgsc.bcm.edu 37 6 15523388 15523388 + Missense_Mutation SNP T T C rs73369534 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 133.0 55.0 136.0 0.0 0.413534 0 T|0.967;C|0.033 0.033 strong . DTNBP1 56 . NM_032122 exon10 c.A874G p.R292G TGGCTCTTAATTC . PASS Atlas-SNP KIAA2018 205717 hgsc.bcm.edu 37 3 113379720 113379720 + Missense_Mutation SNP G G A rs114838141 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 200.0 78.0 173.0 0.0 0.39 0 G|0.996;A|0.004 0.004 strong . KIAA2018 180 . NM_001009899 exon7 c.C809T p.S270F TGCAAAGAATGAT . PASS Atlas-SNP OR10X1 128367 hgsc.bcm.edu 37 1 158549082 158549082 + Missense_Mutation SNP A A T rs61755876 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 207.0 100.0 185.0 0.0 0.483092 0 A|0.972;T|0.028 0.028 strong . OR10X1 96 . NM_001004477 exon1 c.T608A p.L203Q CAAGACAGCCTAA . PASS Atlas-SNP KIAA0754 643314 hgsc.bcm.edu 37 1 39879517 39879517 + Missense_Mutation SNP G G A rs587523 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 191.0 96.0 179.0 0.0 0.502618 0 G|0.932;A|0.068 0.068 strong . KIAA0754 93 . NM_015038 exon1 c.G3580A p.E1194K CTGGAGGAACCCA . PASS Atlas-SNP GIMAP6 474344 hgsc.bcm.edu 37 7 150325177 150325177 + Missense_Mutation SNP C C T rs11974345 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 52.0 23.0 47.0 0.0 0.442308 0 C|0.960;T|0.040 0.040 strong GIMAP6,NS,carcinoma,+1,1 GIMAP6 60 1 NM_001244072 exon3 c.G719A p.G240D GAGCCGCCAGCCA . PASS Atlas-SNP RBM19 9904 hgsc.bcm.edu 37 12 114386723 114386723 + Silent SNP G G A rs7979406 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 247.0 121.0 216.0 0.0 0.489879 0 G|0.971;A|0.029 0.029 strong . RBM19 117 . NM_001146699 exon10 c.C1191T p.D397D GGCCAGGTCCTCC . PASS Atlas-SNP POLR3A 11128 hgsc.bcm.edu 37 10 79781326 79781326 + Missense_Mutation SNP T T C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 69.0 29.0 77.0 0.0 0.42029 0 . . none . POLR3A 104 . NM_007055 exon8 c.A1163G p.K388R AGAATTTTGGCCA . PASS Atlas-SNP C5orf60 285679 hgsc.bcm.edu 37 5 179069413 179069413 + Missense_Mutation SNP A A G rs374415765 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 111.0 35.0 134.0 0.0 0.315315 0 . . weak . C5orf60 24 . NM_001142306 exon5 c.T761C p.I254T TGTCTTATGCGTC . PASS Atlas-SNP SORCS2 57537 hgsc.bcm.edu 37 4 7741941 7741941 + Missense_Mutation SNP G G A rs189272447 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 19.0 8.0 20.0 0.0 0.421053 0 G|0.999;A|0.001 0.001 strong . SORCS2 98 . NM_020777 exon27 c.G3430A p.V1144M TCAGGCGTGGTCC . PASS Atlas-SNP CCS 9973 hgsc.bcm.edu 37 11 66366682 66366682 + Missense_Mutation SNP G G A rs61731812 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 91.0 57.0 80.0 0.0 0.626374 0 G|0.996;A|0.004 0.004 strong . CCS 22 . NM_005125 exon3 c.G208A p.G70R GGCACGGGGCGGC . PASS Atlas-SNP SNX4 8723 hgsc.bcm.edu 37 3 125179676 125179676 + Missense_Mutation SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 196.0 94.0 203.0 0.0 0.479592 0 . . none . SNX4 29 . NM_003794 exon10 c.G883A p.E295K CATCTTCCAAAAT . PASS Atlas-SNP OR4N2 390429 hgsc.bcm.edu 37 14 20295972 20295972 + Missense_Mutation SNP G G A rs76952476 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 383.0 171.0 486.0 0.0 0.446475 0 G|0.977;A|0.023 0.023 strong OR4N2,NS,carcinoma,+1,5 OR4N2 125 5 NM_001004723 exon1 c.G365A p.R122H TTGACCGCTACAT . PASS Atlas-SNP ROBO2 6092 hgsc.bcm.edu 37 3 77614215 77614215 + Missense_Mutation SNP T T C rs185792666 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 82.0 44.0 61.0 0.0 0.536585 0 T|0.996;C|0.004 0.004 strong . ROBO2 527 . NM_002942 exon12 c.T1793C p.I598T GAGCGATCAACCC . PASS Atlas-SNP RPP40 10799 hgsc.bcm.edu 37 6 4996611 4996611 + Missense_Mutation SNP T T G rs61730291 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 98.0 47.0 132.0 0.0 0.479592 0 T|0.971;G|0.029 0.029 strong . RPP40 36 . NM_006638 exon6 c.A603C p.Q201H CTGAATTTGGTAC . PASS Atlas-SNP SERPINA5 5104 hgsc.bcm.edu 37 14 95058477 95058477 + Silent SNP G G A rs6117 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 124.0 77.0 126.0 0.0 0.620968 0 G|0.956;A|0.044 0.044 strong . SERPINA5 69 . NM_000624 exon6 c.G1122A p.S374S CAGGTCGGCCCGC . PASS Atlas-SNP OBSCN 84033 hgsc.bcm.edu 37 1 228559225 228559225 + Missense_Mutation SNP G G A rs200269110 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 20.0 8.0 12.0 0.0 0.4 0 . . weak . OBSCN 2142 . NM_001271223 exon105 c.G23617A p.E7873K CTGCGCGAGCCAC . PASS Atlas-SNP LYPD4 147719 hgsc.bcm.edu 37 19 42343355 42343355 + Missense_Mutation SNP C C G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 102.0 49.0 112.0 0.0 0.480392 0 . . none . LYPD4 30 . NM_173506 exon2 c.G5C p.G2A TGGGGTCCCATGG . PASS Atlas-SNP ANK2 287 hgsc.bcm.edu 37 4 114279770 114279770 + Silent SNP T T C rs145557320 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 45.0 74.0 0.0 0.483871 0 T|0.992;C|0.008 0.008 strong . ANK2 576 . NM_001148 exon38 c.T9996C p.S3332S ATCCAGTGTAGAT . PASS Atlas-SNP UBR2 23304 hgsc.bcm.edu 37 6 42562027 42562027 + Missense_Mutation SNP A A T rs6905054 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 66.0 22.0 64.0 0.0 0.333333 0 A|0.966;T|0.034 0.034 strong . UBR2 134 . NM_001184801 exon4 c.A516T p.E172D CTCTGAAATTGAG . PASS Atlas-SNP ASTN2 23245 hgsc.bcm.edu 37 9 119249690 119249690 + Missense_Mutation SNP C C T rs16933591 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 79.0 50.0 70.0 0.0 0.632911 0 C|0.979;T|0.021 0.021 strong ASTN2_ENST00000361477,NS,carcinoma,0,1 ASTN2 307 1 NM_014010 exon19 c.G3292A p.V1098I TACTGACTTCAGG . PASS Atlas-SNP PLA1A 51365 hgsc.bcm.edu 37 3 119347623 119347623 + Missense_Mutation SNP C C A rs115172544 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 141.0 65.0 156.0 0.0 0.460993 0 C|0.984;A|0.016 0.016 strong . PLA1A 65 . NM_015900 exon10 c.C1197A p.F399L GAAATTCAAGTTT . PASS Atlas-SNP FXR1 8087 hgsc.bcm.edu 37 3 180630500 180630500 + Silent SNP C C T rs1805578 bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 304.0 168.0 312.0 1.0 0.552632 0.00320513 C|0.961;T|0.039 0.039 strong . FXR1 75 . NM_001013438 exon1 c.C27T p.R9R GGTTCGCGGCTCT . PASS Atlas-SNP FBN3 84467 hgsc.bcm.edu 37 19 8150353 8150353 + Silent SNP C C T rs61729617 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 47.0 21.0 36.0 0.0 0.446809 0 C|0.967;T|0.033 0.033 strong . FBN3 300 . NM_032447 exon55 c.G6981A p.G2327G GCCACCCCCACAG . PASS Atlas-SNP TRIP10 9322 hgsc.bcm.edu 37 19 6751103 6751103 + Missense_Mutation SNP G G A rs139253875 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 146.0 65.0 118.0 0.0 0.445205 0 G|0.999;A|0.001 0.001 strong TRIP10_ENST00000313244,NS,carcinoma,0,2 TRIP10 104 2 NM_004240 exon14 c.G1519A p.E507K ATGGCCGAGGGTG . PASS Atlas-SNP HDHD2 84064 hgsc.bcm.edu 37 18 44660923 44660923 + Missense_Mutation SNP C C T rs7230131 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 46.0 128.0 0.0 0.494624 0 C|0.966;T|0.034 0.034 strong . HDHD2 12 . NM_032124 exon3 c.G254A p.R85Q TGTTTCCGCTCTA . PASS Atlas-SNP LEPROTL1 23484 hgsc.bcm.edu 37 8 29994923 29994923 + Missense_Mutation SNP G G A rs77053651 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 135.0 56.0 118.0 0.0 0.414815 0 G|0.984;A|0.016 0.016 strong . LEPROTL1 16 . NM_001128208 exon4 c.G415A p.V139M CAACCCGTGCTGA . PASS Atlas-SNP AMZ1 155185 hgsc.bcm.edu 37 7 2752026 2752026 + Silent SNP G G A rs61743920 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 40.0 22.0 55.0 0.0 0.55 0 G|0.988;A|0.012 0.012 strong . AMZ1 41 . NM_133463 exon7 c.G1011A p.P337P GGAGCCGTCAGTG . PASS Atlas-SNP ZNF93 81931 hgsc.bcm.edu 37 19 20044810 20044810 + Missense_Mutation SNP C C T rs75974774 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 92.0 47.0 70.0 0.0 0.51087 0 C|0.998;T|0.002 0.002 strong . ZNF93 81 . NM_031218 exon4 c.C1046T p.A349V GCAAAGCCTTTAT . PASS Atlas-SNP IGSF9 57549 hgsc.bcm.edu 37 1 159898437 159898437 + Missense_Mutation SNP G G A rs35574000 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 104.0 56.0 96.0 0.0 0.538462 0 G|0.987;A|0.013 0.013 strong . IGSF9 123 . NM_001135050 exon19 c.C2741T p.P914L GGACTGGGTGGGG . PASS Atlas-SNP KLHL32 114792 hgsc.bcm.edu 37 6 97533193 97533193 + Silent SNP C C A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 83.0 4.0 52.0 0.0 0.0481928 0 . . none KLHL32,mouth,carcinoma,+1,1 KLHL32 85 1 NM_052904 exon6 c.C603A p.S201S GACCTCCCTGAGT . PASS Atlas-SNP TMCO4 255104 hgsc.bcm.edu 37 1 20009837 20009837 + Missense_Mutation SNP G G C rs116650784 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 201.0 95.0 175.0 0.0 0.472637 0 G|0.975;C|0.025 0.025 strong . TMCO4 46 . NM_181719 exon16 c.C1601G p.A534G CCTGGGGCCAGCA . PASS Atlas-SNP IGF2R 3482 hgsc.bcm.edu 37 6 160469542 160469542 + Silent SNP A A G rs8191809 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 68.0 33.0 65.0 0.0 0.485294 0 A|0.988;G|0.012 0.012 strong . IGF2R 251 . NM_000876 exon18 c.A2481G p.A827A ATATGCATCGGCT . PASS Atlas-SNP OR13C4 138804 hgsc.bcm.edu 37 9 107289352 107289352 + Missense_Mutation SNP T T C rs61738891 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 82.0 32.0 86.0 0.0 0.390244 0 T|0.992;C|0.008 0.008 strong . OR13C4 55 . NM_001001919 exon1 c.A139G p.I47V TTGCTATGATCAG . PASS Atlas-SNP CCDC125 202243 hgsc.bcm.edu 37 5 68588029 68588029 + Missense_Mutation SNP T T C rs112794294 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 180.0 79.0 240.0 0.0 0.438889 0 T|0.986;C|0.014 0.014 strong . CCDC125 41 . NM_176816 exon9 c.A1085G p.H362R TTAAGGTGCTTCC . PASS Atlas-SNP BDP1 55814 hgsc.bcm.edu 37 5 70818150 70818150 + Missense_Mutation SNP C C G rs12187098 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 173.0 76.0 165.0 0.0 0.439306 0 C|0.971;G|0.029 0.029 strong . BDP1 204 . NM_018429 exon23 c.C5026G p.Q1676E TCAGCACAAATGA . PASS Atlas-SNP VPS54 51542 hgsc.bcm.edu 37 2 64160864 64160864 + Missense_Mutation SNP G G C rs34015596 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 88.0 50.0 88.0 0.0 0.568182 0 G|0.970;C|0.030 0.030 strong . VPS54 57 . NM_016516 exon12 c.C1682G p.S561C GATGAAGAATCAG . PASS Atlas-SNP TJP3 27134 hgsc.bcm.edu 37 19 3747890 3747890 + Silent SNP C C T rs10409928 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 132.0 76.0 91.0 0.0 0.575758 0 C|0.946;T|0.054 0.054 strong . TJP3 79 . NM_001267561 exon19 c.C2448T p.Y816Y CGACTACGAGACG . PASS Atlas-SNP USP17L2 377630 hgsc.bcm.edu 37 8 11996074 11996074 + Missense_Mutation SNP T T C rs142023572 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 124.0 50.0 120.0 0.0 0.403226 0 T|0.955;C|0.045 0.045 strong USP17L2,bladder,carcinoma,+2,1 USP17L2 47 1 NM_201402 exon1 c.A196G p.K66E GCTTCTTCCTGGG . scavenged Atlas-SNP CLCC1 23155 hgsc.bcm.edu 37 1 109479953 109479953 + Missense_Mutation SNP G G A rs150665002 byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 106.0 54.0 97.0 0.0 0.509434 0 G|1.000;A|0.000 0.000 strong . CLCC1 55 . NM_001048210 exon10 c.C1129T p.R377W TATCCCGTGGCCG . PASS Atlas-SNP OR2AE1 81392 hgsc.bcm.edu 37 7 99474007 99474007 + Missense_Mutation SNP T T C rs60737583 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 91.0 42.0 91.0 0.0 0.461538 0 T|0.932;C|0.068 0.068 strong . OR2AE1 32 . NM_001005276 exon1 c.A650G p.Y217C AAGACATAGGATG . PASS Atlas-SNP FSCN2 25794 hgsc.bcm.edu 37 17 79495890 79495890 + Silent SNP C C T rs117946784 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 10.0 5.0 9.0 0.0 0.5 0 C|0.990;T|0.010 0.010 strong . FSCN2 35 . NM_001077182 exon1 c.C333T p.F111F CTTCTTCGGAGGC . PASS Atlas-SNP TRERF1 55809 hgsc.bcm.edu 37 6 42233529 42233529 + Silent SNP G G A rs79466811 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 96.0 42.0 87.0 0.0 0.4375 0 G|0.981;A|0.019 0.019 strong . TRERF1 124 . NM_033502 exon6 c.C1444T p.L482L CAGGTAGGTGCAT . PASS Atlas-SNP SLC16A5 9121 hgsc.bcm.edu 37 17 73096199 73096199 + Silent SNP C C T rs142993518 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 123.0 52.0 130.0 0.0 0.422764 0 C|0.998;T|0.002 0.002 strong . SLC16A5 80 . NM_001271765 exon5 c.C441T p.G147G GATGGGCGTCTCC . PASS Atlas-SNP HLA-DOA 3111 hgsc.bcm.edu 37 6 32976013 32976013 + Silent SNP G G A rs78635760 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 89.0 60.0 66.0 0.0 0.674157 0 G|0.984;A|0.016 0.016 strong HLA-DOA,colon,carcinoma,0,1 HLA-DOA 22 1 NM_002119 exon2 c.C108T p.P36P GAAGGCGGGTCCG . PASS Atlas-SNP MLL3 58508 hgsc.bcm.edu 37 7 151859495 151859495 + Missense_Mutation SNP C C G rs115580901 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 176.0 93.0 158.0 0.0 0.528409 0 C|0.998;G|0.002 0.002 strong . MLL3 1564 . NM_170606 exon43 c.G11167C p.A3723P TCTCAGCCTTTTC . PASS Atlas-SNP TMEM200B 399474 hgsc.bcm.edu 37 1 29447765 29447765 + Silent SNP G G T rs115927590 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 56.0 23.0 72.0 0.0 0.410714 0 G|0.990;T|0.010 0.010 strong . TMEM200B 9 . NM_001171868 exon2 c.C576A p.S192S ACGCGGGGACGGG . PASS Atlas-SNP NOS3 4846 hgsc.bcm.edu 37 7 150710392 150710392 + Silent SNP G G A rs3730011 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 75.0 41.0 68.0 0.0 0.546667 0 G|0.995;A|0.005 0.005 strong NOS3,NS,carcinoma,+2,1 NOS3 131 1 NM_000603 exon25 c.G3180A p.E1060E CGACGAGGTGCAG . PASS Atlas-SNP CACNA1S 779 hgsc.bcm.edu 37 1 201046164 201046164 + Missense_Mutation SNP C C T rs114191482 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 368.0 187.0 311.0 0.0 0.508152 0 C|0.997;T|0.003 0.003 strong . CACNA1S 249 . NM_000069 exon12 c.G1711A p.V571I AGATGACGATGAA . PASS Atlas-SNP NLRC3 197358 hgsc.bcm.edu 37 16 3606947 3606947 + Missense_Mutation SNP G G T rs116349864 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 90.0 46.0 108.0 0.0 0.511111 0 G|0.985;T|0.015 0.015 strong . NLRC3 103 . NM_178844 exon8 c.C2148A p.D716E CAAAGCGTCTGCC . PASS Atlas-SNP CHST12 55501 hgsc.bcm.edu 37 7 2472599 2472599 + Missense_Mutation SNP C C A rs17132395 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 10.0 8.0 10.0 0.0 0.8 0 C|0.976;A|0.024 0.024 strong . CHST12 39 . NM_018641 exon2 c.C325A p.R109S TCCCCGCGCGACG . PASS Atlas-SNP PTGFRN 5738 hgsc.bcm.edu 37 1 117452869 117452869 + Missense_Mutation SNP C C G rs77292583 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 8.0 4.0 16.0 0.0 0.5 0 C|0.978;G|0.022 0.022 strong PTGFRN,NS,carcinoma,0,1 PTGFRN 91 1 NM_020440 exon1 c.C44G p.S15W TCCTGTCGTTGGG . PASS Atlas-SNP TMEM156 80008 hgsc.bcm.edu 37 4 39033851 39033851 + Missense_Mutation SNP G G A rs61732938 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 75.0 37.0 79.0 0.0 0.493333 0 G|0.998;A|0.002 0.002 strong . TMEM156 31 . NM_024943 exon1 c.C83T p.P28L CCTTTCGGTGTCT . PASS Atlas-SNP OR4S2 219431 hgsc.bcm.edu 37 11 55419147 55419147 + Silent SNP C C T rs74538149 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 73.0 72.0 111.0 1.0 0.986301 0.00900901 C|0.988;T|0.012 0.012 strong . OR4S2 89 . NM_001004059 exon1 c.C768T p.Y256Y TATGTACATGCGC . PASS Atlas-SNP MYO10 4651 hgsc.bcm.edu 37 5 16682062 16682062 + Silent SNP C C T rs16868979 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 127.0 64.0 111.0 0.0 0.503937 0 C|0.960;T|0.040 0.040 strong MYO10,NS,carcinoma,0,1 MYO10 198 1 NM_012334 exon31 c.G4107A p.P1369P CTCCTCCGGCGTG . PASS Atlas-SNP CIZ1 25792 hgsc.bcm.edu 37 9 130948018 130948018 + Silent SNP G G A rs45545033 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 63.0 43.0 49.0 0.0 0.68254 0 G|0.962;A|0.038 0.038 strong . CIZ1 75 . NM_001257975 exon5 c.C486T p.L162L GGCTGCGAGGCCT . PASS Atlas-SNP ALDH8A1 64577 hgsc.bcm.edu 37 6 135271178 135271178 + Missense_Mutation SNP T T C rs56954234 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 110.0 43.0 87.0 0.0 0.390909 0 T|0.985;C|0.015 0.015 strong . ALDH8A1 68 . NM_022568 exon1 c.A14G p.N5S AGTGCGTTTGTTC . PASS Atlas-SNP LIPE 3991 hgsc.bcm.edu 37 19 42906914 42906914 + Missense_Mutation SNP G G T rs7246232 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 122.0 57.0 115.0 0.0 0.467213 0 G|0.970;T|0.030 0.030 strong . LIPE 83 . NM_005357 exon9 c.C2812A p.R938S CGGCACGGACGCC . PASS Atlas-SNP FAM114A1 92689 hgsc.bcm.edu 37 4 38933869 38933869 + Missense_Mutation SNP C C T rs36058104 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 261.0 106.0 257.0 0.0 0.40613 0 C|0.979;T|0.021 0.021 strong . FAM114A1 42 . NM_138389 exon12 c.C1337T p.S446L ACATGTCGTCCAT . PASS Atlas-SNP TTN 7273 hgsc.bcm.edu 37 2 179614059 179614059 + Silent SNP T T C rs16866490 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 58.0 29.0 74.0 0.0 0.5 0 T|0.991;C|0.009 0.009 strong . TTN 18412 . NM_133379 exon46 c.A13068G p.Q4356Q CTGACATTGTATG . PASS Atlas-SNP DNAH9 1770 hgsc.bcm.edu 37 17 11532787 11532787 + Silent SNP C C T rs73290804 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 159.0 78.0 132.0 0.0 0.490566 0 C|0.978;T|0.022 0.022 strong . DNAH9 695 . NM_001372 exon7 c.C1404T p.S468S GTTCAGCGGCGTC . PASS Atlas-SNP PCDHA4 56144 hgsc.bcm.edu 37 5 140188392 140188392 + Silent SNP C C G rs7707144 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 92.0 29.0 83.0 0.0 0.315217 0 C|0.937;G|0.063 0.063 strong PCDHA4_ENST00000530339,NS,carcinoma,0,2 PCDHA4 419 2 NM_031500 exon1 c.C1620G p.A540A CGATGCCGGCGTG . PASS Atlas-SNP ZNF276 92822 hgsc.bcm.edu 37 16 89790020 89790020 + Silent SNP C C T rs34629175 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 123.0 66.0 107.0 0.0 0.536585 0 C|0.976;T|0.024 0.024 strong . ZNF276 70 . NM_001113525 exon4 c.C909T p.P303P CCTGCCCAGCACG . PASS Atlas-SNP ST7L 54879 hgsc.bcm.edu 37 1 113153536 113153536 + Silent SNP T T C rs35364712 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 268.0 134.0 254.0 0.0 0.5 0 T|0.984;C|0.016 0.016 strong . ST7L 31 . NM_138729 exon3 c.A378G p.T126T GCTCTCTGTTCCT . PASS Atlas-SNP DGKI 9162 hgsc.bcm.edu 37 7 137150665 137150665 + Silent SNP T T C rs35245703 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 28.0 92.0 0.0 0.368421 0 T|0.910;C|0.090 0.090 strong . DGKI 335 . NM_004717 exon27 c.A2625G p.E875E GGCTTGTTCCACC . PASS Atlas-SNP HAO1 54363 hgsc.bcm.edu 37 20 7920986 7920986 + Silent SNP C C T rs33931524 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 98.0 53.0 100.0 0.0 0.540816 0 C|0.966;T|0.034 0.034 strong . HAO1 71 . NM_017545 exon1 c.G84A p.R28R CCCAGACCTGTAA . PASS Atlas-SNP DCAF8L2 347442 hgsc.bcm.edu 37 X 27765405 27765405 + Silent SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 56.0 7.0 45.0 0.0 0.125 0 . . none . DCAF8L2 79 . NM_001136533 exon1 c.G393A p.E131E AGAGGAGGAGGAG . PASS Atlas-SNP EFCAB3 146779 hgsc.bcm.edu 37 17 60451185 60451185 + Missense_Mutation SNP G G C rs6504103 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 145.0 71.0 145.0 0.0 0.489655 0 G|0.983;C|0.017 0.017 strong . EFCAB3 71 . NM_001144933 exon2 c.G45C p.K15N TGGAAAGATTAAT . PASS Atlas-SNP MYO7B 4648 hgsc.bcm.edu 37 2 128381861 128381861 + Missense_Mutation SNP G G A rs61743523 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 74.0 40.0 69.0 0.0 0.540541 0 G|0.993;A|0.007 0.007 strong . MYO7B 359 . NM_001080527 exon29 c.G3935A p.R1312Q TCCTCCGAGGAGT . PASS Atlas-SNP STK40 83931 hgsc.bcm.edu 37 1 36820015 36820015 + Silent SNP T T C rs115120808 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 173.0 81.0 184.0 0.0 0.468208 0 T|0.990;C|0.010 0.010 strong . STK40 53 . NM_032017 exon7 c.A573G p.K191K GATATTTTTCTGT . PASS Atlas-SNP SSBP4 170463 hgsc.bcm.edu 37 19 18542201 18542201 + Silent SNP C C T rs113198578 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 425.0 236.0 367.0 0.0 0.555294 0 C|0.976;T|0.024 0.024 strong SSBP4,NS,neuroblastoma,0,1 SSBP4 19 1 NM_032627 exon6 c.C408T p.N136N CCCCAACGCCCCC . PASS Atlas-SNP GLRA4 441509 hgsc.bcm.edu 37 X 102979184 102979184 + Missense_Mutation SNP G G A rs16984014 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 150.0 98.0 144.0 0.0 0.653333 0 0|0.009;A|0.067 0.067 strong . GLRA4 86 . NM_001024452 exon4 c.C316T p.R106C ACAGGCGTGGGTC . PASS Atlas-SNP LAMB1 3912 hgsc.bcm.edu 37 7 107591720 107591720 + Silent SNP G G A rs25660 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 150.0 150.0 152.0 0.0 1 0 G|0.957;A|0.043 0.043 strong . LAMB1 185 . NM_002291 exon24 c.C3342T p.C1114C CTCGCTGCAGGTG . PASS Atlas-SNP CRB2 286204 hgsc.bcm.edu 37 9 126133252 126133252 + Silent SNP C C T rs55965026 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 51.0 33.0 59.0 0.0 0.647059 0 C|0.962;T|0.038 0.038 strong . CRB2 86 . NM_173689 exon7 c.C1920T p.C640C CACGTGCGCTGAT . PASS Atlas-SNP SYNE4 163183 hgsc.bcm.edu 37 19 36497747 36497747 + Missense_Mutation SNP C C G rs77925409 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 85.0 36.0 81.0 0.0 0.423529 0 C|0.979;G|0.021 0.021 strong . . . . NM_001039876 exon4 c.G523C p.A175P CCAGGGCTGCCCA . PASS Atlas-SNP PCYOX1 51449 hgsc.bcm.edu 37 2 70503954 70503954 + Silent SNP G G T rs36012096 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 199.0 89.0 197.0 0.0 0.447236 0 G|0.926;T|0.074 0.074 strong . PCYOX1 34 . NM_016297 exon6 c.G948T p.P316P CACTCCGTTGAAT . PASS Atlas-SNP SDK1 221935 hgsc.bcm.edu 37 7 4308360 4308360 + Missense_Mutation SNP C C T rs11981816 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 148.0 72.0 153.0 0.0 0.486486 0 C|0.967;T|0.033 0.033 strong . SDK1 361 . NM_001079653 exon20 c.C2018T p.P673L TGGCTCCCCGTGG . PASS Atlas-SNP PKHD1L1 93035 hgsc.bcm.edu 37 8 110408347 110408347 + Silent SNP C C T rs6469258 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 49.0 25.0 61.0 0.0 0.510204 0 C|0.975;T|0.025 0.025 strong PKHD1L1,NS,carcinoma,+2,1 PKHD1L1 522 1 NM_177531 exon11 c.C903T p.P301P TTTCCCCGTCAGA . PASS Atlas-SNP COL6A6 131873 hgsc.bcm.edu 37 3 130287096 130287096 + Silent SNP C C T rs61730501 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 247.0 126.0 243.0 0.0 0.510121 0 C|0.993;T|0.007 0.007 strong . COL6A6 497 . NM_001102608 exon5 c.C2049T p.S683S CCAAAGCGACATT . PASS Atlas-SNP TTN 7273 hgsc.bcm.edu 37 2 179401015 179401015 + Missense_Mutation SNP G G A rs72629779 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 179.0 85.0 178.0 0.0 0.47486 0 G|0.990;A|0.010 0.010 strong . TTN 18412 . NM_001267550 exon357 c.C100459T p.P33487S ATTTGGGAGTGAT . PASS Atlas-SNP PTX4 390667 hgsc.bcm.edu 37 16 1536047 1536047 + Missense_Mutation SNP T T C rs59554810 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 46.0 23.0 56.0 0.0 0.5 0 T|0.942;C|0.058 0.058 strong . PTX4 46 . NM_001013658 exon3 c.A1315G p.I439V TCCCGATGGCAAG . PASS Atlas-SNP SLC27A3 11000 hgsc.bcm.edu 37 1 153750650 153750650 + Missense_Mutation SNP G G A rs35102232 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 36.0 16.0 37.0 0.0 0.444444 0 G|0.979;A|0.021 0.021 strong . SLC27A3 42 . NM_024330 exon5 c.G1316A p.R439H CAGAACGTGGCCA . PASS Atlas-SNP NUBP2 10101 hgsc.bcm.edu 37 16 1838050 1838050 + Missense_Mutation SNP A A G rs57822546 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 80.0 36.0 78.0 0.0 0.45 0 A|0.895;G|0.105 0.105 strong . NUBP2 25 . NM_012225 exon5 c.A598G p.T200A CACTGCACGGTGA . PASS Atlas-SNP ADRA2A 150 hgsc.bcm.edu 37 10 112838135 112838135 + Silent SNP C C G rs142434876 byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 172.0 97.0 145.0 0.0 0.563953 0 C|0.998;G|0.002 0.002 strong . ADRA2A 38 . NM_000681 exon1 c.C381G p.L127L GGCGCTCGACGTG . PASS Atlas-SNP MAPKAP1 79109 hgsc.bcm.edu 37 9 128206855 128206855 + Silent SNP C C T rs35549826 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 166.0 67.0 112.0 1.0 0.403614 0.00892857 C|0.994;T|0.006 0.006 strong MAPKAP1_ENST00000265960,NS,carcinoma,-1,4 MAPKAP1 68 4 NM_001006617 exon11 c.G1368A p.T456T TAGATACGTGAGT . scavenged Atlas-SNP SARDH 1757 hgsc.bcm.edu 37 9 136577770 136577770 + Silent SNP C C T rs147188337 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 58.0 42.0 59.0 0.0 0.724138 0 C|0.996;T|0.004 0.004 strong . SARDH 112 . NM_007101 exon10 c.G1299A p.P433P CTTCTCCGGGCGC . PASS Atlas-SNP FAM83G 644815 hgsc.bcm.edu 37 17 18881225 18881225 + Missense_Mutation SNP T T A rs200348726 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 59.0 35.0 54.0 0.0 0.59322 0 T|1.000;A|0.000 0.000 strong . FAM83G 51 . NM_001039999 exon5 c.A1754T p.D585V TAGTCGTCATCAT . PASS Atlas-SNP AHNAK2 113146 hgsc.bcm.edu 37 14 105417738 105417738 + Silent SNP G G C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 265.0 107.0 371.0 0.0 0.403774 0 . . none . AHNAK2 719 . NM_138420 exon7 c.C4050G p.S1350S GTCCACGGAGGCC . PASS Atlas-SNP HIST1H2BH 8345 hgsc.bcm.edu 37 6 26252148 26252148 + Silent SNP C C T rs61746493 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 171.0 91.0 136.0 0.0 0.532164 0 C|0.968;T|0.032 0.032 strong . HIST1H2BH 36 . NM_003524 exon1 c.C270T p.I90I GACCATCACCTCC . PASS Atlas-SNP PLEKHG2 64857 hgsc.bcm.edu 37 19 39915677 39915677 + Missense_Mutation SNP G G A rs34603507 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 26.0 17.0 27.0 0.0 0.653846 0 G|0.970;A|0.030 0.030 strong . PLEKHG2 329 . NM_022835 exon19 c.G3904A p.A1302T GCCCCCGCAGCCT . PASS Atlas-SNP TATDN3 128387 hgsc.bcm.edu 37 1 212969889 212969889 + Missense_Mutation SNP G G A rs55709122 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 99.0 52.0 78.0 0.0 0.525253 0 G|0.997;A|0.003 0.003 strong . TATDN3 23 . NM_001146170 exon3 c.G130A p.E44K GTTGCCGAACATT . PASS Atlas-SNP ULK1 8408 hgsc.bcm.edu 37 12 132404101 132404101 + Silent SNP C C T rs143340589 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 77.0 28.0 102.0 0.0 0.363636 0 C|0.998;T|0.002 0.002 strong . ULK1 92 . NM_003565 exon25 c.C2769T p.A923A CCGGGCCGGCAAG . PASS Atlas-SNP FAM179B 23116 hgsc.bcm.edu 37 14 45473265 45473265 + Silent SNP G G A rs17092470 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 37.0 16.0 27.0 0.0 0.432432 0 G|0.948;A|0.052 0.052 strong . FAM179B 115 . NM_015091 exon4 c.G2340A p.V780V TACAGTGTATGCT . PASS Atlas-SNP GPR17 2840 hgsc.bcm.edu 37 2 128408747 128408747 + Silent SNP C C A rs34722685 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 88.0 44.0 84.0 0.0 0.5 0 C|0.985;A|0.015 0.015 strong . GPR17 56 . NM_005291 exon3 c.C522A p.L174L GCCCCTCTACGCA . PASS Atlas-SNP WDR66 144406 hgsc.bcm.edu 37 12 122396424 122396424 + Silent SNP C C A rs73415652 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 123.0 68.0 119.0 0.0 0.552846 0 C|0.963;A|0.037 0.037 strong . WDR66 143 . NM_001178003 exon12 c.C1977A p.P659P CAACCCCGAAGGT . PASS Atlas-SNP ZFP36 7538 hgsc.bcm.edu 37 19 39898521 39898521 + Missense_Mutation SNP C C T rs2229272 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 32.0 18.0 25.0 0.0 0.5625 0 C|0.998;T|0.002 0.002 strong . ZFP36 19 . NM_003407 exon2 c.C181T p.P61S CGCCTGCCTGGCC . PASS Atlas-SNP CEP170 9859 hgsc.bcm.edu 37 1 243328226 243328226 + Silent SNP A A G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 616.0 236.0 527.0 0.0 0.383117 0 . . none . CEP170 153 . NM_014812 exon13 c.T3036C p.S1012S TCTCCCACTGGAC . PASS Atlas-SNP LRRC55 219527 hgsc.bcm.edu 37 11 56949529 56949529 + Silent SNP C C T rs80306837 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 142.0 66.0 185.0 0.0 0.464789 0 C|0.952;T|0.048 0.048 strong . LRRC55 52 . NM_001005210 exon1 c.C162T p.P54P CTGGCCCGGGCCA . PASS Atlas-SNP S1PR1 1901 hgsc.bcm.edu 37 1 101704772 101704772 + Silent SNP C C A rs150493209 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 139.0 62.0 164.0 0.0 0.446043 0 C|1.000;A|0.000 0.000 strong . S1PR1 87 . NM_001400 exon2 c.C232A p.R78R TTCCACCGACCCA . PASS Atlas-SNP ZBED2 79413 hgsc.bcm.edu 37 3 111312965 111312965 + Silent SNP A A T rs34083626 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 304.0 136.0 265.0 1.0 0.447368 0.00377358 A|0.950;T|0.050 0.050 strong . ZBED2 22 . NM_024508 exon2 c.T84A p.I28I CTCACTAATCTCT . PASS Atlas-SNP ZKSCAN2 342357 hgsc.bcm.edu 37 16 25266547 25266547 + Missense_Mutation SNP C C A rs113273135 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 101.0 58.0 92.0 0.0 0.574257 0 C|0.991;A|0.009 0.009 strong ZKSCAN2,NS,carcinoma,-1,1 ZKSCAN2 90 1 NM_001012981 exon2 c.G566T p.R189L GGCCGACGTTCTC . PASS Atlas-SNP ITGA4 3676 hgsc.bcm.edu 37 2 182376480 182376480 + Missense_Mutation SNP T T A rs35322532 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 149.0 149.0 192.0 0.0 1 0 T|0.987;A|0.013 0.013 strong . ITGA4 142 . NM_000885 exon17 c.T1900A p.S634T CAGGTTTCTGCAA . PASS Atlas-SNP DIABLO 56616 hgsc.bcm.edu 37 12 122692958 122692958 + Silent SNP C C T rs35426428 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 168.0 168.0 130.0 1.0 1 0.00769231 C|0.906;T|0.094 0.094 strong DIABLO,NS,carcinoma,-2,1 DIABLO 16 1 NM_019887 exon7 c.G690A p.S230S CTGCTCCGACTCA . PASS Atlas-SNP SMCO2 0 hgsc.bcm.edu 37 12 27628521 27628521 + Silent SNP G G C rs77197438 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 62.0 30.0 65.0 0.0 0.483871 0 G|0.993;C|0.007 0.007 strong . . . . NM_001145010 exon5 c.G369C p.L123L GTGTCTGAAGGGC . PASS Atlas-SNP SLURP1 57152 hgsc.bcm.edu 37 8 143822612 143822612 + Silent SNP G G A rs62636564 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 79.0 41.0 74.0 0.0 0.518987 0 G|0.979;A|0.021 0.021 strong . SLURP1 16 . NM_020427 exon3 c.C261T p.A87A GTGGGCGGCCCCG . PASS Atlas-SNP MRC2 9902 hgsc.bcm.edu 37 17 60767303 60767303 + Missense_Mutation SNP G G A rs77299955 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 84.0 38.0 75.0 0.0 0.452381 0 G|0.991;A|0.009 0.009 strong . MRC2 126 . NM_006039 exon25 c.G3622A p.G1208S TACGTGGGCTGGC . PASS Atlas-SNP PGLYRP2 114770 hgsc.bcm.edu 37 19 15587103 15587103 + Silent SNP C C T rs35973013 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 136.0 76.0 125.0 0.0 0.558824 0 C|0.981;T|0.019 0.019 strong . PGLYRP2 116 . NM_052890 exon2 c.G378A p.A126A CAGCCCCGCCAGC . PASS Atlas-SNP ZNF678 339500 hgsc.bcm.edu 37 1 227842561 227842561 + Missense_Mutation SNP A A G rs116552491 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 46.0 23.0 49.0 0.0 0.5 0 A|0.996;G|0.004 0.004 strong . ZNF678 137 . NM_178549 exon4 c.A775G p.S259G ATTCATAGTGGAG . PASS Atlas-SNP C7orf71 285941 hgsc.bcm.edu 37 7 26678910 26678910 + Silent SNP C C T rs111516571 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 21.0 20.0 38.0 0.0 0.952381 0 C|0.925;T|0.075 0.075 strong . C7orf71 6 . NM_001145531 exon2 c.C147T p.L49L GGGCCTCGGGGAA . PASS Atlas-SNP TNC 3371 hgsc.bcm.edu 37 9 117848368 117848368 + Missense_Mutation SNP C C T rs61729478 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 165.0 108.0 181.0 0.0 0.654545 0 C|0.990;T|0.010 0.010 strong . TNC 282 . NM_002160 exon3 c.G1642A p.V548M GGCACACGCACTG . PASS Atlas-SNP C17orf50 146853 hgsc.bcm.edu 37 17 34091130 34091130 + Missense_Mutation SNP C C A rs140052043 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 34.0 71.0 0.0 0.447368 0 C|0.993;A|0.007 0.007 strong . C17orf50 4 . NM_145272 exon2 c.C118A p.Q40K GACAACCAGAGGC . PASS Atlas-SNP TNS3 64759 hgsc.bcm.edu 37 7 47343079 47343079 + Missense_Mutation SNP A A G rs61731305 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 94.0 55.0 73.0 0.0 0.585106 0 A|0.989;G|0.011 0.011 strong . TNS3 140 . NM_022748 exon22 c.T2926C p.S976P TACCGGAGAACTC . PASS Atlas-SNP PCDHB10 56126 hgsc.bcm.edu 37 5 140573759 140573759 + Missense_Mutation SNP C C T rs17844584 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 145.0 68.0 147.0 1.0 0.468966 0.00680272 C|0.993;T|0.007 0.007 strong PCDHB10,colon,carcinoma,0,1 PCDHB10 177 1 NM_018930 exon1 c.C1634T p.A545V GAGAGGCGCTGGT . scavenged Atlas-SNP TIGD7 91151 hgsc.bcm.edu 37 16 3349300 3349300 + Missense_Mutation SNP C C G rs151295470 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 300.0 142.0 264.0 0.0 0.473333 0 C|1.000;G|0.000 0.000 weak . TIGD7 41 . NM_033208 exon2 c.G1315C p.V439L ACCACACCCTATC . PASS Atlas-SNP WDR26 80232 hgsc.bcm.edu 37 1 224607296 224607296 + Silent SNP T T C rs142827296 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 46.0 77.0 0.0 0.46 0 T|0.999;C|0.001 0.001 strong WDR26_ENST00000414423,NS,carcinoma,0,2 WDR26 104 2 NM_025160 exon5 c.A786G p.A262A GTCTTCTGCATGG . PASS Atlas-SNP SCAF1 58506 hgsc.bcm.edu 37 19 50157980 50157980 + Silent SNP G G A rs61741228 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 66.0 29.0 53.0 0.0 0.439394 0 G|0.993;A|0.007 0.007 strong . SCAF1 78 . NM_021228 exon9 c.G3471A p.L1157L GGGTCTGCCCCCT . PASS Atlas-SNP PINK1 65018 hgsc.bcm.edu 37 1 20975047 20975047 + Silent SNP T T C rs45499398 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 101.0 52.0 81.0 0.0 0.514852 0 T|0.989;C|0.011 0.011 strong . PINK1 37 . NM_032409 exon6 c.T1173C p.D391D GGCTGATGAGAGC . PASS Atlas-SNP FAM101A 144347 hgsc.bcm.edu 37 12 124798797 124798797 + Missense_Mutation SNP C C T rs116090335 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 144.0 80.0 114.0 0.0 0.555556 0 C|0.998;T|0.002 0.002 strong . FAM101A 10 . NM_181709 exon3 c.C134T p.A45V TCTATGCGCCCGT . PASS Atlas-SNP COL6A3 1293 hgsc.bcm.edu 37 2 238243369 238243369 + Silent SNP G G A rs10201909 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 149.0 72.0 128.0 1.0 0.483221 0.0078125 G|0.933;A|0.067 0.067 strong COL6A3,colon,carcinoma,-1,2 COL6A3 608 2 NM_004369 exon41 c.C9129T p.R3043R AATGACGCGGTCC . scavenged Atlas-SNP CYLC1 1538 hgsc.bcm.edu 37 X 83128911 83128911 + Missense_Mutation SNP G G C rs12008888 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 91.0 44.0 106.0 0.0 0.483516 0 0|0.017;C|0.055 0.055 strong . CYLC1 272 . NM_021118 exon4 c.G1195C p.D399H AAAAAGGATGCAA . PASS Atlas-SNP SCML4 256380 hgsc.bcm.edu 37 6 108029133 108029133 + Silent SNP C C T rs61742583 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 171.0 78.0 138.0 0.0 0.45614 0 C|0.991;T|0.009 0.009 strong . SCML4 65 . NM_198081 exon7 c.G1056A p.V352V AAACCACACCACG . PASS Atlas-SNP KRTAP4-5 85289 hgsc.bcm.edu 37 17 39305760 39305760 + Missense_Mutation SNP C C T rs427961 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 90.0 44.0 150.0 0.0 0.488889 0 T|1.000;|0.000 1.000 weak . KRTAP4-5 34 . NM_033188 exon1 c.G260A p.R87K GTGGTCCTGCAGC . PASS Atlas-SNP FAM71E2 284418 hgsc.bcm.edu 37 19 55870319 55870319 + Silent SNP C C T rs143731075 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 66.0 30.0 83.0 0.0 0.454545 0 C|0.983;T|0.017 0.017 strong . FAM71E2 41 . NM_001145402 exon9 c.G1917A p.Q639Q CTTCCCCTGGCCC . PASS Atlas-SNP SCARF1 8578 hgsc.bcm.edu 37 17 1538561 1538561 + Missense_Mutation SNP G G A rs8072430 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 68.0 25.0 53.0 0.0 0.367647 0 G|0.979;A|0.021 0.021 strong . SCARF1 46 . NM_003693 exon11 c.C1984T p.R662W GGGGCCGCCGGTG . PASS Atlas-SNP PRKG1 5592 hgsc.bcm.edu 37 10 53822344 53822344 + Silent SNP T T C rs113994747 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 119.0 68.0 121.0 0.0 0.571429 0 T|0.976;C|0.024 0.024 strong . PRKG1 167 . NM_006258 exon7 c.T888C p.L296L CTTTCTTAGAACT . PASS Atlas-SNP ESYT3 83850 hgsc.bcm.edu 37 3 138176436 138176436 + Silent SNP A A G rs35605373 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 154.0 75.0 130.0 0.0 0.487013 0 A|0.975;G|0.025 0.025 strong . ESYT3 64 . NM_031913 exon4 c.A531G p.A177A CAAGGCACACACT . PASS Atlas-SNP FBXW9 84261 hgsc.bcm.edu 37 19 12807187 12807187 + Missense_Mutation SNP C C T rs6511833 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 69.0 33.0 44.0 0.0 0.478261 0 C|0.880;T|0.120 0.120 strong . FBXW9 30 . NM_032301 exon1 c.G209A p.R70K GAAACCCTGGACG . PASS Atlas-SNP HMMR 3161 hgsc.bcm.edu 37 5 162910136 162910136 + Missense_Mutation SNP A A G rs112257004 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 128.0 53.0 121.0 0.0 0.414062 0 A|0.990;G|0.010 0.010 strong . HMMR 64 . NM_001142556 exon14 c.A1643G p.Q548R AGCAACAGGAGGA . PASS Atlas-SNP MMP15 4324 hgsc.bcm.edu 37 16 58079268 58079268 + Missense_Mutation SNP C C T rs141377329 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 90.0 51.0 77.0 0.0 0.566667 0 C|0.997;T|0.003 0.003 strong . MMP15 58 . NM_002428 exon10 c.C1928T p.T643I GCCTCACCTACGC . PASS Atlas-SNP INPP5B 3633 hgsc.bcm.edu 37 1 38411444 38411444 + Missense_Mutation SNP C C T rs56993041 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 215.0 118.0 191.0 1.0 0.548837 0.0052356 C|0.978;T|0.022 0.022 strong . INPP5B 76 . NM_005540 exon3 c.G136A p.G46S GGCCGCCGTGCTC . PASS Atlas-SNP TNXB 7148 hgsc.bcm.edu 37 6 32023903 32023903 + Missense_Mutation SNP G G C rs440160 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 126.0 63.0 101.0 0.0 0.5 0 G|0.931;C|0.069 0.069 strong . TNXB 553 . NM_019105 exon24 c.C8192G p.P2731R GGCTCCGGGGCCT . PASS Atlas-SNP ZNF668 79759 hgsc.bcm.edu 37 16 31075364 31075364 + Silent SNP G G A rs34889904 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 60.0 29.0 38.0 0.0 0.483333 0 G|0.990;A|0.010 0.010 strong . ZNF668 121 . NM_001172669 exon3 c.C486T p.P162P GCGGAAGGGCAGT . PASS Atlas-SNP CEP135 9662 hgsc.bcm.edu 37 4 56837458 56837458 + Missense_Mutation SNP A A G rs141602415 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 122.0 57.0 141.0 0.0 0.467213 0 A|0.998;G|0.002 0.002 strong CEP135,NS,carcinoma,+1,1 CEP135 115 1 NM_025009 exon10 c.A1133G p.E378G AGAAAGAAAAGGA . PASS Atlas-SNP POF1B 79983 hgsc.bcm.edu 37 X 84600948 84600948 + Missense_Mutation SNP T T C rs60768249 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 202.0 106.0 228.0 0.0 0.524752 0 T|0.958;C|0.042 0.042 strong . POF1B 77 . NM_024921 exon6 c.A641G p.Q214R ATGGCTTGGATTT . PASS Atlas-SNP PLEC 5339 hgsc.bcm.edu 37 8 144991428 144991428 + Silent SNP G G A rs11998271 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 42.0 22.0 40.0 0.0 0.52381 0 G|0.957;A|0.043 0.043 strong . PLEC 1144 . NM_201380 exon32 c.C12972T p.D4324D CACGCCGTCCGAG . PASS Atlas-SNP SEMA5B 54437 hgsc.bcm.edu 37 3 122634665 122634665 + Missense_Mutation SNP G G C rs34037493 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 280.0 144.0 255.0 0.0 0.514286 0 G|0.970;C|0.030 0.030 strong . SEMA5B 303 . NM_001256347 exon13 c.C1923G p.D641E GGAGCTGTCCTCG . PASS Atlas-SNP GNA13 10672 hgsc.bcm.edu 37 17 63049709 63049709 + Missense_Mutation SNP C C T rs116700192 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 105.0 102.0 104.0 0.0 0.971429 0 C|0.988;T|0.012 0.012 strong . GNA13 69 . NM_006572 exon2 c.G421A p.V141I AGAAAACCCTTGT . PASS Atlas-SNP UBR4 23352 hgsc.bcm.edu 37 1 19403331 19403331 + Silent SNP G G A rs142064832 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 193.0 88.0 195.0 0.0 0.455959 0 G|0.999;A|0.001 0.001 strong . UBR4 415 . NM_020765 exon105 c.C15390T p.N5130N CATGTCGTTGTGG . PASS Atlas-SNP TPRX1 284355 hgsc.bcm.edu 37 19 48305731 48305731 + Silent SNP G G T rs79291962 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 129.0 60.0 111.0 0.0 0.465116 0 G|0.993;T|0.007 0.007 strong . TPRX1 46 . NM_198479 exon2 c.C537A p.I179I GCCTGGGATCGGG . PASS Atlas-SNP URB2 9816 hgsc.bcm.edu 37 1 229772285 229772285 + Missense_Mutation SNP C C T rs115230066 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 253.0 130.0 215.0 0.0 0.513834 0 C|0.999;T|0.001 0.001 strong . URB2 152 . NM_014777 exon4 c.C1925T p.S642L AGATCTCGAACCT . PASS Atlas-SNP PADI2 11240 hgsc.bcm.edu 37 1 17413127 17413127 + Silent SNP G G A rs35184728 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 110.0 62.0 84.0 0.0 0.563636 0 G|0.976;A|0.024 0.024 strong PADI2,NS,malignant_melanoma,-1,1 PADI2 72 1 NM_007365 exon7 c.C723T p.Y241Y ACCCGTGTACTTG . PASS Atlas-SNP MYBBP1A 10514 hgsc.bcm.edu 37 17 4458536 4458536 + Silent SNP T T C rs144321472 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 64.0 39.0 59.0 0.0 0.609375 0 T|0.995;C|0.005 0.005 strong . MYBBP1A 69 . NM_014520 exon1 c.A84G p.L28L CTTCAATAGGCCA . PASS Atlas-SNP TCEB3 6924 hgsc.bcm.edu 37 1 24078234 24078234 + Missense_Mutation SNP T T C rs34394004 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 74.0 36.0 63.0 0.0 0.486486 0 T|0.935;C|0.065 0.065 strong . TCEB3 61 . NM_003198 exon4 c.T1217C p.L406S CTAATTTGGATAG . PASS Atlas-SNP KLF4 9314 hgsc.bcm.edu 37 9 110249415 110249415 + Silent SNP T T C rs45596731 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 269.0 171.0 270.0 1.0 0.635688 0.0037037 T|0.996;C|0.004 0.004 strong . KLF4 106 . NM_004235 exon4 c.A1158G p.R386R CCACGATCGTCTT . PASS Atlas-SNP HYDIN 54768 hgsc.bcm.edu 37 16 70841703 70841703 + Missense_Mutation SNP A A G rs116730273 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 310.0 142.0 273.0 0.0 0.458065 0 A|0.994;G|0.006 0.006 strong . HYDIN 788 . NM_001270974 exon86 c.T15146C p.M5049T GTCACCATGTGAT . PASS Atlas-SNP CLTCL1 8218 hgsc.bcm.edu 37 22 19178854 19178854 + Missense_Mutation SNP G G A rs190366603 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 88.0 51.0 91.0 0.0 0.579545 0 G|0.999;A|0.001 0.001 strong CLTCL1,NS,carcinoma,0,1 CLTCL1 115 1 NM_001835 exon27 c.C4285T p.R1429W CCAGCCGGGGTGA . PASS Atlas-SNP SLC25A13 10165 hgsc.bcm.edu 37 7 95820500 95820500 + Silent SNP C C T rs78247004 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 67.0 34.0 77.0 0.0 0.507463 0 C|0.985;T|0.015 0.015 strong SLC25A13,NS,carcinoma,-1,2 SLC25A13 131 2 NM_001160210 exon7 c.G675A p.S225S AAGGAGCGAATTA . PASS Atlas-SNP NFRKB 4798 hgsc.bcm.edu 37 11 129752426 129752426 + Silent SNP G G A rs76967949 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 85.0 51.0 89.0 0.0 0.6 0 G|0.985;A|0.015 0.015 strong . NFRKB 101 . NM_006165 exon8 c.C1077T p.A359A CGGCTCGGCCAGG . PASS Atlas-SNP RAB25 57111 hgsc.bcm.edu 37 1 156039960 156039960 + Missense_Mutation SNP C C T rs115837676 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 317.0 157.0 331.0 1.0 0.495268 0.00302115 C|0.996;T|0.004 0.004 strong RAB25,NS,carcinoma,-1,1 RAB25 18 1 NM_020387 exon5 c.C524T p.A175V TCTTTGCGAAGGT . PASS Atlas-SNP GRAMD3 65983 hgsc.bcm.edu 37 5 125696127 125696127 + Missense_Mutation SNP A A G rs78682130 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 210.0 80.0 181.0 0.0 0.380952 0 A|0.975;G|0.025 0.025 strong . GRAMD3 30 . NM_001146319 exon1 c.A104G p.K35R AAGTGAAGCCAGT . PASS Atlas-SNP TANC1 85461 hgsc.bcm.edu 37 2 160087410 160087410 + Missense_Mutation SNP C C T rs77049231 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 165.0 94.0 193.0 0.0 0.569697 0 C|0.980;T|0.020 0.020 strong . TANC1 157 . NM_033394 exon27 c.C5473T p.H1825Y GTTTCTCATCTGT . PASS Atlas-SNP CCDC142 84865 hgsc.bcm.edu 37 2 74708453 74708453 + Silent SNP A A T rs115125840 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 144.0 56.0 173.0 0.0 0.388889 0 A|0.997;T|0.003 0.003 strong . CCDC142 40 . NM_032779 exon3 c.T1155A p.L385L TGTGGGAAGGCTG . PASS Atlas-SNP DDX47 51202 hgsc.bcm.edu 37 12 12980305 12980305 + Missense_Mutation SNP G G A rs373273540 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 116.0 73.0 118.0 0.0 0.62931 0 . . weak DDX47,colon,carcinoma,+1,1 DDX47 37 1 NM_016355 exon11 c.G1232A p.R411Q TTGCCCGAATGGT . PASS Atlas-SNP SALL4 57167 hgsc.bcm.edu 37 20 50406646 50406646 + Silent SNP A A G rs143601538 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 302.0 158.0 323.0 0.0 0.523179 0 A|0.999;G|0.001 0.001 strong . SALL4 168 . NM_020436 exon2 c.T2376C p.N792N TTGACTATTGGCC . PASS Atlas-SNP NXPE1 120400 hgsc.bcm.edu 37 11 114393066 114393066 + Missense_Mutation SNP A A G rs34993124 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 161.0 74.0 172.0 0.0 0.459627 0 A|0.982;G|0.018 0.018 strong . NXPE1 8 . NM_152315 exon6 c.T842C p.I281T CGGTCAATTTCCC . PASS Atlas-SNP SMC2 10592 hgsc.bcm.edu 37 9 106901506 106901506 + Silent SNP A A G rs16923746 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 194.0 66.0 177.0 0.0 0.340206 0 A|0.935;G|0.065 0.065 strong . SMC2 127 . NM_006444 exon25 c.A3504G p.V1168V TACAGTAGCCAGA . PASS Atlas-SNP ZCCHC9 84240 hgsc.bcm.edu 37 5 80604427 80604427 + Silent SNP C C T rs149561750 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 180.0 78.0 187.0 1.0 0.433333 0.00534759 C|0.998;T|0.002 0.002 strong ZCCHC9,bladder,carcinoma,0,1 ZCCHC9 26 1 NM_001131036 exon3 c.C432T p.P144P TTGCCCCGCCGCC . scavenged Atlas-SNP CDKN1A 1026 hgsc.bcm.edu 37 6 36652135 36652135 + Missense_Mutation SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 54.0 23.0 41.0 0.0 0.425926 0 . . none CDKN1A,NS,carcinoma,+1,1 CDKN1A 27 1 NM_001220778 exon2 c.G257A p.R86Q GAGGCCGGGATGA . PASS Atlas-SNP GALNT4 8693 hgsc.bcm.edu 37 12 89916781 89916781 + Missense_Mutation SNP G G T rs139995124 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 84.0 46.0 82.0 0.0 0.547619 0 G|0.996;T|0.004 0.004 strong . GALNT4 38 . NM_003774 exon1 c.C1546A p.Q516K AATTTTGCATTCC . PASS Atlas-SNP PTGIR 5739 hgsc.bcm.edu 37 19 47124579 47124579 + Silent SNP C C T rs2229130 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 124.0 62.0 136.0 0.0 0.5 0 C|0.984;T|0.016 0.016 strong . PTGIR 31 . NM_000960 exon3 c.G1119A p.T373T GGACGACGTTCCC . PASS Atlas-SNP MYO7B 4648 hgsc.bcm.edu 37 2 128381717 128381717 + Missense_Mutation SNP G G A rs2245408 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 90.0 51.0 78.0 0.0 0.566667 0 G|0.990;A|0.010 0.010 strong . MYO7B 359 . NM_001080527 exon29 c.G3791A p.R1264Q TCGCCCGGTGTGA . PASS Atlas-SNP PTCRA 171558 hgsc.bcm.edu 37 6 42893328 42893328 + Missense_Mutation SNP T T C rs115331994 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 85.0 50.0 62.0 0.0 0.588235 0 T|0.994;C|0.006 0.006 strong . PTCRA 24 . NM_001243168 exon4 c.T799C p.C267R GCCTGGTGCTCAA . PASS Atlas-SNP SEMA3D 223117 hgsc.bcm.edu 37 7 84697540 84697540 + Missense_Mutation SNP C C T rs148351346 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 98.0 46.0 99.0 0.0 0.469388 0 C|0.999;T|0.001 0.001 strong . SEMA3D 177 . NM_152754 exon5 c.G556A p.D186N GAGGATCGAAAGG . PASS Atlas-SNP SOWAHD 347454 hgsc.bcm.edu 37 X 118893390 118893390 + Missense_Mutation SNP A A G rs12841259 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 97.0 59.0 100.0 0.0 0.608247 0 A|0.958;G|0.042 0.042 strong . . . . NM_001105576 exon1 c.A760G p.T254A GGGTGCACCAACC . PASS Atlas-SNP HECA 51696 hgsc.bcm.edu 37 6 139488364 139488364 + Silent SNP C C G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 96.0 59.0 95.0 0.0 0.614583 0 . . none . HECA 45 . NM_016217 exon2 c.C1215G p.L405L GGCGCTCCCGGTG . PASS Atlas-SNP TBC1D16 125058 hgsc.bcm.edu 37 17 77984168 77984168 + Silent SNP G G A rs35393459 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 112.0 64.0 141.0 0.0 0.571429 0 G|0.967;A|0.033 0.033 strong . TBC1D16 48 . NM_019020 exon3 c.C570T p.V190V CGGACTGACCGTC . PASS Atlas-SNP FLII 2314 hgsc.bcm.edu 37 17 18148944 18148944 + Silent SNP C C G rs113208618 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 92.0 42.0 76.0 0.0 0.456522 0 C|0.964;G|0.036 0.036 strong . FLII 79 . NM_002018 exon28 c.G3534C p.V1178V CTCAGTCACTGCA . PASS Atlas-SNP KRT79 338785 hgsc.bcm.edu 37 12 53215684 53215684 + Missense_Mutation SNP G G A rs73303800 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 73.0 40.0 64.0 0.0 0.547945 0 G|0.990;A|0.010 0.010 strong . KRT79 78 . NM_175834 exon9 c.C1580T p.T527M TTGACCGTAGTGG . PASS Atlas-SNP AQP12B 653437 hgsc.bcm.edu 37 2 241622008 241622008 + Missense_Mutation SNP G G A rs187845451 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 245.0 98.0 165.0 0.0 0.4 0 G|0.991;A|0.009 0.009 strong AQP12B,colon,carcinoma,+2,1 AQP12B 33 1 NM_001102467 exon1 c.C247T p.H83Y CCCCGTGCGCCAG . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195506483 195506483 + Missense_Mutation SNP T T C rs201375109 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 47.0 6.0 72.0 0.0 0.12766 0 C|0.002;G|0.002;T|0.996 0.002 weak MUC4_ENST00000463781,NS,carcinoma,0,1 MUC4 1505 1 NM_018406 exon2 c.A11968G p.T3990A AGGAAGTGTCGGT . scavenged Atlas-SNP NUP133 55746 hgsc.bcm.edu 37 1 229622236 229622236 + Missense_Mutation SNP G G A rs35442997 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 176.0 74.0 146.0 0.0 0.420455 0 G|0.990;A|0.010 0.010 strong . NUP133 111 . NM_018230 exon11 c.C1382T p.P461L ATGATAGGAACAC . PASS Atlas-SNP AAED1 195827 hgsc.bcm.edu 37 9 99417000 99417000 + Missense_Mutation SNP C C T rs9886834 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 69.0 41.0 90.0 0.0 0.594203 0 C|0.901;T|0.099 0.099 strong . . . . NM_153698 exon2 c.G248A p.R83K AAACTCCTGGGGA . PASS Atlas-SNP KRTAP10-10 353333 hgsc.bcm.edu 37 21 46057766 46057766 + Missense_Mutation SNP G G C rs142146787 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 172.0 53.0 155.0 0.0 0.30814 0 G|1.000;C|0.000 0.000 weak . KRTAP10-10 37 . NM_181688 exon1 c.G432C p.Q144H CCAGCAGGCCTGC . PASS Atlas-SNP GABRA4 2557 hgsc.bcm.edu 37 4 46995387 46995387 + Missense_Mutation SNP C C T rs16859837 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 194.0 192.0 185.0 0.0 0.989691 0 C|0.984;T|0.016 0.016 strong . GABRA4 129 . NM_000809 exon1 c.G55A p.A19T GGAGGGCGAAACT . PASS Atlas-SNP ZNF618 114991 hgsc.bcm.edu 37 9 116811184 116811184 + Silent SNP G G A rs7852282 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 60.0 38.0 55.0 0.0 0.633333 0 G|0.921;A|0.079 0.079 strong . ZNF618 184 . NM_133374 exon14 c.G1323A p.K441K GGTGAAGGTGAAA . PASS Atlas-SNP DOCK2 1794 hgsc.bcm.edu 37 5 169469088 169469088 + Silent SNP G G C rs6555882 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 242.0 242.0 225.0 0.0 1 0 G|0.867;C|0.133 0.133 strong . DOCK2 389 . NM_004946 exon38 c.G3828C p.L1276L GCAGCTGAAGGAG . PASS Atlas-SNP DUOX1 53905 hgsc.bcm.edu 37 15 45427345 45427345 + Silent SNP C C T rs78022423 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 206.0 95.0 170.0 0.0 0.461165 0 C|0.976;T|0.024 0.024 strong . DUOX1 125 . NM_017434 exon6 c.C351T p.G117G TCCCGGCTGCCCC . PASS Atlas-SNP OR7G2 390882 hgsc.bcm.edu 37 19 9213396 9213396 + Missense_Mutation SNP G G A rs7247751 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 216.0 102.0 207.0 0.0 0.472222 0 G|0.968;A|0.032 0.032 strong OR7G2,NS,carcinoma,+1,1 OR7G2 48 1 NM_001005193 exon1 c.C587T p.P196L AAGAGCGGGATTT . PASS Atlas-SNP MERTK 10461 hgsc.bcm.edu 37 2 112722854 112722854 + Missense_Mutation SNP G G A rs7588635 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 201.0 94.0 219.0 1.0 0.467662 0.00456621 G|0.947;A|0.053 0.053 strong . MERTK 112 . NM_006343 exon5 c.G844A p.A282T ATCAAAGGTAAGC . PASS Atlas-SNP MAN2B2 23324 hgsc.bcm.edu 37 4 6602378 6602378 + Silent SNP G G A rs73796294 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 79.0 40.0 80.0 0.0 0.506329 0 G|0.959;A|0.041 0.041 strong . MAN2B2 80 . NM_015274 exon10 c.G1434A p.S478S TGCCTCGGTCTAC . PASS Atlas-SNP BRPF3 27154 hgsc.bcm.edu 37 6 36177597 36177597 + Silent SNP C C T rs73730485 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 114.0 53.0 88.0 0.0 0.464912 0 C|0.987;T|0.013 0.013 strong . BRPF3 93 . NM_015695 exon5 c.C1771T p.L591L CTGGAGCTGATGC . PASS Atlas-SNP GFI1B 8328 hgsc.bcm.edu 37 9 135864547 135864547 + Missense_Mutation SNP G G A rs62638686 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 121.0 41.0 112.0 0.0 0.338843 0 A|0.017;G|0.983;T|0.000 0.017 strong . GFI1B 37 . NM_004188 exon5 c.G610A p.A204T GGCCACGCTGTGA . PASS Atlas-SNP B9D1 27077 hgsc.bcm.edu 37 17 19246667 19246667 + Silent SNP A A G rs7212549 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 82.0 40.0 59.0 0.0 0.487805 0 A|0.980;G|0.020 0.020 strong . B9D1 8 . NM_015681 exon7 c.T580C p.L194L GCCCCAACACACC . PASS Atlas-SNP KRTAP4-9 100132386 hgsc.bcm.edu 37 17 39261793 39261793 + Silent SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 14.0 115.0 0.0 0.184211 0 . . none . KRTAP4-9 110 . NM_001146041 exon1 c.G153A p.R51R CTGCAGGCCCCAG . PASS Atlas-SNP ZNF157 7712 hgsc.bcm.edu 37 X 47272970 47272970 + Missense_Mutation SNP A A G rs61736398 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 139.0 53.0 150.0 0.0 0.381295 0 A|0.984;G|0.016 0.016 strong . ZNF157 46 . NM_003446 exon4 c.A1498G p.T500A CGTTGTACAATGA . PASS Atlas-SNP TRPM5 29850 hgsc.bcm.edu 37 11 2428434 2428434 + Silent SNP G G A rs369339407 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 123.0 70.0 101.0 0.0 0.569106 0 . . weak . TRPM5 86 . NM_014555 exon20 c.C3033T p.A1011A GGGCGGGGCCAGG . PASS Atlas-SNP OR2S2 56656 hgsc.bcm.edu 37 9 35957728 35957728 + Missense_Mutation SNP C C T rs2233563 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 57.0 103.0 0.0 0.57 0 C|0.975;T|0.025 0.025 strong . OR2S2 46 . NM_019897 exon1 c.G368A p.R123H ACATAGCGATCAA . PASS Atlas-SNP OR14A16 284532 hgsc.bcm.edu 37 1 247978768 247978768 + Silent SNP G G A rs61740923 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 203.0 84.0 191.0 0.0 0.413793 0 G|0.986;A|0.014 0.014 strong . OR14A16 90 . NM_001001966 exon1 c.C264T p.N88N AATGGAGTTGTTG . PASS Atlas-SNP GDF5 8200 hgsc.bcm.edu 37 20 34022344 34022344 + Missense_Mutation SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 88.0 4.0 97.0 0.0 0.0454545 0 . . none . GDF5 66 . NM_000557 exon2 c.G869A p.G290D TCCCAGCCAGATC . PASS Atlas-SNP PMS2 5395 hgsc.bcm.edu 37 7 6026787 6026787 + Missense_Mutation SNP C C T rs115052399 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 102.0 48.0 89.0 0.0 0.470588 0 C|0.995;T|0.005 0.005 strong . PMS2 88 . NM_000535 exon11 c.G1609A p.E537K CTTTCTCCTGAGA . PASS Atlas-SNP C4orf40 401137 hgsc.bcm.edu 37 4 71024552 71024552 + Missense_Mutation SNP C C G rs143985138 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 303.0 136.0 325.0 0.0 0.448845 0 C|0.987;G|0.013 0.013 strong . C4orf40 19 . NM_214711 exon3 c.C583G p.P195A CCTTCACCAGCTG . PASS Atlas-SNP PARK2 5071 hgsc.bcm.edu 37 6 162475167 162475167 + Missense_Mutation SNP T T G rs9456735 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 97.0 53.0 98.0 0.0 0.546392 0 T|0.977;G|0.023 0.023 strong . PARK2 96 . NM_004562 exon5 c.A574C p.M192L CACTCATCCGGTT . PASS Atlas-SNP REL 5966 hgsc.bcm.edu 37 2 61148988 61148988 + Missense_Mutation SNP C C G rs34661029 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 132.0 132.0 105.0 0.0 1 0 C|0.993;G|0.007 0.007 strong . REL 48 . NM_002908 exon11 c.C1178G p.P393R CTGGGCCCATCTC . PASS Atlas-SNP IFLTD1 160492 hgsc.bcm.edu 37 12 25672955 25672955 + Missense_Mutation SNP C C T rs35450203 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 159.0 89.0 158.0 0.0 0.559748 0 C|0.980;T|0.020 0.020 strong . IFLTD1 121 . NM_001145728 exon7 c.G853A p.A285T CGTCAGCATCTAA . PASS Atlas-SNP IGSF9B 22997 hgsc.bcm.edu 37 11 133789790 133789790 + Missense_Mutation SNP G G C rs200373794 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 91.0 46.0 92.0 0.0 0.505495 0 . . weak . IGSF9B 290 . NM_014987 exon18 c.C3830G p.T1277S GCCAGAGTGGTGA . PASS Atlas-SNP ZNF280B 140883 hgsc.bcm.edu 37 22 22842484 22842484 + Missense_Mutation SNP C C T rs57235089 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 266.0 110.0 286.0 0.0 0.413534 0 C|0.973;T|0.027 0.027 strong . ZNF280B 67 . NM_080764 exon4 c.G1240A p.V414I CAAAGACCGACGA . PASS Atlas-SNP FLG2 388698 hgsc.bcm.edu 37 1 152325456 152325456 + Silent SNP G G A rs73007787 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 399.0 226.0 404.0 1.0 0.566416 0.00247525 G|0.940;A|0.060 0.060 strong . FLG2 431 . NM_001014342 exon3 c.C4806T p.A1602A AGATCCGGCTTGG . PASS Atlas-SNP MLL3 58508 hgsc.bcm.edu 37 7 151970811 151970811 + Missense_Mutation SNP T T C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 801.0 39.0 725.0 0.0 0.0486891 0 . . none . MLL3 1564 . NM_170606 exon7 c.A991G p.I331V GGTCAATGTGTTC . PASS Atlas-SNP PITRM1 10531 hgsc.bcm.edu 37 10 3214939 3214939 + Missense_Mutation SNP C C A rs199766052 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 58.0 29.0 22.0 0.0 0.5 0 . . weak . PITRM1 109 . NM_014889 exon1 c.G26T p.G9V CACAGGCCCTGCC . PASS Atlas-SNP NBPF7 343505 hgsc.bcm.edu 37 1 120386922 120386922 + Splice_Site SNP A A T rs12068863 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 109.0 40.0 83.0 0.0 0.366972 0 A|0.957;T|0.043 0.043 strong . NBPF7 46 . NM_001047980 exon2 c.235+2T>A . GATCTTACTGTAT . PASS Atlas-SNP TET3 200424 hgsc.bcm.edu 37 2 74275174 74275174 + Silent SNP C C T rs73951129 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 121.0 65.0 121.0 0.0 0.53719 0 C|0.984;T|0.016 0.016 strong . TET3 101 . NM_144993 exon1 c.C1725T p.L575L AGAGCTCATCCGG . PASS Atlas-SNP RELA 5970 hgsc.bcm.edu 37 11 65422374 65422374 + Silent SNP C C T rs7116571 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 149.0 69.0 131.0 0.0 0.463087 0 C|0.965;T|0.035 0.035 strong . RELA 44 . NM_021975 exon11 c.G1131A p.S377S CAAGGCCGAGGCC . PASS Atlas-SNP CHST5 23563 hgsc.bcm.edu 37 16 75563352 75563352 + Missense_Mutation SNP C C T rs7206332 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 55.0 27.0 58.0 0.0 0.490909 0 C|0.974;T|0.026 0.026 strong CHST5,middle_lobe,carcinoma,+1,1 CHST5 47 1 NM_024533 exon3 c.G931A p.A311T TGAAGGCGTAGAG . PASS Atlas-SNP ATM 472 hgsc.bcm.edu 37 11 108143299 108143299 + Missense_Mutation SNP A A G rs3092857 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 142.0 51.0 203.0 0.0 0.359155 0 A|0.985;G|0.015 0.015 strong ATM_ENST00000278616,colon,carcinoma,-1,7 ATM 1657 7 NM_000051 exon21 c.A3118G p.M1040V GTAAGAATGGCCC . PASS Atlas-SNP TGFBI 7045 hgsc.bcm.edu 37 5 135392482 135392482 + Missense_Mutation SNP T T G rs200219644 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 216.0 117.0 178.0 0.0 0.541667 0 . . weak . TGFBI 76 . NM_000358 exon12 c.T1676G p.L559W GACTCTTGGGTAA . PASS Atlas-SNP C2orf44 80304 hgsc.bcm.edu 37 2 24260862 24260862 + Silent SNP A A G rs115270382 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 156.0 72.0 126.0 0.0 0.461538 0 A|0.992;G|0.008 0.008 strong . C2orf44 56 . NM_025203 exon2 c.T1503C p.S501S CAGAGGACTCTGG . PASS Atlas-SNP GRIN3A 116443 hgsc.bcm.edu 37 9 104385646 104385646 + Silent SNP A A G rs138253972 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 183.0 121.0 169.0 0.0 0.661202 0 A|1.000;G|0.000 0.000 strong . GRIN3A 186 . NM_133445 exon5 c.T2568C p.D856D GTCAGCATCTATT . PASS Atlas-SNP C2CD3 26005 hgsc.bcm.edu 37 11 73796683 73796683 + Missense_Mutation SNP T T C rs1095423 bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 101.0 47.0 97.0 0.0 0.465347 0 T|0.951;C|0.049 0.049 strong . C2CD3 288 . NM_015531 exon21 c.A3890G p.Y1297C TCATGATAGACAG . PASS Atlas-SNP ZNF284 342909 hgsc.bcm.edu 37 19 44590753 44590753 + Silent SNP T T C rs114253786 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 149.0 74.0 196.0 0.0 0.496644 0 T|0.995;C|0.005 0.005 strong . ZNF284 38 . NM_001037813 exon5 c.T1122C p.N374N TTGTAATGTATGT . PASS Atlas-SNP ALOX15 246 hgsc.bcm.edu 37 17 4539171 4539171 + Silent SNP G G T rs11568113 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 150.0 77.0 160.0 0.0 0.513333 0 G|0.973;T|0.027 0.027 strong . ALOX15 70 . NM_001140 exon8 c.C1044A p.R348R AGAGCTGCGCACC . PASS Atlas-SNP ACACA 31 hgsc.bcm.edu 37 17 35470031 35470031 + Silent SNP T T G rs55811414 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 124.0 57.0 126.0 0.0 0.459677 0 G|0.034;T|0.966 0.034 strong . ACACA 395 . NM_198834 exon51 c.A6444C p.R2148R GCTTTCTCGGTCA . PASS Atlas-SNP GIMAP2 26157 hgsc.bcm.edu 37 7 150390255 150390255 + Missense_Mutation SNP T T C rs115945256 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 126.0 55.0 119.0 0.0 0.436508 0 T|0.995;C|0.005 0.005 strong . GIMAP2 39 . NM_015660 exon3 c.T881C p.M294T ACAGCATGTGCAA . PASS Atlas-SNP FBN2 2201 hgsc.bcm.edu 37 5 127670412 127670412 + Silent SNP T T G rs28763943 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 68.0 30.0 62.0 0.0 0.441176 0 T|0.975;G|0.025 0.025 strong . FBN2 858 . NM_001999 exon31 c.A4098C p.T1366T CCTACCTGTACAT . PASS Atlas-SNP COL6A2 1292 hgsc.bcm.edu 37 21 47545889 47545889 + Silent SNP C C G rs61735829 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 166.0 86.0 148.0 0.0 0.518072 0 C|0.982;G|0.018 0.018 strong COL6A2_ENST00000357838,NS,carcinoma,+2,3 COL6A2 351 3 NM_058175 exon26 c.C2160G p.R720R CCGGCGCCAGAAG . PASS Atlas-SNP ZNF841 284371 hgsc.bcm.edu 37 19 52569479 52569479 + Silent SNP G G A rs61738706 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 53.0 21.0 48.0 0.0 0.396226 0 G|0.979;A|0.021 0.021 strong . ZNF841 183 . NM_001136499 exon7 c.C1656T p.Y552Y TCCACCGTAATTA . PASS Atlas-SNP TH 7054 hgsc.bcm.edu 37 11 2190982 2190982 + Silent SNP A A G rs7950050 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 116.0 62.0 121.0 0.0 0.534483 0 A|0.952;G|0.048 0.048 strong . TH 43 . NM_199292 exon3 c.T303C p.A101A GGCCACAGCCTCC . PASS Atlas-SNP POLR3D 661 hgsc.bcm.edu 37 8 22107707 22107707 + Silent SNP C C T rs34435413 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 112.0 52.0 97.0 0.0 0.464286 0 C|0.993;T|0.007 0.007 strong . POLR3D 26 . NM_001722 exon8 c.C1041T p.D347D TCTGGACGTGACC . PASS Atlas-SNP NECAB3 63941 hgsc.bcm.edu 37 20 32248088 32248088 + Silent SNP C C T rs146604647 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 54.0 23.0 69.0 0.0 0.425926 0 C|0.996;T|0.004 0.004 strong . NECAB3 27 . NM_031232 exon6 c.G501A p.L167L GGCCTCCAGGGTA . PASS Atlas-SNP TICRR 90381 hgsc.bcm.edu 37 15 90145118 90145118 + Silent SNP T T A rs202042800 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 74.0 36.0 80.0 0.0 0.486486 0 T|1.000;A|0.000 0.000 strong . . . . NM_152259 exon12 c.T2478A p.P826P TGTGCCTTTTTTG . PASS Atlas-SNP DNAH9 1770 hgsc.bcm.edu 37 17 11550413 11550413 + Silent SNP T T C rs61745426 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 131.0 59.0 129.0 0.0 0.450382 0 T|0.988;C|0.012 0.012 strong . DNAH9 695 . NM_001372 exon12 c.T1995C p.D665D TGAGGATTGGTGC . PASS Atlas-SNP IGSF9 57549 hgsc.bcm.edu 37 1 159900655 159900655 + Missense_Mutation SNP G G A rs140306211 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 146.0 71.0 152.0 0.0 0.486301 0 G|0.994;A|0.006 0.006 strong . IGSF9 123 . NM_001135050 exon14 c.C1640T p.A547V CGCTTGGCCCTGG . PASS Atlas-SNP SLC13A1 6561 hgsc.bcm.edu 37 7 122787306 122787306 + Missense_Mutation SNP G G A rs10231144 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 136.0 79.0 95.0 0.0 0.580882 0 G|0.989;A|0.011 0.011 strong . SLC13A1 110 . NM_022444 exon7 c.C719T p.T240M AAACACGTAAGTT . PASS Atlas-SNP SGCD 6444 hgsc.bcm.edu 37 5 156184786 156184786 + Silent SNP G G A rs187204080 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 217.0 98.0 201.0 0.0 0.451613 0 G|0.998;A|0.002 0.002 strong . SGCD 52 . NM_172244 exon8 c.G770A p.X257X CTGGTTGACCTCG . PASS Atlas-SNP CPNE7 27132 hgsc.bcm.edu 37 16 89645345 89645345 + Missense_Mutation SNP C C A rs9944362 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 58.0 78.0 0.0 0.58 0 C|0.998;A|0.002 0.002 strong . CPNE7 56 . NM_014427 exon3 c.C438A p.H146Q TAAGCACTTCCTG . PASS Atlas-SNP KIRREL2 84063 hgsc.bcm.edu 37 19 36353880 36353880 + Missense_Mutation SNP G G A rs35775934 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 65.0 65.0 65.0 0.0 1 0 G|0.959;A|0.041 0.041 strong KIRREL2_ENST00000262625,NS,carcinoma,-1,2 KIRREL2 170 2 NM_199180 exon13 c.G1667A p.S556N GCAGCAGCGACGG . PASS Atlas-SNP S100A3 6274 hgsc.bcm.edu 37 1 153520203 153520203 + Silent SNP G G A rs41265164 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 146.0 74.0 156.0 0.0 0.506849 0 A|0.147;C|0.000;G|0.853;T|0.000 0.147 strong . S100A3 7 . NM_002960 exon3 c.C261T p.H87H GTACTCGTGGCAG . PASS Atlas-SNP ORM2 5005 hgsc.bcm.edu 37 9 117094159 117094159 + Missense_Mutation SNP G G A rs148221879 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 215.0 152.0 194.0 0.0 0.706977 0 G|0.997;A|0.003 0.003 strong . ORM2 13 . NM_000608 exon5 c.G490A p.D164N GCTCTCGACTGCT . PASS Atlas-SNP CLASRP 11129 hgsc.bcm.edu 37 19 45561014 45561014 + Silent SNP A A G rs76953457 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 70.0 29.0 75.0 0.0 0.414286 0 A|0.990;G|0.010 0.010 strong . CLASRP 44 . NM_007056 exon7 c.A471G p.A157A GCTGGCAGAGAAG . PASS Atlas-SNP SGK223 0 hgsc.bcm.edu 37 8 8175868 8175868 + Silent SNP C C T rs114026601 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 109.0 68.0 91.0 0.0 0.623853 0 C|0.988;T|0.012 0.012 strong . . . . NM_001080826 exon5 c.G4017A p.S1339S CTCCTCCGAGGTG . PASS Atlas-SNP IGSF22 283284 hgsc.bcm.edu 37 11 18731905 18731905 + Silent SNP T T A rs114511413 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 110.0 53.0 133.0 0.0 0.481818 0 T|0.991;A|0.009 0.009 strong . IGSF22 211 . NM_173588 exon17 c.A2670T p.P890P GCTGGATGGCACA . PASS Atlas-SNP ZFP28 140612 hgsc.bcm.edu 37 19 57050521 57050521 + Missense_Mutation SNP G G A rs199655023 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 57.0 26.0 37.0 0.0 0.45614 0 . . weak . ZFP28 99 . NM_020828 exon1 c.G134A p.G45E CCCGGGGAAGGCC . PASS Atlas-SNP OR2A4 79541 hgsc.bcm.edu 37 6 132021722 132021722 + Silent SNP G G A rs145289654 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 935.0 254.0 770.0 2.0 0.271658 0.0025974 G|0.995;A|0.005 0.005 strong . OR2A4 17 . NM_030908 exon1 c.C820T p.L274L ACAGCAGGAGATA . PASS Atlas-SNP ANAPC16 119504 hgsc.bcm.edu 37 10 73992862 73992862 + Silent SNP C C G rs9275 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 45.0 26.0 40.0 0.0 0.577778 0 G|0.064;C|0.936 0.064 strong . ANAPC16 10 . NM_001242546 exon5 c.C321G p.P107P CACCCCCTCTTCA . PASS Atlas-SNP RAP1GAP 5909 hgsc.bcm.edu 37 1 21932598 21932598 + Silent SNP G G A rs150973141 byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 114.0 50.0 106.0 0.0 0.438596 0 G|0.999;A|0.001 0.001 strong . RAP1GAP 119 . NM_001145658 exon18 c.C1581T p.F527F GGGCGCGAAGCTC . PASS Atlas-SNP MRPS9 64965 hgsc.bcm.edu 37 2 105708936 105708936 + Missense_Mutation SNP G G C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 90.0 46.0 81.0 0.0 0.511111 0 . . none . MRPS9 32 . NM_182640 exon8 c.G729C p.R243S GCAGAGGTTTCGA . PASS Atlas-SNP GAB4 128954 hgsc.bcm.edu 37 22 17445710 17445710 + Silent SNP C C T rs5992599 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 259.0 127.0 208.0 1.0 0.490348 0.00480769 C|0.954;T|0.046 0.046 strong . GAB4 95 . NM_001037814 exon8 c.G1422A p.T474T GCTCTGCGTGGAG . PASS Atlas-SNP USP44 84101 hgsc.bcm.edu 37 12 95927172 95927172 + Silent SNP A A G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 35.0 66.0 0.0 0.460526 0 . . none . USP44 83 . NM_032147 exon2 c.T861C p.V287V CTGAAGAACAGAA . PASS Atlas-SNP SETD9 133383 hgsc.bcm.edu 37 5 56205559 56205559 + Silent SNP C C T rs80198735 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 98.0 34.0 75.0 0.0 0.346939 0 C|0.987;T|0.013 0.013 strong . . . . NM_153706 exon1 c.C87T p.S29S CCTAAGCCACAAC . PASS Atlas-SNP OR11A1 26531 hgsc.bcm.edu 37 6 29395180 29395180 + Missense_Mutation SNP A A G rs61978565 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 75.0 44.0 60.0 0.0 0.586667 0 A|0.957;G|0.043 0.043 strong OR11A1,NS,carcinoma,0,1 OR11A1 30 1 NM_013937 exon1 c.T239C p.M80T TTTGGCATCACTG . PASS Atlas-SNP HMCN1 83872 hgsc.bcm.edu 37 1 186043899 186043899 + Silent SNP T T C rs77026548 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 126.0 61.0 119.0 0.0 0.484127 0 T|0.967;C|0.033 0.033 strong . HMCN1 797 . NM_031935 exon53 c.T8166C p.N2722N TGTTAATATTGCT . PASS Atlas-SNP KLHL26 55295 hgsc.bcm.edu 37 19 18779728 18779728 + Silent SNP C C T rs73533829 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 36.0 18.0 24.0 0.0 0.5 0 C|0.988;T|0.012 0.012 strong . KLHL26 43 . NM_018316 exon3 c.C1521T p.G507G TGCCGGCGGCCGC . PASS Atlas-SNP TNFRSF1B 7133 hgsc.bcm.edu 37 1 12253003 12253003 + Missense_Mutation SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 110.0 58.0 76.0 0.0 0.527273 0 . . none . TNFRSF1B 28 . NM_001066 exon6 c.G635A p.G212E CCCCAGGGGCAGT . PASS Atlas-SNP FOXC1 2296 hgsc.bcm.edu 37 6 1612243 1612243 + Silent SNP T T G rs73406891 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 61.0 24.0 43.0 0.0 0.393443 0 T|0.963;G|0.037 0.037 strong . FOXC1 19 . NM_001453 exon1 c.T1563G p.S521S CAACTCTCCAGTG . PASS Atlas-SNP TBC1D8B 54885 hgsc.bcm.edu 37 X 106083304 106083304 + Silent SNP A A G rs56825776 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 318.0 318.0 338.0 1.0 1 0.00295858 A|0.923;G|0.077 0.077 strong . TBC1D8B 181 . NM_198881 exon9 c.A1380G p.S460S ACAGTCATGGAAA . PASS Atlas-SNP GATA3 2625 hgsc.bcm.edu 37 10 8100632 8100632 + Silent SNP T T C rs2228254 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 46.0 27.0 55.0 0.0 0.586957 0 T|0.959;C|0.041 0.041 strong . GATA3 182 . NM_002051 exon3 c.T606C p.R202R CTCCCGTGGCAGC . PASS Atlas-SNP SETD1A 9739 hgsc.bcm.edu 37 16 30978324 30978324 + Silent SNP C C A rs11866157 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 54.0 81.0 0.0 0.54 0 C|0.968;A|0.032 0.032 strong . SETD1A 143 . NM_014712 exon9 c.C2625A p.I875I GGGCATCGAGGCT . PASS Atlas-SNP MYH11 4629 hgsc.bcm.edu 37 16 15931975 15931975 + Silent SNP G G A rs28570191 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 98.0 58.0 87.0 0.0 0.591837 0 G|0.951;A|0.049 0.049 strong . MYH11 520 . NM_001040114 exon2 c.C135T p.F45F TGCCTCGAAGCCC . PASS Atlas-SNP USP29 57663 hgsc.bcm.edu 37 19 57641887 57641887 + Missense_Mutation SNP A A G rs74511605 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 120.0 74.0 132.0 0.0 0.616667 0 A|0.995;G|0.005 0.005 strong . USP29 186 . NM_020903 exon4 c.A1844G p.Q615R CAAGCCAAGAGCA . PASS Atlas-SNP ZBED4 9889 hgsc.bcm.edu 37 22 50279749 50279749 + Silent SNP C C T rs61731524 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 72.0 28.0 61.0 0.0 0.388889 0 C|0.998;T|0.002 0.002 strong . ZBED4 102 . NM_014838 exon2 c.C2439T p.I813I CAGCATCGGGAAG . PASS Atlas-SNP SEMG2 6407 hgsc.bcm.edu 37 20 43851101 43851101 + Silent SNP T T C rs2233902 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 151.0 78.0 158.0 0.0 0.516556 0 T|0.985;C|0.015 0.015 strong . SEMG2 92 . NM_003008 exon2 c.T828C p.D276D TCAAGATCAAGAG . PASS Atlas-SNP PWWP2B 170394 hgsc.bcm.edu 37 10 134218802 134218802 + Silent SNP G G T rs76160300 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 52.0 116.0 0.0 0.55914 0 G|0.993;T|0.007 0.007 strong . PWWP2B 33 . NM_001098637 exon2 c.G798T p.V266V AGAGGTGGTCAAG . PASS Atlas-SNP WDR87 83889 hgsc.bcm.edu 37 19 38376804 38376804 + Missense_Mutation SNP T T C rs78748271 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 299.0 147.0 284.0 1.0 0.491639 0.00352113 T|0.979;C|0.021 0.021 strong . WDR87 191 . NM_031951 exon6 c.A7390G p.T2464A ATGGGGTCTTTAA . PASS Atlas-SNP DNAH3 55567 hgsc.bcm.edu 37 16 21049286 21049286 + Missense_Mutation SNP C C T rs16970832 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 96.0 60.0 88.0 0.0 0.625 0 C|0.944;T|0.056 0.056 strong . DNAH3 1142 . NM_017539 exon34 c.G4747A p.V1583I TCGCAACGATCTT . PASS Atlas-SNP ACVRL1 94 hgsc.bcm.edu 37 12 52306898 52306898 + Missense_Mutation SNP C C T rs199542304 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 42.0 12.0 24.0 0.0 0.285714 0 . . weak . ACVRL1 60 . NM_000020 exon3 c.C77T p.P26L TGAAGCCGTCTCG . PASS Atlas-SNP JRK 8629 hgsc.bcm.edu 37 8 143746399 143746399 + Missense_Mutation SNP T T C rs73379623 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 91.0 43.0 89.0 0.0 0.472527 0 T|0.992;C|0.008 0.008 strong . . . . NM_003724 exon2 c.A1079G p.N360S GCATCGTTCATGT . PASS Atlas-SNP FCGBP 8857 hgsc.bcm.edu 37 19 40384035 40384035 + Missense_Mutation SNP G G A rs367618328 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 639.0 130.0 585.0 1.0 0.203443 0.0017094 . . weak FCGBP,NS,haematopoietic_neoplasm,-1,1 FCGBP 416 1 NM_003890 exon21 c.C9575T p.A3192V AAACCCGCGTCGC . scavenged Atlas-SNP ATP8A1 10396 hgsc.bcm.edu 37 4 42576646 42576646 + Missense_Mutation SNP C C T rs61755862 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 190.0 84.0 206.0 0.0 0.442105 0 C|0.975;T|0.025 0.025 strong ATP8A1_ENST00000264449,NS,carcinoma,+1,2 ATP8A1 206 2 NM_001105529 exon14 c.G1285A p.V429I AAGCAACTCCCGC . PASS Atlas-SNP ZNF257 113835 hgsc.bcm.edu 37 19 22256347 22256347 + Silent SNP G G A rs10423157 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 61.0 26.0 55.0 0.0 0.42623 0 G|0.927;A|0.073 0.073 strong . ZNF257 156 . NM_033468 exon3 c.G207A p.E69E ACATGAGATGGTA . PASS Atlas-SNP KLHL20 27252 hgsc.bcm.edu 37 1 173735378 173735378 + Silent SNP T T C rs7536773 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 330.0 135.0 303.0 0.0 0.409091 0 T|0.875;C|0.125 0.125 strong . KLHL20 54 . NM_014458 exon8 c.T1245C p.L415L CTTTCTTTATGCT . PASS Atlas-SNP ADAMTS12 81792 hgsc.bcm.edu 37 5 33881385 33881385 + Missense_Mutation SNP G G C rs16891862 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 164.0 72.0 130.0 0.0 0.439024 0 C|0.011;G|0.989 0.011 strong . ADAMTS12 464 . NM_030955 exon2 c.C328G p.Q110E ATCCTTGATTGAC . PASS Atlas-SNP SLC5A8 160728 hgsc.bcm.edu 37 12 101551065 101551065 + Missense_Mutation SNP G G A rs113062899 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 118.0 67.0 128.0 0.0 0.567797 0 G|0.987;A|0.013 0.013 strong . SLC5A8 102 . NM_145913 exon15 c.C1825T p.R609C ACAAACGAGTCCC . PASS Atlas-SNP THEG 51298 hgsc.bcm.edu 37 19 373531 373531 + Nonsense_Mutation SNP C C T rs73489977 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 166.0 86.0 134.0 0.0 0.518072 0 C|0.960;T|0.040 0.040 strong . THEG 58 . NM_016585 exon4 c.G504A p.W168X AGAGGGCCTGGAA . PASS Atlas-SNP HOMEZ 57594 hgsc.bcm.edu 37 14 23744844 23744844 + Silent SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 114.0 7.0 127.0 0.0 0.0614035 0 . . none . HOMEZ 80 . NM_020834 exon2 c.G1593A p.E531E CTCCTCCTCTTCC . PASS Atlas-SNP IL16 3603 hgsc.bcm.edu 37 15 81589340 81589340 + Silent SNP C C T rs201624502 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 173.0 89.0 176.0 0.0 0.514451 0 C|0.999;T|0.001 0.001 strong . IL16 254 . NM_001172128 exon13 c.C1974T p.A658A CTCTGCCGGCTGC . PASS Atlas-SNP CDH23 64072 hgsc.bcm.edu 37 10 73574948 73574948 + Silent SNP C C T rs73277900 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 54.0 27.0 59.0 0.0 0.5 0 C|0.984;T|0.016 0.016 strong . CDH23 365 . NM_022124 exon68 c.C9978T p.N3326N GCGCAACGCCCGC . PASS Atlas-SNP POLQ 10721 hgsc.bcm.edu 37 3 121251924 121251924 + Silent SNP C C T rs41390550 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 260.0 117.0 317.0 0.0 0.45 0 C|0.982;T|0.018 0.018 strong . POLQ 273 . NM_199420 exon6 c.G873A p.P291P CAAAAGCGGTACA . PASS Atlas-SNP COX2 5743 hgsc.bcm.edu 37 MT 8027 8027 + Missense_Mutation SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 14.0 13.0 5.0 0.0 0.928571 0 . . none . . . . ENST00000361739 exon1 c.G442A p.A148T ATTGAAGCCCCCA . PASS Atlas-SNP C7orf72 100130988 hgsc.bcm.edu 37 7 50173702 50173702 + Splice_Site SNP A A G rs78990563 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 53.0 29.0 49.0 0.0 0.54717 0 A|0.997;G|0.003 0.003 strong . C7orf72 26 . NM_001161834 exon4 c.729-2A>G . CTTCATAGAGCTT . PASS Atlas-SNP TUBGCP2 10844 hgsc.bcm.edu 37 10 135106718 135106718 + Silent SNP G G A rs3008344 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 58.0 26.0 60.0 0.0 0.448276 0 G|0.996;A|0.004 0.004 strong . TUBGCP2 79 . NM_001256617 exon8 c.C933T p.F311F GTACTCGAAGGAA . PASS Atlas-SNP POLRMT 5442 hgsc.bcm.edu 37 19 622834 622834 + Missense_Mutation SNP C C G rs146178977 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 56.0 36.0 66.0 0.0 0.642857 0 C|0.997;G|0.003 0.003 strong . POLRMT 91 . NM_005035 exon7 c.G1442C p.R481P AGCATCCGCACCA . PASS Atlas-SNP HIST1H2AL 8332 hgsc.bcm.edu 37 6 27833342 27833342 + Silent SNP C C T rs11966705 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 248.0 122.0 245.0 0.0 0.491935 0 C|0.975;T|0.025 0.025 strong . HIST1H2AL 14 . NM_003511 exon1 c.C210T p.A70A CAACGCCGCCCGC . PASS Atlas-SNP SLC26A4 5172 hgsc.bcm.edu 37 7 107342294 107342294 + Missense_Mutation SNP T T G rs17154335 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 92.0 43.0 89.0 0.0 0.467391 0 T|0.952;G|0.048 0.048 strong . SLC26A4 117 . NM_000441 exon17 c.T1826G p.V609G ATGCTGTTTCAAC . PASS Atlas-SNP CELSR3 1951 hgsc.bcm.edu 37 3 48699134 48699134 + Silent SNP G G T rs76423828 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 68.0 33.0 46.0 0.0 0.485294 0 G|0.995;T|0.005 0.005 strong . CELSR3 237 . NM_001407 exon1 c.C934A p.R312R GTGCCCGGTTCGC . PASS Atlas-SNP OR4K13 390433 hgsc.bcm.edu 37 14 20502779 20502779 + Missense_Mutation SNP C C T rs144683363 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 86.0 39.0 107.0 0.0 0.453488 0 C|0.985;T|0.015 0.015 strong . OR4K13 68 . NM_001004714 exon1 c.G139A p.V47M CAGTCACCAAGAT . PASS Atlas-SNP SUN1 23353 hgsc.bcm.edu 37 7 883088 883088 + Missense_Mutation SNP G G A rs116520953 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 73.0 43.0 63.0 0.0 0.589041 0 G|0.996;A|0.004 0.004 strong . SUN1 157 . NM_001171945 exon7 c.G652A p.V218M AAGGACGTGCTCA . PASS Atlas-SNP PSKH2 85481 hgsc.bcm.edu 37 8 87060793 87060793 + Silent SNP T T A rs28483271 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 142.0 69.0 150.0 0.0 0.485915 0 T|0.966;A|0.034 0.034 strong . PSKH2 79 . NM_033126 exon3 c.A1056T p.G352G TGCAGATCCAGGA . PASS Atlas-SNP ORM2 5005 hgsc.bcm.edu 37 9 117093856 117093856 + Missense_Mutation SNP G G A rs142633392 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 216.0 135.0 208.0 0.0 0.625 0 G|0.995;A|0.005 0.005 strong . ORM2 13 . NM_000608 exon4 c.G338A p.R113Q GAGGCCGAGAACA . PASS Atlas-SNP PCLO 27445 hgsc.bcm.edu 37 7 82785096 82785096 + Silent SNP G G A rs61744360 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 270.0 125.0 264.0 1.0 0.462963 0.00378788 G|0.998;A|0.002 0.002 strong . PCLO 1506 . NM_014510 exon2 c.C861T p.D287D TACTATGTCTGCC . PASS Atlas-SNP GPR179 440435 hgsc.bcm.edu 37 17 36487412 36487412 + Silent SNP G G A rs111770829 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 205.0 92.0 168.0 0.0 0.44878 0 G|0.981;A|0.019 0.019 strong . GPR179 170 . NM_001004334 exon11 c.C2040T p.D680D CAGCTCGTCCTGT . PASS Atlas-SNP ABCC10 89845 hgsc.bcm.edu 37 6 43412935 43412935 + Silent SNP T T C rs2125740 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 234.0 103.0 225.0 0.0 0.440171 0 T|0.940;C|0.060 0.060 strong . ABCC10 118 . NM_001198934 exon14 c.T2913C p.Y971Y CGTGTATGCGACC . PASS Atlas-SNP CCT3 7203 hgsc.bcm.edu 37 1 156281999 156281999 + Missense_Mutation SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 92.0 48.0 86.0 0.0 0.521739 0 . . none . CCT3 61 . NM_005998 exon11 c.C988T p.R330W CTATCCGGGCCCC . PASS Atlas-SNP PCDH12 51294 hgsc.bcm.edu 37 5 141331098 141331098 + Missense_Mutation SNP G G A rs115735066 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 118.0 45.0 106.0 0.0 0.381356 0 G|0.991;A|0.009 0.009 strong . PCDH12 133 . NM_016580 exon2 c.C2938T p.H980Y CTCGGTGGTTTGG . PASS Atlas-SNP SSPO 23145 hgsc.bcm.edu 37 7 149509048 149509048 + Silent SNP C C T rs115723456 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 104.0 52.0 83.0 0.0 0.5 0 C|0.989;T|0.011 0.011 strong . . . . NM_198455 exon68 c.C9594T p.S3198S AGCCTCCTGTGGC . PASS Atlas-SNP PCDHB10 56126 hgsc.bcm.edu 37 5 140573655 140573655 + Silent SNP C C T rs17844572 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 395.0 107.0 374.0 0.0 0.270886 0 C|0.986;T|0.014 0.014 strong . PCDHB10 177 . NM_018930 exon1 c.C1530T p.N510N GGACAACGGCCAC . PASS Atlas-SNP AIRE 326 hgsc.bcm.edu 37 21 45712983 45712983 + Silent SNP T T C rs61737072 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 46.0 20.0 32.0 0.0 0.434783 0 T|0.951;C|0.049 0.049 strong . AIRE 61 . NM_000383 exon10 c.T1203C p.P401P TCCGCCTTCTGCA . PASS Atlas-SNP MSH2 4436 hgsc.bcm.edu 37 2 47637439 47637439 + Silent SNP C C T rs1800151 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 129.0 55.0 106.0 0.0 0.426357 0 C|0.977;T|0.023 0.023 strong . MSH2 198 . NM_000251 exon3 c.C573T p.L191L TCTCCTCATCCAG . PASS Atlas-SNP IL10RA 3587 hgsc.bcm.edu 37 11 117870257 117870257 + Silent SNP C C T rs146193205 byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 53.0 30.0 67.0 0.0 0.566038 0 C|0.999;T|0.001 0.001 strong . IL10RA 46 . NM_001558 exon7 c.C1638T p.A546A CCTTGCCCCTCTA . PASS Atlas-SNP IGSF10 285313 hgsc.bcm.edu 37 3 151165106 151165106 + Missense_Mutation SNP T T G rs35491609 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 348.0 156.0 324.0 0.0 0.448276 0 T|0.992;G|0.008 0.008 strong IGSF10,NS,carcinoma,-1,1 IGSF10 279 1 NM_178822 exon4 c.A2663C p.Q888P GAATGTTGATTGG . PASS Atlas-SNP MTRR 4552 hgsc.bcm.edu 37 5 7885907 7885907 + Missense_Mutation SNP C C G rs10064631 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 197.0 92.0 176.0 0.0 0.467005 0 C|0.948;G|0.052 0.052 strong . MTRR 74 . NM_024010 exon7 c.C1078G p.L360V CTGCAGCTTGAAG . PASS Atlas-SNP ABCA1 19 hgsc.bcm.edu 37 9 107578478 107578478 + Silent SNP C C T rs2230807 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 158.0 87.0 148.0 0.0 0.550633 0 T|0.049;G|0.134 0.049 strong . ABCA1 244 . NM_005502 exon25 c.G3684A p.R1228R TGAGAGCCGGTCA . PASS Atlas-SNP ARMCX2 9823 hgsc.bcm.edu 37 X 100912065 100912065 + Silent SNP C C T rs78189978 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 74.0 46.0 116.0 0.0 0.621622 0 C|0.981;T|0.019 0.019 strong . ARMCX2 75 . NM_014782 exon5 c.G510A p.A170A AGTCTCCGCTTCT . PASS Atlas-SNP MYO18B 84700 hgsc.bcm.edu 37 22 26423477 26423477 + Missense_Mutation SNP G G A rs7284177 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 56.0 21.0 61.0 0.0 0.375 0 G|0.931;A|0.069 0.069 strong . MYO18B 322 . NM_032608 exon43 c.G7537A p.G2513S TCCTCCGGCTCCA . PASS Atlas-SNP NMU 10874 hgsc.bcm.edu 37 4 56466734 56466734 + Missense_Mutation SNP G G T rs12108463 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 213.0 91.0 230.0 0.0 0.42723 0 G|0.960;T|0.040 0.040 strong . NMU 17 . NM_006681 exon8 c.C444A p.F148L ACTTTGGAATTCT . PASS Atlas-SNP TG 7038 hgsc.bcm.edu 37 8 133898949 133898949 + Silent SNP C C T rs61741629 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 68.0 42.0 48.0 0.0 0.617647 0 C|0.971;T|0.029 0.029 strong . TG 416 . NM_003235 exon9 c.C1332T p.I444I AGCCATCCGAGCA . PASS Atlas-SNP ZNF746 155061 hgsc.bcm.edu 37 7 149174758 149174758 + Silent SNP G G A rs61746598 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 85.0 47.0 69.0 0.0 0.552941 0 G|0.960;A|0.040 0.040 strong . ZNF746 68 . NM_001163474 exon5 c.C609T p.G203G CTCCACGCCCAGG . PASS Atlas-SNP FLG2 388698 hgsc.bcm.edu 37 1 152326516 152326516 + Missense_Mutation SNP T T C rs16833974 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 349.0 175.0 271.0 0.0 0.501433 0 T|0.932;C|0.068 0.068 strong . FLG2 431 . NM_001014342 exon3 c.A3746G p.H1249R TGGCTATGTCTAG . PASS Atlas-SNP IL12RB2 3595 hgsc.bcm.edu 37 1 67787286 67787286 + Silent SNP T T C rs2307147 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 78.0 35.0 56.0 0.0 0.448718 0 T|0.926;C|0.074 0.074 strong . IL12RB2 94 . NM_001559 exon3 c.T78C p.D26D TGCAGATGCGTGC . PASS Atlas-SNP C2orf16 84226 hgsc.bcm.edu 37 2 27802457 27802457 + Silent SNP T T C rs12329054 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 102.0 59.0 96.0 0.0 0.578431 0 T|0.986;C|0.014 0.014 strong . C2orf16 357 . NM_032266 exon1 c.T3018C p.G1006G CAATGGTATATCC . PASS Atlas-SNP ABCC6 368 hgsc.bcm.edu 37 16 16259497 16259497 + Missense_Mutation SNP G G T rs60707953 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 84.0 38.0 88.0 0.0 0.452381 0 G|0.992;T|0.008 0.008 strong . ABCC6 110 . NM_001171 exon23 c.C3289A p.L1097I CGTAGAGGAGAAA . PASS Atlas-SNP DLK1 8788 hgsc.bcm.edu 37 14 101200514 101200514 + Missense_Mutation SNP G G T rs116078181 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 89.0 54.0 126.0 0.0 0.606742 0 G|0.981;T|0.019 0.019 strong . DLK1 57 . NM_003836 exon5 c.G433T p.V145L ACCTGCGTGGATG . PASS Atlas-SNP DDX43 55510 hgsc.bcm.edu 37 6 74125283 74125283 + Silent SNP T T C rs138615882 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 78.0 43.0 61.0 0.0 0.551282 0 T|0.997;C|0.003 0.003 strong . DDX43 69 . NM_018665 exon15 c.T1809C p.I603I ATTGATTAATATT . PASS Atlas-SNP PLEKHH1 57475 hgsc.bcm.edu 37 14 68023989 68023989 + Missense_Mutation SNP G G C rs149253165 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 92.0 52.0 81.0 0.0 0.565217 0 G|0.993;C|0.007 0.007 strong . PLEKHH1 118 . NM_020715 exon4 c.G193C p.G65R CAGGTGGGTGTCA . PASS Atlas-SNP PARP14 54625 hgsc.bcm.edu 37 3 122419151 122419151 + Missense_Mutation SNP G G A rs201474464 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 77.0 32.0 79.0 0.0 0.415584 0 . . weak PARP14_ENST00000474629,caecum,carcinoma,-2,2 PARP14 242 2 NM_017554 exon6 c.G1750A p.A584T TCTGAAGCCCTGT . PASS Atlas-SNP TG 7038 hgsc.bcm.edu 37 8 134042164 134042164 + Missense_Mutation SNP C C T rs61742878 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 124.0 49.0 106.0 0.0 0.395161 0 C|0.995;T|0.005 0.005 strong TG,NS,carcinoma,0,4 TG 416 4 NM_003235 exon41 c.C7135T p.R2379C CCTCGGCGCGTGT . PASS Atlas-SNP TRPM2 7226 hgsc.bcm.edu 37 21 45786709 45786709 + Missense_Mutation SNP G G A rs45544142 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 65.0 33.0 51.0 0.0 0.507692 0 G|0.962;A|0.038 0.038 strong . TRPM2 196 . NM_003307 exon4 c.G496A p.V166I CTGGACGTCCCCA . PASS Atlas-SNP MBLAC1 255374 hgsc.bcm.edu 37 7 99725466 99725466 + Missense_Mutation SNP G G T rs78225840 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 49.0 27.0 32.0 0.0 0.55102 0 G|0.980;T|0.020 0.020 strong . MBLAC1 13 . NM_203397 exon2 c.G448T p.G150C GGGCTGGGTGAGG . PASS Atlas-SNP TTLL11 158135 hgsc.bcm.edu 37 9 124633018 124633018 + Silent SNP C C T rs16911064 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 132.0 67.0 159.0 0.0 0.507576 0 C|0.983;T|0.017 0.017 strong . TTLL11 67 . NM_001139442 exon7 c.G1761A p.Q587Q TTCAAGCTGCTGA . PASS Atlas-SNP IL17RA 23765 hgsc.bcm.edu 37 22 17589983 17589983 + Missense_Mutation SNP G G A rs189025188 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 16.0 12.0 10.0 0.0 0.75 0 G|0.999;A|0.001 0.001 strong . IL17RA 62 . NM_014339 exon13 c.G1874A p.R625H TGGTGCGCGAGCC . PASS Atlas-SNP ZNF594 84622 hgsc.bcm.edu 37 17 5085247 5085247 + Missense_Mutation SNP T T C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 98.0 16.0 155.0 0.0 0.163265 0 . . none . ZNF594 89 . NM_032530 exon2 c.A2305G p.T769A GGAAGGTCCTACT . PASS Atlas-SNP FAM46C 54855 hgsc.bcm.edu 37 1 118166195 118166195 + Silent SNP C C T rs10923359 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 128.0 56.0 135.0 0.0 0.4375 0 C|0.979;T|0.021 0.021 strong . FAM46C 25 . NM_017709 exon2 c.C705T p.N235N CAAGAACCCAGAA . PASS Atlas-SNP FAM194B 220081 hgsc.bcm.edu 37 13 46170898 46170898 + Silent SNP C C T rs78950901 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 334.0 163.0 340.0 0.0 0.488024 0 C|0.987;T|0.013 0.013 strong . FAM194B 42 . NM_182542 exon3 c.G243A p.K81K TTCCTCCTTCAAG . PASS Atlas-SNP PIF1 80119 hgsc.bcm.edu 37 15 65108939 65108939 + Missense_Mutation SNP A A G rs138069301 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 174.0 84.0 175.0 0.0 0.482759 0 A|1.000;G|0.000 0.000 weak . PIF1 43 . NM_025049 exon12 c.T1700C p.I567T AGAGAAATCTCCA . PASS Atlas-SNP SLC35D3 340146 hgsc.bcm.edu 37 6 137245567 137245567 + Missense_Mutation SNP C C A rs116512494 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 105.0 59.0 88.0 0.0 0.561905 0 C|0.988;A|0.012 0.012 strong . SLC35D3 33 . NM_001008783 exon2 c.C984A p.D328E TGGAGACCAGCTG . PASS Atlas-SNP EPOR 2057 hgsc.bcm.edu 37 19 11489049 11489049 + Missense_Mutation SNP G G C rs35423344 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 34.0 19.0 32.0 0.0 0.558824 0 G|0.941;C|0.059 0.059 strong . EPOR 26 . NM_000121 exon8 c.C1138G p.P380A TGGGCGGGTTCCG . PASS Atlas-SNP PCDHA8 56140 hgsc.bcm.edu 37 5 140222534 140222534 + Missense_Mutation SNP C C A rs6889154 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 57.0 29.0 55.0 0.0 0.508772 0 C|0.978;A|0.022 0.022 strong PCDHA8_ENST00000531613,NS,carcinoma,-1,6 PCDHA8 366 6 NM_031856 exon1 c.C1628A p.P543Q GCGTGCCGCCTCT . PASS Atlas-SNP CLUH 23277 hgsc.bcm.edu 37 17 2604698 2604698 + Silent SNP G G A rs115717445 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 87.0 53.0 95.0 0.0 0.609195 0 G|0.993;A|0.007 0.007 strong . . . . NM_015229 exon6 c.C747T p.V249V GATGCTGACTTGC . PASS Atlas-SNP MXRA8 54587 hgsc.bcm.edu 37 1 1290408 1290408 + Silent SNP A A G rs147996767 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 14.0 7.0 11.0 0.0 0.5 0 A|0.939;G|0.061 0.061 strong . MXRA8 28 . NM_032348 exon5 c.T603C p.A201A CTGTTGAGCCTCC . PASS Atlas-SNP ZSCAN10 84891 hgsc.bcm.edu 37 16 3140601 3140601 + Silent SNP C C T rs140690870 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 30.0 11.0 41.0 0.0 0.366667 0 C|0.991;T|0.009 0.009 strong . ZSCAN10 63 . NM_032805 exon5 c.G669A p.E223E TTTGGGCTCTTCT . PASS Atlas-SNP OR1L1 26737 hgsc.bcm.edu 37 9 125424164 125424164 + Missense_Mutation SNP C C T rs111803762 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 226.0 151.0 155.0 0.0 0.668142 0 C|0.987;T|0.013 0.013 strong OR1L1,caecum,carcinoma,0,1 OR1L1 54 1 NM_001005236 exon1 c.C170T p.T57M TCCAGACGCCCAT . PASS Atlas-SNP DNAH10 196385 hgsc.bcm.edu 37 12 124270467 124270467 + Silent SNP C C T rs116310078 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 60.0 30.0 27.0 0.0 0.5 0 C|0.994;T|0.006 0.006 strong . DNAH10 888 . NM_207437 exon9 c.C1222T p.L408L GTCAACCTGCGGA . PASS Atlas-SNP PCDHA5 56143 hgsc.bcm.edu 37 5 140202821 140202821 + Silent SNP C C G rs80008076 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 276.0 145.0 258.0 0.0 0.525362 0 C|0.983;G|0.017 0.017 strong PCDHA5_ENST00000529859,NS,carcinoma,0,2 PCDHA5 361 2 NM_018908 exon1 c.C1461G p.A487A GAACGCCCTGGTG . PASS Atlas-SNP ITGAX 3687 hgsc.bcm.edu 37 16 31382464 31382464 + Silent SNP G G C rs2230426 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 77.0 36.0 68.0 0.0 0.467532 0 G|0.961;C|0.039 0.039 strong . ITGAX 198 . NM_000887 exon15 c.G1770C p.G590G GAGCGGGGGTCAA . PASS Atlas-SNP COL12A1 1303 hgsc.bcm.edu 37 6 75899300 75899300 + Missense_Mutation SNP T T G rs75535959 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 91.0 50.0 74.0 0.0 0.549451 0 T|0.984;G|0.016 0.016 strong . COL12A1 385 . NM_004370 exon6 c.A626C p.K209T GGAATTTTTTTTA . PASS Atlas-SNP APC 324 hgsc.bcm.edu 37 5 112175240 112175240 + Missense_Mutation SNP G G C rs1801166 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 162.0 54.0 171.0 0.0 0.333333 0 G|0.992;C|0.008 0.008 strong APC,bladder,carcinoma,0,14 APC 4158 14 NM_001127510 exon17 c.G3949C p.E1317Q TCAGCTGAAGATC . PASS Atlas-SNP KRTAP16-1 100505753 hgsc.bcm.edu 37 17 39464934 39464934 + Missense_Mutation SNP G G A rs150797223 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 190.0 86.0 162.0 0.0 0.452632 0 G|0.995;A|0.005 0.005 strong . KRTAP16-1 12 . NM_001146182 exon1 c.C572T p.P191L AGGACAGGCTGGC . PASS Atlas-SNP SNX5 27131 hgsc.bcm.edu 37 20 17923043 17923043 + Silent SNP G G A rs9322 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 125.0 66.0 123.0 0.0 0.528 0 G|1.000;|0.000 . weak . SNX5 38 . NM_014426 exon13 c.C1173T p.V391V AAGGGAGACATTG . PASS Atlas-SNP DENND2A 27147 hgsc.bcm.edu 37 7 140227184 140227184 + Silent SNP C C T rs76760136 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 209.0 113.0 243.0 0.0 0.54067 0 C|0.995;T|0.005 0.005 strong . DENND2A 132 . NM_015689 exon13 c.G2439A p.P813P GGGCGTCGGCGAG . PASS Atlas-SNP ATP2C1 27032 hgsc.bcm.edu 37 3 130698205 130698205 + Silent SNP C C T rs114319700 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 146.0 87.0 122.0 0.0 0.59589 0 C|0.995;T|0.005 0.005 strong . ATP2C1 94 . NM_001199181 exon18 c.C1785T p.A595A CATTGCCTCAGGA . PASS Atlas-SNP EPHA10 284656 hgsc.bcm.edu 37 1 38188736 38188736 + Missense_Mutation SNP G G A rs146568133 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 118.0 57.0 128.0 0.0 0.483051 0 G|0.999;A|0.001 0.001 strong . EPHA10 120 . NM_001099439 exon10 c.C1937T p.T646M TCCAGCGTGACGC . PASS Atlas-SNP POM121L2 94026 hgsc.bcm.edu 37 6 27279877 27279877 + Missense_Mutation SNP T T C rs11965377 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 95.0 39.0 93.0 0.0 0.410526 0 T|0.968;C|0.032 0.032 strong . POM121L2 61 . NM_033482 exon1 c.A73G p.R25G TGGGCCTCTCGGG . PASS Atlas-SNP EVI5L 115704 hgsc.bcm.edu 37 19 7914022 7914022 + Silent SNP C C T rs554853 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 73.0 34.0 65.0 0.0 0.465753 0 C|0.984;T|0.016 0.016 strong . EVI5L 43 . NM_001159944 exon3 c.C543T p.N181N CTTCAACGTCATG . PASS Atlas-SNP UBA1 7317 hgsc.bcm.edu 37 X 47070261 47070261 + Silent SNP G G A rs2230147 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 180.0 94.0 177.0 0.0 0.522222 0 0|0.004;A|0.126 0.126 strong . UBA1 89 . NM_153280 exon19 c.G2220A p.P740P AGCGCCGTTCTGG . PASS Atlas-SNP PCDHB4 56131 hgsc.bcm.edu 37 5 140503278 140503278 + Silent SNP T T C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 65.0 24.0 61.0 1.0 0.369231 0.0163934 . . none PCDHB4,NS,carcinoma,+1,1 PCDHB4 177 1 NM_018938 exon1 c.T1698C p.N566N GCAGAATGGCTCC . scavenged Atlas-SNP FCGBP 8857 hgsc.bcm.edu 37 19 40364011 40364011 + Silent SNP G G A rs78835791 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 146.0 65.0 146.0 0.0 0.445205 0 G|0.988;A|0.012 0.012 strong . FCGBP 416 . NM_003890 exon31 c.C14631T p.S4877S GGAGCAGGAGCCA . PASS Atlas-SNP RGMA 56963 hgsc.bcm.edu 37 15 93588657 93588657 + Silent SNP G G A rs61733836 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 84.0 38.0 77.0 0.0 0.452381 0 G|0.994;A|0.006 0.006 strong . RGMA 49 . NM_001166283 exon4 c.C948T p.D316D CTGGCTGTCCCAG . PASS Atlas-SNP SLC6A16 28968 hgsc.bcm.edu 37 19 49793620 49793620 + Silent SNP C C T rs34817563 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 133.0 68.0 134.0 0.0 0.511278 0 C|0.989;T|0.011 0.011 strong . SLC6A16 62 . NM_014037 exon12 c.G1971A p.P657P TGCCCACGGTGGG . PASS Atlas-SNP LYPLA1 10434 hgsc.bcm.edu 37 8 54967638 54967638 + Missense_Mutation SNP A A C rs76859468 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 223.0 108.0 212.0 0.0 0.484305 0 A|0.983;C|0.017 0.017 strong . LYPLA1 15 . NM_006330 exon6 c.T342G p.I114M TCCCAAAATAATT . PASS Atlas-SNP WWC3 55841 hgsc.bcm.edu 37 X 10106971 10106971 + Missense_Mutation SNP C C T rs377116582 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 19.0 16.0 10.0 0.0 0.842105 0 . . weak . WWC3 142 . NM_015691 exon21 c.C3079T p.R1027W GCCGAGCGGCAGG . PASS Atlas-SNP TACSTD2 4070 hgsc.bcm.edu 37 1 59041940 59041940 + Missense_Mutation SNP T T C rs114373153 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 105.0 61.0 103.0 0.0 0.580952 0 T|0.965;C|0.035 0.035 strong . TACSTD2 6 . NM_002353 exon1 c.A889G p.I297V TGGTGATCACCAG . PASS Atlas-SNP ASXL1 171023 hgsc.bcm.edu 37 20 31022480 31022480 + Silent SNP C C T rs79865730 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 54.0 33.0 29.0 0.0 0.611111 0 C|0.993;T|0.007 0.007 strong . ASXL1 1114 . NM_015338 exon12 c.C1965T p.T655T GGCCACCGATGAG . PASS Atlas-SNP GANC 2595 hgsc.bcm.edu 37 15 42585099 42585099 + Missense_Mutation SNP A A G rs16973015 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 170.0 99.0 177.0 0.0 0.582353 0 A|0.989;G|0.011 0.011 strong . GANC 57 . NM_198141 exon5 c.A496G p.I166V CTACAGATTCTTC . PASS Atlas-SNP SSPO 23145 hgsc.bcm.edu 37 7 149486367 149486367 + Missense_Mutation SNP C C A rs855692 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 87.0 47.0 81.0 0.0 0.54023 0 C|0.968;A|0.032 0.032 strong . . . . NM_198455 exon30 c.C4343A p.P1448Q ATGAGCCGAGCTA . PASS Atlas-SNP AFP 174 hgsc.bcm.edu 37 4 74316461 74316461 + Silent SNP C C T rs115622472 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 161.0 70.0 145.0 0.0 0.434783 0 C|0.994;T|0.006 0.006 strong . AFP 60 . NM_001134 exon11 c.C1419T p.G473G CTGTGGCGAGGGA . PASS Atlas-SNP FAM83B 222584 hgsc.bcm.edu 37 6 54805074 54805074 + Missense_Mutation SNP C C G rs9475076 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 110.0 54.0 80.0 0.0 0.490909 0 C|0.945;G|0.055 0.055 strong . FAM83B 186 . NM_001010872 exon5 c.C1305G p.S435R TGTAAGCCACCAC . PASS Atlas-SNP PTX4 390667 hgsc.bcm.edu 37 16 1536114 1536114 + Silent SNP C C A rs79788206 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 83.0 37.0 76.0 0.0 0.445783 0 C|0.976;A|0.024 0.024 strong . PTX4 46 . NM_001013658 exon3 c.G1248T p.V416V GCTCCCCACGAAG . PASS Atlas-SNP NLRC5 84166 hgsc.bcm.edu 37 16 57071167 57071167 + Silent SNP G G A rs137919442 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 67.0 23.0 62.0 0.0 0.343284 0 G|0.998;A|0.002 0.002 strong . NLRC5 186 . NM_032206 exon14 c.G2772A p.A924A GAGTGCGTGCTGG . PASS Atlas-SNP WDR93 56964 hgsc.bcm.edu 37 15 90281452 90281452 + Missense_Mutation SNP G G A rs35389334 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 130.0 72.0 105.0 0.0 0.553846 0 G|0.977;A|0.023 0.023 strong WDR93,colon,carcinoma,+1,1 WDR93 63 1 NM_020212 exon16 c.G1946A p.R649H GTGAGCGTTTCCT . PASS Atlas-SNP IL4I1 259307 hgsc.bcm.edu 37 19 50393743 50393743 + Silent SNP A A G rs61740372 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 40.0 63.0 0.0 0.526316 0 A|0.982;G|0.018 0.018 strong . IL4I1 50 . NM_172374 exon10 c.T954C p.D318D GTGCACATCGTGC . PASS Atlas-SNP TBCD 6904 hgsc.bcm.edu 37 17 80887123 80887123 + Missense_Mutation SNP G G T rs8072406 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 111.0 53.0 119.0 0.0 0.477477 0 G|0.974;T|0.026 0.026 strong . TBCD 94 . NM_005993 exon31 c.G2828T p.G943V ACCGAGGAGAACT . PASS Atlas-SNP DDX5 1655 hgsc.bcm.edu 37 17 62499163 62499163 + Silent SNP C C T rs56025355 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 169.0 68.0 153.0 0.0 0.402367 0 C|0.993;T|0.007 0.007 strong . DDX5 101 . NM_004396 exon8 c.G864A p.Q288Q AGCAAGCTGTCTT . PASS Atlas-SNP PCDHA5 56143 hgsc.bcm.edu 37 5 140202132 140202132 + Missense_Mutation SNP A A G rs61730633 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 126.0 52.0 130.0 0.0 0.412698 0 A|0.993;G|0.007 0.007 strong . PCDHA5 361 . NM_018908 exon1 c.A772G p.T258A AGTGGGACATTAG . PASS Atlas-SNP TNFRSF25 8718 hgsc.bcm.edu 37 1 6524649 6524649 + Silent SNP T T C rs35137293 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 110.0 50.0 131.0 0.0 0.454545 0 T|0.978;C|0.022 0.022 strong . TNFRSF25 22 . NM_148966 exon4 c.A426G p.L142L GCAGTCTAGGCAT . PASS Atlas-SNP TNFRSF10C 8794 hgsc.bcm.edu 37 8 22960655 22960655 + Silent SNP C C T rs374790272 alternate_allele TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 82.0 40.0 77.0 0.0 0.487805 0 . . alt . TNFRSF10C 30 . NM_003841 exon1 c.C21T p.T7T CAAGACCCTAAAG . PASS Atlas-SNP PAX8 7849 hgsc.bcm.edu 37 2 113994191 113994191 + Silent SNP G G A rs112872760 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 69.0 35.0 52.0 0.0 0.507246 0 G|0.999;A|0.001 0.001 strong . PAX8 42 . NM_013952 exon8 c.C885T p.Y295Y CACGGGGTAGGTC . PASS Atlas-SNP ADAM18 8749 hgsc.bcm.edu 37 8 39468128 39468128 + Missense_Mutation SNP A A T rs73605945 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 280.0 125.0 289.0 0.0 0.446429 0 A|0.964;T|0.036 0.036 strong . ADAM18 169 . NM_001190956 exon6 c.A425T p.Q142L TTTATCAAATGAA . PASS Atlas-SNP BSN 8927 hgsc.bcm.edu 37 3 49698695 49698695 + Silent SNP T T C rs149210839 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 154.0 70.0 163.0 0.0 0.454545 0 T|0.998;C|0.002 0.002 strong . BSN 272 . NM_003458 exon6 c.T9417C p.R3139R TAGCCGTGCCCCA . PASS Atlas-SNP AXDND1 126859 hgsc.bcm.edu 37 1 179363114 179363114 + Missense_Mutation SNP G G C rs139341288 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 79.0 33.0 75.0 0.0 0.417722 0 G|0.997;C|0.003 0.003 strong . AXDND1 142 . NM_144696 exon10 c.G940C p.V314L CAGCGAGTGATGG . PASS Atlas-SNP OR10K1 391109 hgsc.bcm.edu 37 1 158435573 158435573 + Silent SNP C C G rs76205582 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 474.0 205.0 489.0 1.0 0.432489 0.00204499 C|0.966;G|0.034 0.034 strong . OR10K1 80 . NM_001004473 exon1 c.C222G p.T74T CTATACCTTTGTC . PASS Atlas-SNP CEACAM5 1048 hgsc.bcm.edu 37 19 42221418 42221418 + Missense_Mutation SNP G G A rs75927810 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 172.0 91.0 142.0 0.0 0.52907 0 G|0.985;A|0.015 0.015 strong CEACAM5,NS,carcinoma,-2,1 CEACAM5 84 1 NM_004363 exon5 c.G1003A p.V335M AACCCCGTGGAGG . PASS Atlas-SNP MPRIP 23164 hgsc.bcm.edu 37 17 17030129 17030129 + Silent SNP G G A rs140002644 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 136.0 52.0 160.0 0.0 0.382353 0 G|0.998;A|0.002 0.002 strong . MPRIP 87 . NM_015134 exon4 c.G381A p.E127E GAAGGAGCATTTC . PASS Atlas-SNP OPRL1 4987 hgsc.bcm.edu 37 20 62729843 62729843 + Silent SNP A A G rs34874539 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 224.0 114.0 190.0 0.0 0.508929 0 A|0.979;G|0.021 0.021 strong . OPRL1 47 . NM_000913 exon4 c.A804G p.V268V GGTGGTAGTGGCT . PASS Atlas-SNP NUP155 9631 hgsc.bcm.edu 37 5 37299007 37299007 + Silent SNP G G A rs216400 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 108.0 40.0 87.0 0.0 0.37037 0 G|0.967;A|0.033 0.033 strong . NUP155 116 . NM_153485 exon32 c.C3756T p.G1252G AATTTTGCCAAGG . PASS Atlas-SNP GSDMD 79792 hgsc.bcm.edu 37 8 144641514 144641514 + Silent SNP G G T rs7840446 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 79.0 48.0 74.0 0.0 0.607595 0 G|0.971;T|0.029 0.029 strong . GSDMD 28 . NM_001166237 exon5 c.G9T p.S3S GGGGTCGGCCTTT . PASS Atlas-SNP RIMS2 9699 hgsc.bcm.edu 37 8 104513156 104513156 + Silent SNP C C A rs78505067 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 95.0 47.0 80.0 0.0 0.494737 0 C|0.994;A|0.006 0.006 strong . RIMS2 1357 . NM_001100117 exon1 c.C42A p.I14I TCCCATCCCGGCG . PASS Atlas-SNP C11orf53 341032 hgsc.bcm.edu 37 11 111156523 111156523 + Missense_Mutation SNP G G T rs74649813 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 56.0 34.0 75.0 0.0 0.607143 0 G|0.961;T|0.039 0.039 strong C11orf53,NS,haematopoietic_neoplasm,-1,1 C11orf53 17 1 NM_198498 exon4 c.G455T p.W152L CAAGCTGGGGGTC . PASS Atlas-SNP ZNF846 162993 hgsc.bcm.edu 37 19 9868764 9868764 + Missense_Mutation SNP C C G rs60387559 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 80.0 39.0 105.0 0.0 0.4875 0 C|0.992;G|0.007;T|0.000 0.007 strong ZNF846,NS,carcinoma,0,3 ZNF846 61 3 NM_001077624 exon6 c.G989C p.R330P TGAATTCGCATGT . PASS Atlas-SNP GPRIN3 285513 hgsc.bcm.edu 37 4 90170015 90170015 + Missense_Mutation SNP C C A rs114960901 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 190.0 95.0 172.0 0.0 0.5 0 C|0.991;A|0.009 0.009 strong GPRIN3,colon,carcinoma,+1,1 GPRIN3 90 1 NM_198281 exon2 c.G1247T p.G416V AGGACCCCACCTG . PASS Atlas-SNP SGK223 0 hgsc.bcm.edu 37 8 8176770 8176770 + Missense_Mutation SNP C C T rs28533138 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 96.0 44.0 93.0 0.0 0.458333 0 C|0.982;T|0.018 0.018 strong . . . . NM_001080826 exon5 c.G3115A p.V1039M CGGGCACGGACGG . PASS Atlas-SNP TMEM57 55219 hgsc.bcm.edu 37 1 25757607 25757607 + Silent SNP C C T rs114403991 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 55.0 34.0 36.0 0.0 0.618182 0 C|0.992;T|0.008 0.008 strong . TMEM57 72 . NM_018202 exon1 c.C18T p.A6A GAACGCCGACTGC . PASS Atlas-SNP OR10T2 128360 hgsc.bcm.edu 37 1 158368915 158368915 + Silent SNP G G T rs56704148 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 147.0 74.0 134.0 0.0 0.503401 0 G|0.989;T|0.011 0.011 strong . OR10T2 76 . NM_001004475 exon1 c.C342A p.L114L AATGAGGAGGCAG . PASS Atlas-SNP SPATA17 128153 hgsc.bcm.edu 37 1 217824488 217824488 + Silent SNP T T C rs143446051 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 217.0 104.0 191.0 0.0 0.479263 0 T|0.998;C|0.002 0.002 strong . SPATA17 59 . NM_138796 exon3 c.T208C p.L70L AGTTTCTTAGGCA . PASS Atlas-SNP RRP7A 27341 hgsc.bcm.edu 37 22 42910142 42910142 + Missense_Mutation SNP C C T rs61731241 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 75.0 35.0 49.0 0.0 0.466667 0 C|0.958;T|0.042 0.042 strong . RRP7A 25 . NM_015703 exon6 c.G727A p.A243T GCCAGGCGTAGAA . PASS Atlas-SNP DDX55 57696 hgsc.bcm.edu 37 12 124090655 124090655 + Silent SNP C C T rs7973689 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 105.0 56.0 93.0 0.0 0.533333 0 C|0.929;T|0.071 0.071 strong . DDX55 51 . NM_020936 exon3 c.C195T p.I65I TGTCATCCCCATC . PASS Atlas-SNP LAMB4 22798 hgsc.bcm.edu 37 7 107756510 107756510 + Missense_Mutation SNP A A G rs35644375 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 101.0 41.0 92.0 0.0 0.405941 0 A|0.908;G|0.092 0.092 strong . LAMB4 253 . NM_007356 exon3 c.T131C p.M44T GAAGCCATAAGCT . PASS Atlas-SNP FANCI 55215 hgsc.bcm.edu 37 15 89849413 89849413 + Silent SNP C C A rs114810692 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 68.0 32.0 66.0 0.0 0.470588 0 C|0.994;A|0.006 0.006 strong . FANCI 129 . NM_001113378 exon32 c.C3525A p.A1175A TACAGCCCTTGTC . PASS Atlas-SNP TMEM218 219854 hgsc.bcm.edu 37 11 124972114 124972114 + Silent SNP G G A rs7114520 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 79.0 43.0 88.0 0.0 0.544304 0 G|0.946;A|0.054 0.054 strong . TMEM218 14 . NM_001258243 exon4 c.C129T p.V43V CGCACCGACTCCG . PASS Atlas-SNP SCN3B 55800 hgsc.bcm.edu 37 11 123516316 123516316 + Silent SNP G G A rs115752338 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 112.0 68.0 145.0 0.0 0.607143 0 G|0.990;A|0.010 0.010 strong . SCN3B 53 . NM_018400 exon2 c.C198T p.P66P GCCCTCGGGCCTG . PASS Atlas-SNP MED15 51586 hgsc.bcm.edu 37 22 20909389 20909389 + Silent SNP G G A rs147554746 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 53.0 24.0 47.0 0.0 0.45283 0 G|1.000;A|0.000 0.000 strong . MED15 68 . NM_015889 exon5 c.G405A p.G135G CTCGGGGATGGCC . PASS Atlas-SNP RBM19 9904 hgsc.bcm.edu 37 12 114358449 114358449 + Silent SNP C C T rs79120696 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 108.0 58.0 102.0 0.0 0.537037 0 C|0.917;T|0.083 0.083 strong . RBM19 117 . NM_001146699 exon19 c.G2352A p.P784P TTGCTCCGGCTTC . PASS Atlas-SNP GPRC6A 222545 hgsc.bcm.edu 37 6 117127551 117127551 + Silent SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 88.0 4.0 75.0 0.0 0.0454545 0 . . none . GPRC6A 152 . NM_148963 exon3 c.C1317T p.N439N AAAGGCGTTGGGG . PASS Atlas-SNP GRAMD3 65983 hgsc.bcm.edu 37 5 125696124 125696124 + Missense_Mutation SNP T T A rs79046516 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 215.0 82.0 184.0 0.0 0.381395 0 T|0.975;A|0.025 0.025 strong . GRAMD3 30 . NM_001146319 exon1 c.T101A p.V34E GAGAAGTGAAGCC . PASS Atlas-SNP NRCAM 4897 hgsc.bcm.edu 37 7 107790417 107790417 + Missense_Mutation SNP C C T rs74708699 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 175.0 93.0 214.0 0.0 0.531429 0 C|0.990;T|0.010 0.010 strong . NRCAM 267 . NM_001037132 exon30 c.G3853A p.A1285T CTTCAGCCGGCTC . PASS Atlas-SNP PTPRN2 5799 hgsc.bcm.edu 37 7 157959870 157959870 + Silent SNP G G T rs112343839 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 63.0 33.0 76.0 0.0 0.52381 0 G|0.985;T|0.015 0.015 strong . PTPRN2 243 . NM_130843 exon6 c.C663A p.L221L CTGGCCGAGGGTC . PASS Atlas-SNP PPP1R1B 84152 hgsc.bcm.edu 37 17 37791894 37791894 + Silent SNP A A G rs34257414 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 92.0 43.0 76.0 0.0 0.467391 0 A|0.979;G|0.021 0.021 strong . PPP1R1B 9 . NM_032192 exon6 c.A480G p.E160E TCTGGAAGGGCCC . PASS Atlas-SNP SLC9A8 23315 hgsc.bcm.edu 37 20 48472098 48472098 + Silent SNP A A G rs35137210 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 161.0 85.0 164.0 0.0 0.52795 0 A|0.994;G|0.006 0.006 strong . SLC9A8 63 . NM_001260491 exon8 c.A741G p.A247A CGATGCAGTCTCC . PASS Atlas-SNP SLC19A3 80704 hgsc.bcm.edu 37 2 228566993 228566993 + Silent SNP G G A rs34080459 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 71.0 34.0 78.0 0.0 0.478873 0 G|0.982;A|0.018 0.018 strong . SLC19A3 62 . NM_025243 exon2 c.C42T p.Y14Y AGTGGGGTAAATC . PASS Atlas-SNP ROBO1 6091 hgsc.bcm.edu 37 3 78676701 78676701 + Silent SNP T T C rs116125749 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 244.0 120.0 268.0 0.0 0.491803 0 T|0.991;C|0.009 0.009 strong . ROBO1 833 . NM_002941 exon26 c.A3645G p.P1215P GGGACATGGCATT . PASS Atlas-SNP PCDHA4 56144 hgsc.bcm.edu 37 5 140188023 140188023 + Silent SNP C C T rs7702779 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 295.0 151.0 268.0 0.0 0.511864 0 C|0.944;T|0.056 0.056 strong . PCDHA4 419 . NM_031500 exon1 c.C1251T p.S417S CGAGAGCGTGTCA . PASS Atlas-SNP GATAD2B 57459 hgsc.bcm.edu 37 1 153788927 153788927 + Silent SNP G G A rs114813239 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 307.0 144.0 289.0 0.0 0.469055 0 G|0.987;A|0.013 0.013 strong . GATAD2B 62 . NM_020699 exon7 c.C1038T p.A346A TGAGTTGGCAGCA . PASS Atlas-SNP ND4L 0 hgsc.bcm.edu 37 MT 10586 10586 + Silent SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 8.0 8.0 14.0 0.0 1 0 . . none . . . . ENST00000361335 exon1 c.G117A p.S39S ACTATCGCTGTTC . PASS Atlas-SNP WDR34 89891 hgsc.bcm.edu 37 9 131398633 131398633 + Silent SNP C C T rs61744155 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 110.0 30.0 92.0 0.0 0.272727 0 C|0.978;T|0.022 0.022 strong . WDR34 29 . NM_052844 exon4 c.G630A p.P210P GGCCGACGGCTGC . PASS Atlas-SNP FUCA2 2519 hgsc.bcm.edu 37 6 143816869 143816869 + Missense_Mutation SNP G G A rs151156975 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 120.0 66.0 109.0 0.0 0.55 0 G|1.000;A|0.000 0.000 weak . FUCA2 28 . NM_032020 exon7 c.C1379T p.A460V GCTAGAGCCCAGC . PASS Atlas-SNP KRTAP10-3 386682 hgsc.bcm.edu 37 21 45978128 45978128 + Silent SNP G G A rs186210430 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 189.0 99.0 149.0 0.0 0.52381 0 G|0.992;A|0.008 0.008 strong . KRTAP10-3 17 . NM_198696 exon1 c.C471T p.S157S GGACACGGAGGAG . PASS Atlas-SNP CSTB 1476 hgsc.bcm.edu 37 21 45196136 45196136 + Silent SNP C C A rs4533 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 28.0 16.0 13.0 0.0 0.571429 0 C|0.988;A|0.012 0.012 strong . CSTB 3 . NM_000100 exon1 c.G15T p.A5A GGAGGGCGCCCCG . PASS Atlas-SNP TRIML1 339976 hgsc.bcm.edu 37 4 189061010 189061010 + Missense_Mutation SNP A A G rs111308948 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 156.0 73.0 134.0 0.0 0.467949 0 A|0.962;G|0.038 0.038 strong . TRIML1 126 . NM_178556 exon1 c.A298G p.T100A ATGCCCACCACTG . PASS Atlas-SNP CPN2 1370 hgsc.bcm.edu 37 3 194062821 194062821 + Missense_Mutation SNP G G A rs146126834 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 142.0 77.0 124.0 0.0 0.542253 0 G|0.996;A|0.004 0.004 strong CPN2,NS,carcinoma,0,1 CPN2 56 1 NM_001080513 exon2 c.C611T p.A204V GAGAGCGCGTTGT . PASS Atlas-SNP USP34 9736 hgsc.bcm.edu 37 2 61433919 61433919 + Missense_Mutation SNP T T C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 89.0 40.0 101.0 0.0 0.449438 0 . . none . USP34 334 . NM_014709 exon71 c.A9022G p.T3008A GGCGTGTAGACTT . PASS Atlas-SNP TRAM1L1 133022 hgsc.bcm.edu 37 4 118005458 118005458 + Silent SNP C C T rs35809332 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 199.0 94.0 205.0 0.0 0.472362 0 C|0.987;T|0.013 0.013 strong . TRAM1L1 55 . NM_152402 exon1 c.G1092A p.R364R CTCTTTCCTCTTT . PASS Atlas-SNP EXT2 2132 hgsc.bcm.edu 37 11 44129386 44129386 + Missense_Mutation SNP A A G rs4755779 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 204.0 98.0 188.0 0.0 0.480392 0 A|0.981;G|0.019 0.019 strong . EXT2 129 . NM_000401 exon2 c.A223G p.M75V ACTGGCATGTTTC . PASS Atlas-SNP OBSCN 84033 hgsc.bcm.edu 37 1 228504486 228504486 + Silent SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 99.0 60.0 65.0 0.0 0.606061 0 . . none . OBSCN 2142 . NM_001271223 exon62 c.G16233A p.T5411T CTGCACGCTCAGC . PASS Atlas-SNP BUB1B 701 hgsc.bcm.edu 37 15 40453430 40453430 + Silent SNP G G T rs7168394 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 136.0 74.0 126.0 0.0 0.544118 0 G|0.922;T|0.078 0.078 strong . BUB1B 71 . NM_001211 exon1 c.G9T p.A3A GGCGGCGGTGAAG . PASS Atlas-SNP NACA2 342538 hgsc.bcm.edu 37 17 59668275 59668275 + Silent SNP T T A rs61739271 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 257.0 134.0 310.0 0.0 0.521401 0 T|0.957;A|0.043 0.043 strong . NACA2 33 . NM_199290 exon1 c.A267T p.T89T AACTCCTGTAACC . PASS Atlas-SNP ZNF469 84627 hgsc.bcm.edu 37 16 88495021 88495021 + Silent SNP C C A rs74032864 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 53.0 53.0 32.0 0.0 1 0 C|0.956;A|0.044 0.044 strong . ZNF469 121 . NM_001127464 exon1 c.C1143A p.P381P CCTTCCCGAAAGA . PASS Atlas-SNP TAS2R30 259293 hgsc.bcm.edu 37 12 11286688 11286688 + Silent SNP C C T rs375822837 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 357.0 187.0 305.0 1.0 0.52381 0.00327869 . . weak . TAS2R30 28 . NM_001097643 exon1 c.G156A p.A52A GGAGACCGCCAGA . PASS Atlas-SNP SUPT16H 11198 hgsc.bcm.edu 37 14 21841524 21841524 + Silent SNP A A G rs75576875 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 170.0 84.0 126.0 0.0 0.494118 0 A|0.985;G|0.015 0.015 strong . SUPT16H 84 . NM_007192 exon2 c.T132C p.I44I ATAAACAATTTCT . PASS Atlas-SNP ZCCHC9 84240 hgsc.bcm.edu 37 5 80608363 80608363 + Missense_Mutation SNP A A C rs144053491 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 107.0 54.0 116.0 0.0 0.504673 0 A|0.998;C|0.002 0.002 strong . ZCCHC9 26 . NM_001131036 exon6 c.A698C p.E233A TTACAGAGCGAAT . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195507851 195507851 + Missense_Mutation SNP C C G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 242.0 142.0 473.0 1.0 0.586777 0.00211416 . . none MUC4_ENST00000463781,NS,carcinoma,0,1 MUC4 1505 1 NM_018406 exon2 c.G10600C p.A3534P GCGTGGCGTGACC . PASS Atlas-SNP CHD1L 9557 hgsc.bcm.edu 37 1 146757092 146757092 + Missense_Mutation SNP A A C rs13374920 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 183.0 95.0 176.0 0.0 0.519126 0 A|0.976;C|0.024 0.024 strong CHD1L,right_upper_lobe,carcinoma,+1,1 CHD1L 72 1 NM_004284 exon17 c.A1946C p.E649A GACAAGAAGCAGC . PASS Atlas-SNP DENND6B 414918 hgsc.bcm.edu 37 22 50752258 50752258 + Silent SNP G G A rs115446109 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 126.0 59.0 97.0 0.0 0.468254 0 G|0.984;A|0.016 0.016 strong . . . . NM_001001794 exon14 c.C1188T p.L396L CCGTTTGAGCAGC . PASS Atlas-SNP DUSP27 92235 hgsc.bcm.edu 37 1 167095768 167095768 + Missense_Mutation SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 98.0 13.0 83.0 0.0 0.132653 0 . . none DUSP27,NS,carcinoma,0,2 DUSP27 235 2 NM_001080426 exon5 c.G1400A p.R467H GGCGCCGCGCAGA . PASS Atlas-SNP WWP1 11059 hgsc.bcm.edu 37 8 87414308 87414308 + Silent SNP A A G rs74884162 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 196.0 104.0 216.0 1.0 0.530612 0.00462963 . . weak . WWP1 97 . NM_007013 exon8 c.A600G p.Q200Q AGTCCAAAACTCA . PASS Atlas-SNP SLC9C2 284525 hgsc.bcm.edu 37 1 173552703 173552703 + Silent SNP G G A rs16828416 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 202.0 98.0 212.0 0.0 0.485149 0 G|0.910;A|0.090 0.090 strong . . . . NM_178527 exon6 c.C582T p.I194I TGATGCGATGCTA . PASS Atlas-SNP ARMC5 79798 hgsc.bcm.edu 37 16 31477442 31477442 + Silent SNP T T C rs116201073 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 55.0 55.0 56.0 1.0 1 0.0178571 T|0.974;C|0.026 0.026 strong ARMC5,NS,carcinoma,0,1 ARMC5 94 1 NM_001105247 exon6 c.T2040C p.G680G GGGTGGTCTCCGG . scavenged Atlas-SNP XAB2 56949 hgsc.bcm.edu 37 19 7692132 7692132 + Silent SNP G G A rs4134824 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 39.0 24.0 29.0 0.0 0.615385 0 G|0.990;A|0.010 0.010 strong . XAB2 69 . NM_020196 exon4 c.C519T p.L173L CACCTTGAGGAAG . PASS Atlas-SNP ZNF510 22869 hgsc.bcm.edu 37 9 99521150 99521150 + Silent SNP T T C rs61735521 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 162.0 103.0 148.0 0.0 0.635802 0 T|0.970;C|0.030 0.030 strong . ZNF510 59 . NM_014930 exon6 c.A1962G p.K654K ATAAGATTTCTCC . PASS Atlas-SNP KRT24 192666 hgsc.bcm.edu 37 17 38859664 38859664 + Silent SNP G G A rs61237409 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 56.0 28.0 67.0 0.0 0.5 0 G|0.969;A|0.031 0.031 strong . KRT24 60 . NM_019016 exon1 c.C282T p.G94G GACCCCGCCAAAG . PASS Atlas-SNP PTPN13 5783 hgsc.bcm.edu 37 4 87696623 87696623 + Silent SNP C C T rs148059206 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 143.0 69.0 141.0 0.0 0.482517 0 C|0.999;T|0.001 0.001 strong . PTPN13 203 . NM_080685 exon35 c.C5724T p.S1908S TGACAGCCTTTAT . PASS Atlas-SNP TCOF1 6949 hgsc.bcm.edu 37 5 149759201 149759201 + Missense_Mutation SNP C C T rs114689020 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 142.0 75.0 170.0 0.0 0.528169 0 C|0.979;T|0.021 0.021 strong . TCOF1 154 . NM_001135243 exon17 c.C2765T p.S922L GGCCTTCGGCTGC . PASS Atlas-SNP MVP 9961 hgsc.bcm.edu 37 16 29856082 29856082 + Missense_Mutation SNP G G A rs35916172 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 51.0 25.0 55.0 0.0 0.490196 0 G|0.985;A|0.015 0.015 strong . MVP 80 . NM_017458 exon11 c.G1903A p.V635I CTGGTGGTCAGCA . PASS Atlas-SNP RAB40AL 282808 hgsc.bcm.edu 37 X 102192885 102192885 + Silent SNP G G A rs7876193 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 310.0 111.0 266.0 0.0 0.358065 0 G|0.981;A|0.019 0.019 strong . RAB40AL 33 . NM_001031834 exon1 c.G639A p.P213P GCTCCCGCTCCCC . PASS Atlas-SNP TENM1 10178 hgsc.bcm.edu 37 X 123775824 123775824 + Missense_Mutation SNP T T C rs16999334 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 159.0 56.0 155.0 0.0 0.352201 0 0|0.018;C|0.053 0.053 strong . . . . NM_001163278 exon11 c.A1894G p.M632V AACACATTGGGTC . PASS Atlas-SNP AKAP7 9465 hgsc.bcm.edu 37 6 131490324 131490324 + Missense_Mutation SNP C C T rs115301121 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 210.0 104.0 188.0 0.0 0.495238 0 C|0.993;T|0.007 0.007 strong . AKAP7 61 . NM_016377 exon5 c.C500T p.P167L CTTTGCCCTTTCA . PASS Atlas-SNP STARD13 90627 hgsc.bcm.edu 37 13 33684221 33684221 + Missense_Mutation SNP C C T rs140868444 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 48.0 14.0 64.0 0.0 0.291667 0 C|0.996;T|0.004 0.004 strong . STARD13 100 . NM_178006 exon12 c.G2836A p.D946N TCCCGTCGCCCAC . PASS Atlas-SNP ATP10A 57194 hgsc.bcm.edu 37 15 25959298 25959298 + Missense_Mutation SNP T T C rs141928852 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 70.0 30.0 58.0 0.0 0.428571 0 T|0.997;C|0.003 0.003 strong . ATP10A 270 . NM_024490 exon10 c.A1867G p.S623G TGCTGCTGCAGCC . PASS Atlas-SNP ABCC12 94160 hgsc.bcm.edu 37 16 48180311 48180311 + Missense_Mutation SNP T T G rs16945901 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 128.0 63.0 133.0 0.0 0.492188 0 T|0.955;G|0.045 0.045 strong . ABCC12 190 . NM_033226 exon1 c.A25C p.I9L CTGAGATAAGGTA . PASS Atlas-SNP PPEF2 5470 hgsc.bcm.edu 37 4 76788564 76788564 + Missense_Mutation SNP C C T rs34155925 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 136.0 66.0 127.0 0.0 0.485294 0 C|0.877;T|0.123 0.123 strong . PPEF2 108 . NM_006239 exon14 c.G1658A p.R553K TCCACTCTGCTAA . PASS Atlas-SNP CAMK2D 817 hgsc.bcm.edu 37 4 114438740 114438740 + Silent SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 85.0 4.0 66.0 0.0 0.0470588 0 . . none . CAMK2D 55 . NM_172128 exon9 c.G675A p.Q225Q CTTGATCTGCTGA . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195511524 195511524 + Silent SNP G G A rs201351734 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 114.0 20.0 126.0 0.0 0.175439 0 G|0.967;A|0.033 0.033 strong MUC4_ENST00000463781,NS,carcinoma,-1,5 MUC4 1505 5 NM_018406 exon2 c.C6927T p.D2309D GGAAGCGTCGGTG . scavenged Atlas-SNP C17orf53 78995 hgsc.bcm.edu 37 17 42225250 42225250 + Missense_Mutation SNP G G A rs35879996 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 75.0 37.0 68.0 0.0 0.493333 0 G|0.983;A|0.017 0.017 strong . C17orf53 59 . NM_001171251 exon3 c.G79A p.A27T GAGGATGCAGAGA . PASS Atlas-SNP PXDN 7837 hgsc.bcm.edu 37 2 1642736 1642736 + Missense_Mutation SNP C C T rs61747868 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 107.0 47.0 105.0 0.0 0.439252 0 C|0.992;T|0.008 0.008 strong . PXDN 255 . NM_012293 exon21 c.G4088A p.G1363E TGTTCCCCCTGTC . PASS Atlas-SNP OR7A10 390892 hgsc.bcm.edu 37 19 14952189 14952189 + Silent SNP G G T rs114596415 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 152.0 74.0 137.0 0.0 0.486842 0 G|0.980;T|0.020 0.020 strong OR7A10,NS,carcinoma,-2,1 OR7A10 33 1 NM_001005190 exon1 c.C501A p.P167P ACAAAAGGGCAGT . PASS Atlas-SNP ASMTL 8623 hgsc.bcm.edu 37 X 1531701 1531701 + Silent SNP C C T rs11553056 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 448.0 211.0 404.0 1.0 0.470982 0.00247525 C|0.981;T|0.019 0.019 strong . ASMTL 56 . NM_004192 exon12 c.G1569A p.L523L CCGGCACAGGACG . PASS Atlas-SNP ATP1A4 480 hgsc.bcm.edu 37 1 160129273 160129273 + Silent SNP G G A rs61734686 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 150.0 72.0 176.0 0.0 0.48 0 G|0.992;A|0.008 0.008 strong . ATP1A4 167 . NM_144699 exon6 c.G735A p.L245L CCCTCTGGAGACC . PASS Atlas-SNP FLNA 2316 hgsc.bcm.edu 37 X 153581214 153581214 + Missense_Mutation SNP C C A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 182.0 41.0 167.0 0.0 0.225275 0 . . none . FLNA 373 . NM_001110556 exon39 c.G6305T p.C2102F ACCCTGCACGTCC . PASS Atlas-SNP FBF1 85302 hgsc.bcm.edu 37 17 73913827 73913827 + Silent SNP G G T rs150139322 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 185.0 85.0 161.0 0.0 0.459459 0 G|0.997;T|0.003 0.003 strong . FBF1 48 . NM_001080542 exon22 c.C2446A p.R816R GCAGCCGGCTCTG . PASS Atlas-SNP OR4D9 390199 hgsc.bcm.edu 37 11 59283299 59283299 + Missense_Mutation SNP T T C rs79922105 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 83.0 26.0 69.0 0.0 0.313253 0 T|0.980;C|0.020 0.020 strong . OR4D9 47 . NM_001004711 exon1 c.T914C p.L305P GACGGCTAGGACA . PASS Atlas-SNP ATP13A4 84239 hgsc.bcm.edu 37 3 193120627 193120627 + Silent SNP C C T rs61733355 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 146.0 63.0 128.0 0.0 0.431507 0 C|0.982;T|0.018 0.018 strong . ATP13A4 154 . NM_032279 exon30 c.G3405A p.L1135L CATCCACAGGGCT . PASS Atlas-SNP NOP9 161424 hgsc.bcm.edu 37 14 24772373 24772373 + Missense_Mutation SNP C C T rs147123517 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 150.0 70.0 148.0 0.0 0.466667 0 C|0.996;T|0.004 0.004 strong . . . . NM_174913 exon6 c.C1237T p.R413C GCCTGTCGCAGAG . PASS Atlas-SNP IRGQ 126298 hgsc.bcm.edu 37 19 44096772 44096772 + Silent SNP C C T rs114508854 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 26.0 13.0 21.0 0.0 0.5 0 C|0.981;T|0.019 0.019 strong . IRGQ 40 . NM_001007561 exon3 c.G1278A p.E426E CGGCGCCTCCTCC . PASS Atlas-SNP NBPF7 343505 hgsc.bcm.edu 37 1 120378702 120378702 + Silent SNP A A G rs10158823 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 203.0 105.0 152.0 0.0 0.517241 0 A|0.919;G|0.081 0.081 strong . NBPF7 46 . NM_001047980 exon7 c.T1044C p.V348V CTGTTCAACTAGT . PASS Atlas-SNP KRTAP4-3 85290 hgsc.bcm.edu 37 17 39324254 39324254 + Silent SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 210.0 33.0 434.0 0.0 0.157143 0 . . none . KRTAP4-3 40 . NM_033187 exon1 c.C171T p.S57S GCAGCTGGAGATA . PASS Atlas-SNP IQGAP3 128239 hgsc.bcm.edu 37 1 156539169 156539169 + Missense_Mutation SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 107.0 43.0 153.0 0.0 0.401869 0 . . none . IQGAP3 146 . NM_178229 exon2 c.C124T p.R42C CTCACCGCTTGGC . PASS Atlas-SNP DNAH6 1768 hgsc.bcm.edu 37 2 84752784 84752784 + Silent SNP A A C rs73945104 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 261.0 130.0 277.0 0.0 0.498084 0 A|0.989;C|0.011 0.011 strong . DNAH6 194 . NM_001370 exon3 c.A321C p.P107P ACGTCCAGTAAGC . PASS Atlas-SNP THBS1 7057 hgsc.bcm.edu 37 15 39874396 39874396 + Missense_Mutation SNP T T G rs41515347 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 94.0 41.0 76.0 0.0 0.43617 0 T|0.969;G|0.031 0.031 strong . THBS1 106 . NM_003246 exon3 c.T70G p.S24A ACAGAGTCTGGCG . PASS Atlas-SNP LIPE 3991 hgsc.bcm.edu 37 19 42910416 42910416 + Silent SNP C C T rs28657829 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 124.0 56.0 92.0 0.0 0.451613 0 C|0.978;T|0.022 0.022 strong LIPE,rectum,carcinoma,-1,1 LIPE 83 1 NM_005357 exon7 c.G2262A p.P754P TGTGGCCGGGTAG . PASS Atlas-SNP ODF2 4957 hgsc.bcm.edu 37 9 131260808 131260808 + Missense_Mutation SNP C C G rs16930426 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 117.0 76.0 128.0 0.0 0.649573 0 C|0.971;G|0.029 0.029 strong . ODF2 227 . NM_153435 exon19 c.C2321G p.T774S GTGGGACCCTGGC . PASS Atlas-SNP SPAG4 6676 hgsc.bcm.edu 37 20 34208869 34208869 + Silent SNP G G A rs34962502 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 116.0 66.0 92.0 0.0 0.568965 0 G|0.986;A|0.014 0.014 strong SPAG4,colon,carcinoma,+1,1 SPAG4 36 1 NM_003116 exon12 c.G1239A p.T413T TTTCACGTGCTTG . PASS Atlas-SNP OR10G4 390264 hgsc.bcm.edu 37 11 123886648 123886648 + Silent SNP T T C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 939.0 202.0 1243.0 0.0 0.215122 0 . . none OR10G4,right_lower_lobe,carcinoma,-2,1 OR10G4 77 1 NM_001004462 exon1 c.T367C p.L123L CGCTACTTGGCCA . scavenged Atlas-SNP MYH14 79784 hgsc.bcm.edu 37 19 50810405 50810405 + Silent SNP C C T rs201839634 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 40.0 17.0 66.0 0.0 0.425 0 C|0.999;T|0.001 0.001 strong . MYH14 261 . NM_001145809 exon41 c.C5778T p.L1926L CCAGCTCCGGGAC . PASS Atlas-SNP KRTAP10-6 386674 hgsc.bcm.edu 37 21 46011547 46011547 + Silent SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 330.0 34.0 254.0 0.0 0.10303 0 . . none . KRTAP10-6 57 . NM_198688 exon1 c.C819T p.P273P GCAGACGGGCACA . PASS Atlas-SNP ATXN1 6310 hgsc.bcm.edu 37 6 16328115 16328115 + Missense_Mutation SNP T T C rs143125796 byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 51.0 24.0 42.0 0.0 0.470588 0 T|0.999;C|0.001 0.001 strong . ATXN1 117 . NM_001128164 exon7 c.A427G p.I143V ATGGGATGAAGCT . PASS Atlas-SNP SMCHD1 23347 hgsc.bcm.edu 37 18 2667005 2667005 + Silent SNP T T C rs7239096 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 98.0 54.0 97.0 0.0 0.55102 0 T|0.974;C|0.026 0.026 strong . SMCHD1 88 . NM_015295 exon3 c.T399C p.Y133Y ATATTATGCCAGT . PASS Atlas-SNP TSPAN9 10867 hgsc.bcm.edu 37 12 3389559 3389559 + Silent SNP C C T rs877089 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 38.0 13.0 38.0 0.0 0.342105 0 C|0.974;T|0.026 0.026 strong . TSPAN9 20 . NM_006675 exon6 c.C342T p.N114N CGAGAACGCCAAG . PASS Atlas-SNP TTN 7273 hgsc.bcm.edu 37 2 179613258 179613258 + Silent SNP A A C rs72648906 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 202.0 97.0 190.0 0.0 0.480198 0 A|0.977;C|0.023 0.023 strong . TTN 18412 . NM_133379 exon46 c.T13869G p.S4623S TATATGAGAATAC . PASS Atlas-SNP WRN 7486 hgsc.bcm.edu 37 8 30954338 30954338 + Silent SNP C C T rs11574263 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 29.0 12.0 28.0 0.0 0.413793 0 C|0.997;T|0.003 0.003 strong . WRN 116 . NM_000553 exon17 c.C1953T p.G651G CATGGGCCTGCTC . PASS Atlas-SNP EPB41L1 2036 hgsc.bcm.edu 37 20 34782156 34782156 + Silent SNP G G A rs111865221 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 170.0 77.0 137.0 0.0 0.452941 0 G|0.991;A|0.009 0.009 strong . EPB41L1 111 . NM_001258329 exon13 c.G1323A p.S441S AGCCTCGGTCAGC . PASS Atlas-SNP CELSR1 9620 hgsc.bcm.edu 37 22 46932079 46932079 + Missense_Mutation SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 89.0 45.0 95.0 0.0 0.505618 0 . . none . CELSR1 242 . NM_014246 exon1 c.C989T p.T330M GGCGGCGTACTGT . PASS Atlas-SNP KIAA1407 57577 hgsc.bcm.edu 37 3 113699599 113699599 + Missense_Mutation SNP C C G rs35546981 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 266.0 121.0 223.0 1.0 0.454887 0.00448431 C|0.997;G|0.003 0.003 strong . KIAA1407 80 . NM_020817 exon14 c.G2205C p.Q735H TTCCAGCTGCTGG . PASS Atlas-SNP OR10Z1 128368 hgsc.bcm.edu 37 1 158576472 158576472 + Missense_Mutation SNP C C T rs76424590 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 210.0 93.0 211.0 0.0 0.442857 0 C|0.962;T|0.038 0.038 strong OR10Z1,NS,carcinoma,-2,1 OR10Z1 99 1 NM_001004478 exon1 c.C244T p.L82F AGAATGCTCTCTG . PASS Atlas-SNP WDR65 149465 hgsc.bcm.edu 37 1 43638436 43638436 + Silent SNP G G T rs6695238 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 129.0 66.0 95.0 0.0 0.511628 0 G|0.920;T|0.080 0.080 strong . WDR65 76 . NM_152498 exon2 c.G12T p.V4V AGCCGTGGTAGCT . PASS Atlas-SNP RALGDS 5900 hgsc.bcm.edu 37 9 135974054 135974054 + Missense_Mutation SNP C C T rs143209866 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 189.0 65.0 132.0 0.0 0.343915 0 C|0.998;T|0.002 0.002 strong . RALGDS 75 . NM_006266 exon18 c.G2665A p.V889M CCTTCACTCCCTT . PASS Atlas-SNP ATP6V0D2 245972 hgsc.bcm.edu 37 8 87162515 87162515 + Missense_Mutation SNP G G A rs10094744 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 101.0 45.0 107.0 0.0 0.445545 0 G|0.970;A|0.030 0.030 strong . ATP6V0D2 61 . NM_152565 exon6 c.G814A p.G272R CATTACGGAGTAT . PASS Atlas-SNP ZP4 57829 hgsc.bcm.edu 37 1 238046056 238046056 + Missense_Mutation SNP G G A rs35187146 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 107.0 44.0 103.0 0.0 0.411215 0 G|0.985;A|0.015 0.015 strong . ZP4 161 . NM_021186 exon11 c.C1481T p.P494L TCTGGAGGGTCCT . PASS Atlas-SNP CES5A 221223 hgsc.bcm.edu 37 16 55883667 55883667 + Missense_Mutation SNP T T C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 54.0 31.0 58.0 0.0 0.574074 0 . . none . CES5A 206 . NM_001190158 exon12 c.A1379G p.Y460C TAGAAGTAGACAG . PASS Atlas-SNP PRDM8 56978 hgsc.bcm.edu 37 4 81124299 81124299 + Silent SNP C C T rs150632206 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 4.0 4.0 2.0 0.0 1 0 C|0.982;T|0.018 0.018 strong . PRDM8 44 . NM_001099403 exon4 c.C1683T p.S561S CGGGTCCCTGCCG . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195510266 195510266 + Missense_Mutation SNP A A C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 69.0 18.0 79.0 2.0 0.26087 0.0253165 . . none MUC4_ENST00000463781,NS,lymphoid_neoplasm,0,1 MUC4 1505 1 NM_018406 exon2 c.T8185G p.S2729A TGGATGATGAGGA . scavenged Atlas-SNP PDE9A 5152 hgsc.bcm.edu 37 21 44119120 44119120 + Nonsense_Mutation SNP C C T rs74697345 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 91.0 38.0 81.0 0.0 0.417582 0 C|0.990;T|0.010 0.010 strong PDE9A,colon,carcinoma,0,1 PDE9A 69 1 NM_001001570 exon5 c.C337T p.R113X ACTCTCCGGTAAG . PASS Atlas-SNP CCDC105 126402 hgsc.bcm.edu 37 19 15122104 15122104 + Missense_Mutation SNP G G T rs199904661 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 44.0 30.0 43.0 0.0 0.681818 0 G|0.993;T|0.007 0.007 strong . CCDC105 53 . NM_173482 exon1 c.G467T p.R156L TGCTGCGCCAGCG . PASS Atlas-SNP DOCK5 80005 hgsc.bcm.edu 37 8 25149590 25149590 + Silent SNP G G A rs35475676 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 111.0 51.0 96.0 0.0 0.459459 0 G|0.983;A|0.017 0.017 strong . DOCK5 167 . NM_024940 exon6 c.G372A p.L124L CAGCCTGATCGAG . PASS Atlas-SNP CIAPIN1 57019 hgsc.bcm.edu 37 16 57474740 57474740 + Missense_Mutation SNP G G T rs11557672 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 138.0 56.0 117.0 0.0 0.405797 0 G|0.975;T|0.025 0.025 strong . CIAPIN1 17 . NM_020313 exon2 c.C101A p.A34E GTTAACGCTTGAA . PASS Atlas-SNP TRAF3IP3 80342 hgsc.bcm.edu 37 1 209933659 209933659 + Missense_Mutation SNP G G A rs78296889 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 158.0 65.0 150.0 0.0 0.411392 0 G|0.984;A|0.016 0.016 strong . TRAF3IP3 68 . NM_025228 exon3 c.G275A p.R92Q CCAGGCGGCCAGG . PASS Atlas-SNP KCNG4 93107 hgsc.bcm.edu 37 16 84270650 84270650 + Missense_Mutation SNP C C T rs61743417 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 142.0 59.0 126.0 0.0 0.415493 0 C|0.971;T|0.029 0.029 strong KCNG4,NS,carcinoma,0,1 KCNG4 71 1 NM_172347 exon2 c.G442A p.A148T AGTAGGCCAGCTC . PASS Atlas-SNP NLRP7 199713 hgsc.bcm.edu 37 19 55441971 55441971 + Silent SNP G G A rs61746780 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 111.0 63.0 105.0 0.0 0.567568 0 G|0.976;A|0.024 0.024 strong . NLRP7 411 . NM_001127255 exon9 c.C2706T p.A902A GCTGCAGGCTTCT . PASS Atlas-SNP ACSL5 51703 hgsc.bcm.edu 37 10 114181773 114181773 + Missense_Mutation SNP A A G rs12254915 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 70.0 22.0 88.0 0.0 0.314286 0 A|0.982;G|0.018 0.018 strong . ACSL5 51 . NM_016234 exon16 c.A1624G p.T542A TACTTTACAGTGA . PASS Atlas-SNP KRT78 196374 hgsc.bcm.edu 37 12 53242389 53242389 + Missense_Mutation SNP G G A rs116117459 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 187.0 89.0 142.0 0.0 0.475936 0 G|0.983;A|0.017 0.017 strong . KRT78 41 . NM_173352 exon1 c.C326T p.T109M TCCTGCGTCCGCA . PASS Atlas-SNP UACA 55075 hgsc.bcm.edu 37 15 70960422 70960422 + Silent SNP C C T rs61742861 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 108.0 56.0 140.0 0.0 0.518519 0 C|0.985;T|0.015 0.015 strong . UACA 235 . NM_018003 exon16 c.G2601A p.E867E TTTAACCTCTTCA . PASS Atlas-SNP PAPPA2 60676 hgsc.bcm.edu 37 1 176564092 176564092 + Missense_Mutation SNP C C T rs34698817 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 34.0 91.0 0.0 0.447368 0 C|0.997;T|0.003 0.003 strong PAPPA2_ENST00000367661,NS,carcinoma,-1,1 PAPPA2 665 1 NM_021936 exon3 c.C1352T p.A451V AGGAAGCGACTGA . PASS Atlas-SNP AARS2 57505 hgsc.bcm.edu 37 6 44270189 44270189 + Missense_Mutation SNP A A T rs35967387 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 131.0 66.0 133.0 0.0 0.503817 0 A|0.977;T|0.023 0.023 strong . AARS2 77 . NM_020745 exon18 c.T2426A p.L809Q CTCCCCAGACTCA . PASS Atlas-SNP LRIT3 345193 hgsc.bcm.edu 37 4 110791453 110791453 + Silent SNP T T C rs9994891 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 151.0 148.0 128.0 0.0 0.980132 0 T|0.866;C|0.134 0.134 strong . LRIT3 107 . NM_198506 exon4 c.T1548C p.T516T AGTGACTGTGTTG . PASS Atlas-SNP C5orf42 65250 hgsc.bcm.edu 37 5 37226888 37226888 + Silent SNP A A G rs115435816 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 90.0 51.0 93.0 0.0 0.566667 0 A|0.984;G|0.016 0.016 strong . C5orf42 422 . NM_023073 exon12 c.T1809C p.T603T AAAATGAGTGATA . PASS Atlas-SNP HMGB1 3146 hgsc.bcm.edu 37 13 31037445 31037445 + Silent SNP T T C rs983723 bycluster;byfrequency;by2hit2allele;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 53.0 22.0 40.0 0.0 0.415094 0 T|0.941;C|0.059 0.059 strong . HMGB1 21 . NM_002128 exon3 c.A195G p.K65K GTCCGCTTTTGCC . PASS Atlas-SNP LRP4 4038 hgsc.bcm.edu 37 11 46918529 46918529 + Silent SNP C C T rs879721 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 35.0 86.0 0.0 0.460526 0 C|0.943;T|0.057 0.057 strong . LRP4 160 . NM_002334 exon8 c.G813A p.T271T TTCTGCCGTACAC . PASS Atlas-SNP PRR3 80742 hgsc.bcm.edu 37 6 30529622 30529622 + Missense_Mutation SNP G G A rs3888778 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 63.0 33.0 62.0 0.0 0.52381 0 G|0.963;A|0.037 0.037 strong . PRR3 5 . NM_025263 exon3 c.G181A p.G61S CACAGAGGTCCTC . PASS Atlas-SNP SLC38A5 92745 hgsc.bcm.edu 37 X 48326270 48326270 + Silent SNP C C T rs34099520 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 145.0 64.0 121.0 0.0 0.441379 0 C|0.997;T|0.003 0.003 strong . SLC38A5 98 . NM_033518 exon3 c.G42A p.S14S AGCATCCGAAGGG . PASS Atlas-SNP ORC5 5001 hgsc.bcm.edu 37 7 103844599 103844599 + Missense_Mutation SNP T T A rs2307413 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 115.0 58.0 123.0 0.0 0.504348 0 T|0.985;A|0.015 0.015 strong . ORC5 48 . NM_002553 exon2 c.A156T p.K52N TAAAGTTTTCAAC . PASS Atlas-SNP AHNAK2 113146 hgsc.bcm.edu 37 14 105411091 105411091 + Missense_Mutation SNP G G A rs143814844 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 257.0 254.0 241.0 2.0 0.988327 0.00829876 G|0.971;A|0.029 0.029 strong AHNAK2_ENST00000333244,NS,carcinoma,0,1 AHNAK2 719 1 NM_138420 exon7 c.C10697T p.T3566M TTGGGCGTCTTTA . PASS Atlas-SNP HIRA 7290 hgsc.bcm.edu 37 22 19340928 19340928 + Silent SNP G G A rs34000365 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 107.0 50.0 96.0 0.0 0.46729 0 G|0.990;A|0.010 0.010 strong . HIRA 100 . NM_003325 exon23 c.C2799T p.H933H GTACTCGTGGCTG . PASS Atlas-SNP RARS2 57038 hgsc.bcm.edu 37 6 88229953 88229953 + Missense_Mutation SNP G G A rs138460258 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 52.0 27.0 78.0 0.0 0.519231 0 G|1.000;A|0.000 0.000 strong . RARS2 61 . NM_020320 exon13 c.C1057T p.H353Y GAAAATGCTTTTT . PASS Atlas-SNP TM2D1 83941 hgsc.bcm.edu 37 1 62190780 62190780 + Missense_Mutation SNP A A G rs200054903 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 57.0 34.0 63.0 0.0 0.596491 0 . . weak TM2D1_ENST00000371177,right_upper_lobe,carcinoma,+1,3 TM2D1 37 3 NM_032027 exon1 c.T13C p.W5R ACGGCCAGGCGGC . PASS Atlas-SNP FBRSL1 57666 hgsc.bcm.edu 37 12 133084874 133084874 + Missense_Mutation SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 63.0 31.0 81.0 0.0 0.492063 0 . . none . FBRSL1 47 . NM_001142641 exon2 c.G427A p.G143R AGCCCCGGGCAGG . PASS Atlas-SNP LPIN3 64900 hgsc.bcm.edu 37 20 39977300 39977300 + Missense_Mutation SNP G G C rs150562240 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 44.0 17.0 44.0 0.0 0.386364 0 G|0.999;C|0.001 0.001 strong . LPIN3 69 . NM_022896 exon4 c.G330C p.W110C CCCTTGGGGGGGT . PASS Atlas-SNP OSCAR 126014 hgsc.bcm.edu 37 19 54599119 54599119 + Missense_Mutation SNP G G A rs1110643 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 96.0 53.0 61.0 0.0 0.552083 0 G|0.993;A|0.007 0.007 strong . OSCAR 22 . NM_206818 exon5 c.C685T p.R229W CGGGCCGGGCCTC . PASS Atlas-SNP SGCG 6445 hgsc.bcm.edu 37 13 23853547 23853547 + Silent SNP C C T rs35628352 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 109.0 59.0 117.0 0.0 0.541284 0 C|0.991;T|0.009 0.009 strong . SGCG 64 . NM_000231 exon5 c.C435T p.N145N CTCCAACGACGGC . PASS Atlas-SNP CPAMD8 27151 hgsc.bcm.edu 37 19 17081707 17081707 + Missense_Mutation SNP G G T rs9305083 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 38.0 19.0 34.0 0.0 0.5 0 G|0.914;T|0.086 0.086 strong . CPAMD8 192 . NM_015692 exon18 c.C2348A p.P783H CTGGGGGGGTGCC . PASS Atlas-SNP CYP3A5 1577 hgsc.bcm.edu 37 7 99262835 99262835 + Silent SNP C C T rs10264272 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 160.0 72.0 136.0 0.0 0.45 0 C|0.952;T|0.048 0.048 strong . CYP3A5 46 . NM_000777 exon7 c.G624A p.K208K GAACTTCTTAGTG . PASS Atlas-SNP ABCC11 85320 hgsc.bcm.edu 37 16 48234381 48234381 + Missense_Mutation SNP G G A rs41282045 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 48.0 24.0 50.0 0.0 0.5 0 G|0.996;A|0.004 0.004 strong . ABCC11 177 . NM_033151 exon14 c.C1888T p.R630W GGCCCCGCTCTCC . PASS Atlas-SNP CACNG6 59285 hgsc.bcm.edu 37 19 54501540 54501540 + Missense_Mutation SNP C C T rs78495589 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 56.0 38.0 63.0 0.0 0.678571 0 C|0.986;T|0.014 0.014 strong . CACNG6 42 . NM_145815 exon2 c.C379T p.R127C AATGCACGCATCT . PASS Atlas-SNP CEP85L 387119 hgsc.bcm.edu 37 6 118953755 118953755 + Silent SNP T T C rs9320659 bycluster;byfrequency;by2hit2allele;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 57.0 31.0 83.0 0.0 0.54386 0 T|0.980;C|0.020 0.020 strong . CEP85L 26 . NM_001178035 exon3 c.A102G p.A34A TAGCCATGCTGAT . PASS Atlas-SNP SRGAP2D 100996712 hgsc.bcm.edu 37 1 121116732 121116732 + Nonsense_Mutation SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 272.0 11.0 288.0 0.0 0.0404412 0 . . none . . . . NM_001271887 exon3 c.C289T p.Q97X AAAGCCCAGAATG . PASS Atlas-SNP CST4 1472 hgsc.bcm.edu 37 20 23669584 23669584 + Missense_Mutation SNP A A T rs73902131 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 122.0 48.0 102.0 0.0 0.393443 0 A|0.964;T|0.036 0.036 strong . CST4 37 . NM_001899 exon1 c.T23A p.L8Q AGTAGCAGGGTAC . PASS Atlas-SNP MUC20 200958 hgsc.bcm.edu 37 3 195452679 195452679 + Missense_Mutation SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 990.0 191.0 609.0 0.0 0.192929 0 . . none . MUC20 84 . NM_152673 exon3 c.C692T p.P231L GGTCCCCGGGATC . PASS Atlas-SNP PLIN4 729359 hgsc.bcm.edu 37 19 4511944 4511944 + Silent SNP A A G rs143131726 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 306.0 134.0 321.0 0.0 0.437909 0 A|0.994;G|0.006 0.006 strong . PLIN4 191 . NM_001080400 exon3 c.T1986C p.N662N GGCCACATTCACA . PASS Atlas-SNP P2RX7 5027 hgsc.bcm.edu 37 12 121622380 121622380 + Missense_Mutation SNP C C G rs2230913 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 64.0 32.0 65.0 0.0 0.5 0 C|0.955;G|0.045;T|0.000 0.045 strong . P2RX7 53 . NM_002562 exon13 c.C1563G p.H521Q CAGACACGTCCTG . PASS Atlas-SNP HRC 3270 hgsc.bcm.edu 37 19 49657526 49657526 + Silent SNP G G A rs150557795 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 283.0 36.0 253.0 1.0 0.127208 0.00395257 G|0.999;A|0.001 0.001 weak HRC,NS,carcinoma,0,1 HRC 85 1 NM_002152 exon1 c.C969T p.D323D TCTGTGGTCTTGG . scavenged Atlas-SNP CHPF2 54480 hgsc.bcm.edu 37 7 150935367 150935367 + Missense_Mutation SNP C C T rs76509585 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 38.0 10.0 36.0 0.0 0.263158 0 C|0.988;T|0.012 0.012 strong . CHPF2 52 . NM_019015 exon4 c.C1919T p.P640L GGCCCCCGGGGGC . PASS Atlas-SNP RNF145 153830 hgsc.bcm.edu 37 5 158596032 158596032 + Silent SNP G G A rs61732785 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 353.0 167.0 334.0 1.0 0.473088 0.00299401 G|0.985;A|0.015 0.015 strong RNF145,right_upper_lobe,carcinoma,+2,1 RNF145 110 1 NM_001199380 exon8 c.C1060T p.L354L CTGCCAGGATTAA . PASS Atlas-SNP GYG1 2992 hgsc.bcm.edu 37 3 148714662 148714662 + Missense_Mutation SNP A A T rs35054019 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 179.0 85.0 154.0 0.0 0.47486 0 A|0.990;T|0.010 0.010 strong . GYG1 29 . NM_004130 exon4 c.A452T p.H151L TGTTGCATCTTGC . PASS Atlas-SNP ZNF385C 201181 hgsc.bcm.edu 37 17 40180910 40180910 + Silent SNP G G A rs7208473 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 84.0 39.0 75.0 0.0 0.464286 0 G|0.989;A|0.011 0.011 strong . ZNF385C 7 . NM_001242704 exon5 c.C621T p.A207A TCCCACGGCAGCT . PASS Atlas-SNP TRPM1 4308 hgsc.bcm.edu 37 15 31323360 31323360 + Missense_Mutation SNP T T G rs181499296 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 126.0 46.0 74.0 0.0 0.365079 0 T|0.999;G|0.001 0.001 strong . TRPM1 183 . NM_001252020 exon22 c.A3004C p.M1002L CGATCATCTGAGT . PASS Atlas-SNP OR51F2 119694 hgsc.bcm.edu 37 11 4843119 4843119 + Silent SNP C C T rs142530902 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 143.0 83.0 134.0 0.0 0.58042 0 C|1.000;T|0.000 0.000 weak . OR51F2 72 . NM_001004753 exon1 c.C504T p.A168A TGTTGCCGTCATG . PASS Atlas-SNP ATP1A2 477 hgsc.bcm.edu 37 1 160090993 160090993 + Silent SNP G G A rs61734527 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 77.0 29.0 85.0 0.0 0.376623 0 G|0.991;A|0.009 0.009 strong . ATP1A2 167 . NM_000702 exon3 c.G129A p.K43K CCACAAGCTGTCC . PASS Atlas-SNP GLRA1 2741 hgsc.bcm.edu 37 5 151231140 151231140 + Silent SNP C C G rs76872663 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 145.0 76.0 109.0 0.0 0.524138 0 C|0.994;G|0.006 0.006 strong GLRA1,NS,carcinoma,-2,1 GLRA1 61 1 NM_000171 exon7 c.G723C p.R241R GTGGAACCGGGCC . PASS Atlas-SNP NFATC3 4775 hgsc.bcm.edu 37 16 68224786 68224786 + Missense_Mutation SNP C C G rs77352556 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 231.0 128.0 200.0 0.0 0.554113 0 C|0.991;G|0.009 0.009 strong . NFATC3 190 . NM_173163 exon9 c.C2214G p.D738E ACATGACAGTGTA . PASS Atlas-SNP H1FOO 132243 hgsc.bcm.edu 37 3 129267915 129267915 + Silent SNP T T C rs60616647 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 134.0 134.0 127.0 0.0 1 0 T|0.938;C|0.062 0.062 strong . H1FOO 20 . NM_153833 exon3 c.T450C p.G150G AGCGGGTGAGGCC . PASS Atlas-SNP ZC3H4 23211 hgsc.bcm.edu 37 19 47575170 47575170 + Missense_Mutation SNP T T C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 117.0 63.0 92.0 0.0 0.538462 0 . . none . ZC3H4 96 . NM_015168 exon13 c.A2011G p.M671V GCATCATTGGAGG . PASS Atlas-SNP BPIFB3 359710 hgsc.bcm.edu 37 20 31661399 31661399 + Silent SNP C C T rs114341725 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 218.0 109.0 184.0 1.0 0.5 0.00543478 C|0.993;T|0.007 0.007 strong C20orf185,caecum,carcinoma,+2,1 . . 1 NM_182658 exon15 c.C1419T p.T473T GCTGACCGTGGCA . scavenged Atlas-SNP PRPF4 9128 hgsc.bcm.edu 37 9 116053895 116053895 + Silent SNP C C T rs146201781 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 122.0 78.0 102.0 0.0 0.639344 0 C|0.999;T|0.001 0.001 strong . PRPF4 56 . NM_004697 exon14 c.C1524T p.A508A CATAGCCACTTGC . PASS Atlas-SNP KRTAP10-6 386674 hgsc.bcm.edu 37 21 46011409 46011409 + Silent SNP G G A rs144363824 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 265.0 54.0 364.0 0.0 0.203774 0 G|0.975;A|0.025 0.025 strong . KRTAP10-6 57 . NM_198688 exon1 c.C957T p.P319P GGGGACGGGCACG . PASS Atlas-SNP JRK 8629 hgsc.bcm.edu 37 8 143746414 143746414 + Missense_Mutation SNP G G A rs115218091 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 88.0 38.0 90.0 0.0 0.431818 0 G|0.991;A|0.009 0.009 strong . . . . NM_003724 exon2 c.C1064T p.A355V TAGCGGGCATGGG . PASS Atlas-SNP SSTR5 6755 hgsc.bcm.edu 37 16 1128901 1128901 + Silent SNP C C T rs35128939 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 24.0 5.0 24.0 0.0 0.208333 0 C|0.997;T|0.003 0.003 strong . SSTR5 36 . NM_001172560 exon2 c.C33T p.S11S GCCCAGCTGGAAC . PASS Atlas-SNP SLC3A2 6520 hgsc.bcm.edu 37 11 62648748 62648748 + Silent SNP C C T rs73487878 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 73.0 36.0 57.0 0.0 0.493151 0 C|0.975;T|0.025 0.025 strong . SLC3A2 55 . NM_001012662 exon4 c.C559T p.L187L GCACTGCTGCTGC . PASS Atlas-SNP TCP10L2 401285 hgsc.bcm.edu 37 6 167585652 167585652 + Missense_Mutation SNP A A C rs59203630 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 177.0 173.0 183.0 0.0 0.977401 0 A|0.966;C|0.034 0.034 strong . TCP10L2 41 . NM_001145121 exon2 c.A20C p.E7A AGCTCGAGGCCAG . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195508524 195508524 + Silent SNP G G A rs141064104 by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 119.0 57.0 197.0 0.0 0.478992 0 G|0.950;A|0.050 0.050 strong MUC4_ENST00000463781,NS,carcinoma,-2,2 MUC4 1505 2 NM_018406 exon2 c.C9927T p.H3309H AGTGGCGTGACCT . PASS Atlas-SNP ADRB1 153 hgsc.bcm.edu 37 10 115804123 115804123 + Silent SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 80.0 42.0 89.0 0.0 0.525 0 . . none . ADRB1 16 . NM_000684 exon1 c.C232T p.L78L AATGTGCTGGTGA . PASS Atlas-SNP NUDT6 11162 hgsc.bcm.edu 37 4 123814170 123814170 + Missense_Mutation SNP G G A rs138619142 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 231.0 114.0 212.0 0.0 0.493506 0 G|0.998;A|0.002 0.002 strong . NUDT6 50 . NM_007083 exon5 c.C764T p.A255V GTCTTCGCCAGGT . PASS Atlas-SNP FGD3 89846 hgsc.bcm.edu 37 9 95766336 95766336 + Silent SNP C C T rs201073654 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 60.0 99.0 0.0 0.645161 0 C|1.000;T|0.000 0.000 strong . FGD3 116 . NM_001083536 exon5 c.C597T p.G199G CATGGGCATATTC . PASS Atlas-SNP BIVM-ERCC5 0 hgsc.bcm.edu 37 13 103519119 103519119 + Silent SNP G G A rs73573973 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 74.0 35.0 48.0 0.0 0.472973 0 G|0.994;A|0.006 0.006 strong ERCC5,NS,carcinoma,+2,1 . . 1 NM_001204425 exon19 c.G3819A p.R1273R AGCGCGGCATGTC . PASS Atlas-SNP PLEKHS1 79949 hgsc.bcm.edu 37 10 115531790 115531790 + Missense_Mutation SNP C C T rs143039412 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 126.0 56.0 141.0 0.0 0.444444 0 C|1.000;T|0.000 0.000 weak . PLEKHS1 19 . NM_024889 exon8 c.C614T p.A205V CAGAAGCCACTCA . PASS Atlas-SNP PCLO 27445 hgsc.bcm.edu 37 7 82585803 82585803 + Missense_Mutation SNP G G C rs114445550 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 139.0 71.0 120.0 0.0 0.510791 0 G|0.997;C|0.003 0.003 strong . PCLO 1506 . NM_014510 exon5 c.C4466G p.S1489C TTGCTGGAAGGAA . PASS Atlas-SNP ASL 435 hgsc.bcm.edu 37 7 65551782 65551782 + Silent SNP G G A rs115468878 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 74.0 35.0 90.0 0.0 0.472973 0 G|0.993;A|0.007 0.007 strong . ASL 39 . NM_000048 exon8 c.G576A p.K192K GCGGAAGCGGATC . PASS Atlas-SNP JAG2 3714 hgsc.bcm.edu 37 14 105622157 105622157 + Silent SNP G G A rs61750261 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 153.0 68.0 161.0 0.0 0.444444 0 G|0.974;A|0.026 0.026 strong . JAG2 69 . NM_145159 exon4 c.C645T p.N215N AAAGTCGTTGCGG . PASS Atlas-SNP PCDHA9 9752 hgsc.bcm.edu 37 5 140229925 140229925 + Silent SNP G G C rs58792000 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 211.0 111.0 220.0 0.0 0.526066 0 G|0.937;C|0.063 0.063 strong . PCDHA9 373 . NM_031857 exon1 c.G1845C p.T615T AGAAACGGCCAGC . PASS Atlas-SNP BPIFA2 140683 hgsc.bcm.edu 37 20 31756954 31756954 + Missense_Mutation SNP G G A rs17124277 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 116.0 47.0 141.0 0.0 0.405172 0 G|0.963;A|0.037 0.037 strong . . . . NM_080574 exon2 c.G3A p.M1I AAAGATGCTTCAG . PASS Atlas-SNP MVP 9961 hgsc.bcm.edu 37 16 29841950 29841950 + Missense_Mutation SNP G G A rs142997389 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 123.0 52.0 132.0 0.0 0.422764 0 G|0.991;A|0.009 0.009 strong . MVP 80 . NM_017458 exon2 c.G80A p.R27H TGTCCCGTGTGGA . PASS Atlas-SNP CEP350 9857 hgsc.bcm.edu 37 1 179983153 179983153 + Missense_Mutation SNP A A G rs111349041 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 75.0 46.0 75.0 0.0 0.613333 0 A|0.986;G|0.014 0.014 strong . CEP350 418 . NM_014810 exon10 c.A1565G p.D522G ATAAGGACTTTTT . PASS Atlas-SNP STAU2 27067 hgsc.bcm.edu 37 8 74526081 74526081 + Silent SNP G G A rs28728027 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 56.0 26.0 79.0 0.0 0.464286 0 G|0.995;A|0.005 0.005 strong STAU2_ENST00000524300,NS,carcinoma,-1,3 STAU2 148 3 NM_001164380 exon9 c.C789T p.R263R CGCAGCGCGCTTC . PASS Atlas-SNP ROR1 4919 hgsc.bcm.edu 37 1 64643650 64643650 + Silent SNP C C T rs35586842 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 126.0 76.0 121.0 0.0 0.603175 0 C|0.972;T|0.028 0.028 strong . ROR1 113 . NM_005012 exon9 c.C1926T p.S642S TTACTCCGCTGAT . PASS Atlas-SNP CLEC4F 165530 hgsc.bcm.edu 37 2 71044076 71044076 + Missense_Mutation SNP T T C rs61754946 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 254.0 112.0 199.0 0.0 0.440945 0 T|0.979;C|0.021 0.021 strong . CLEC4F 95 . NM_173535 exon4 c.A437G p.N146S TCAGCATTGGTGT . PASS Atlas-SNP SSPO 23145 hgsc.bcm.edu 37 7 149489443 149489443 + Silent SNP C C A rs893603 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 112.0 37.0 81.0 0.0 0.330357 0 C|0.975;A|0.025 0.025 strong . . . . NM_198455 exon37 c.C5596A p.R1866R TGGCCCCGGCAGT . PASS Atlas-SNP ZNF76 7629 hgsc.bcm.edu 37 6 35263009 35263009 + Missense_Mutation SNP C C T rs73745177 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 40.0 18.0 52.0 0.0 0.45 0 C|0.994;T|0.006 0.006 strong . ZNF76 37 . NM_003427 exon14 c.C1697T p.S566L CAGTGTCGGAGAG . PASS Atlas-SNP NPNT 255743 hgsc.bcm.edu 37 4 106819089 106819089 + Silent SNP C C T rs147630398 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 205.0 113.0 191.0 0.0 0.55122 0 C|0.999;T|0.001 0.001 strong . NPNT 69 . NM_001184692 exon2 c.C103T p.L35L ATTGGCCTATGTC . PASS Atlas-SNP DTX2 113878 hgsc.bcm.edu 37 7 76109877 76109877 + Silent SNP G G A rs149301449 byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 238.0 135.0 214.0 0.0 0.567227 0 G|0.997;A|0.003 0.003 strong . DTX2 64 . NM_001102596 exon1 c.G51A p.A17A CCCCGCGGCTGTG . PASS Atlas-SNP AKNA 80709 hgsc.bcm.edu 37 9 117130838 117130838 + Missense_Mutation SNP C C T rs138188658 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 120.0 66.0 104.0 0.0 0.55 0 C|0.996;T|0.004 0.004 strong . AKNA 119 . NM_030767 exon5 c.G1454A p.S485N TGGATGCTGTGGT . PASS Atlas-SNP CCDC37 348807 hgsc.bcm.edu 37 3 126137456 126137456 + Silent SNP T T C rs76764772 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 66.0 29.0 67.0 0.0 0.439394 0 T|0.941;C|0.059 0.059 strong . CCDC37 69 . NM_182628 exon7 c.T489C p.Y163Y CCAGTATGCCCTG . PASS Atlas-SNP UHMK1 127933 hgsc.bcm.edu 37 1 162467927 162467927 + Missense_Mutation SNP C C G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 122.0 57.0 115.0 0.0 0.467213 0 . . none UHMK1_ENST00000489294,NS,carcinoma,0,2 UHMK1 65 2 NM_175866 exon1 c.C137G p.P46R GCAACCCTGGCTC . PASS Atlas-SNP CLEC4F 165530 hgsc.bcm.edu 37 2 71046536 71046536 + Silent SNP G G A rs17006361 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 167.0 85.0 180.0 0.0 0.508982 0 G|0.948;A|0.052 0.052 strong CLEC4F,NS,carcinoma,0,3 CLEC4F 95 3 NM_173535 exon3 c.C219T p.A73A AATTACGGCTTGC . PASS Atlas-SNP ALK 238 hgsc.bcm.edu 37 2 30143259 30143259 + Silent SNP G G T rs192127241 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 20.0 9.0 15.0 0.0 0.45 0 G|0.998;T|0.002 0.002 strong . ALK 533 . NM_004304 exon1 c.C267A p.G89G TAGCGAGCCGCGG . PASS Atlas-SNP OR8B12 219858 hgsc.bcm.edu 37 11 124413491 124413491 + Silent SNP C C T rs61746453 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 51.0 27.0 60.0 0.0 0.529412 0 C|0.974;T|0.026 0.026 strong OR8B12,bladder,carcinoma,-1,1 OR8B12 66 1 NM_001005195 exon1 c.G60A p.P20P CAGTCCCGGCTGG . PASS Atlas-SNP PCNP 57092 hgsc.bcm.edu 37 3 101293097 101293097 + Missense_Mutation SNP A A G rs116752753 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 210.0 114.0 161.0 0.0 0.542857 0 A|0.993;G|0.007 0.007 strong . PCNP 8 . NM_020357 exon1 c.A38G p.K13R CTGAAAAGTCGCA . PASS Atlas-SNP NCL 4691 hgsc.bcm.edu 37 2 232320281 232320281 + Silent SNP G G A rs78372304 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 210.0 109.0 259.0 0.0 0.519048 0 G|0.994;A|0.006 0.006 strong . NCL 80 . NM_005381 exon13 c.C1887T p.A629A TTCCATGGCCTCC . PASS Atlas-SNP LGI3 203190 hgsc.bcm.edu 37 8 22005939 22005939 + Missense_Mutation SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 46.0 21.0 48.0 0.0 0.456522 0 . . none . LGI3 44 . NM_139278 exon8 c.G1381A p.A461T GCAGGGCCTGCAC . PASS Atlas-SNP PRODH2 58510 hgsc.bcm.edu 37 19 36304143 36304143 + Missense_Mutation SNP G G A rs138605929 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 43.0 28.0 50.0 0.0 0.651163 0 G|0.992;A|0.008 0.008 strong . PRODH2 68 . NM_021232 exon1 c.C41T p.S14F CTTTGGGAGGCCA . PASS Atlas-SNP NLN 57486 hgsc.bcm.edu 37 5 65084101 65084101 + Missense_Mutation SNP A A G rs6863012 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 170.0 88.0 175.0 0.0 0.517647 0 A|0.936;G|0.064 0.064 strong . NLN 51 . NM_020726 exon8 c.A1115G p.K372R AACTCAAGTATTC . PASS Atlas-SNP C4BPA 722 hgsc.bcm.edu 37 1 207305069 207305069 + Silent SNP A A C rs6663608 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 117.0 52.0 87.0 0.0 0.444444 0 A|0.930;C|0.070 0.070 strong . C4BPA 70 . NM_000715 exon8 c.A1068C p.P356P GACCCCATACCAA . PASS Atlas-SNP COL6A5 256076 hgsc.bcm.edu 37 3 130188009 130188009 + Silent SNP C C T rs59160673 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 108.0 49.0 103.0 0.0 0.453704 0 C|0.989;T|0.011 0.011 strong . COL6A5 205 . NM_153264 exon38 c.C7161T p.G2387G TATTGGCCATGCC . PASS Atlas-SNP LRRC8C 84230 hgsc.bcm.edu 37 1 90179470 90179470 + Silent SNP A A G rs34576461 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 68.0 35.0 81.0 0.0 0.514706 0 A|0.979;G|0.021 0.021 strong . LRRC8C 73 . NM_032270 exon3 c.A1341G p.Q447Q GTTGCAATCTCTA . PASS Atlas-SNP MYO7B 4648 hgsc.bcm.edu 37 2 128364787 128364787 + Missense_Mutation SNP G G C rs201386852 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 180.0 93.0 192.0 0.0 0.516667 0 . . weak . MYO7B 359 . NM_001080527 exon21 c.G2431C p.V811L ATCCTCGTGGGCT . PASS Atlas-SNP SBNO2 22904 hgsc.bcm.edu 37 19 1109577 1109577 + Silent SNP C C T rs200767766 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 104.0 50.0 88.0 0.0 0.480769 0 C|0.986;T|0.014 0.014 strong . SBNO2 112 . NM_014963 exon28 c.G3144A p.L1048L CCACTTCAGGCCG . PASS Atlas-SNP SGK223 0 hgsc.bcm.edu 37 8 8176540 8176540 + Silent SNP C C T rs116402506 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 46.0 26.0 32.0 0.0 0.565217 0 C|0.970;T|0.030 0.030 strong . . . . NM_001080826 exon5 c.G3345A p.A1115A CTCGTACGCCTCG . PASS Atlas-SNP ZP1 22917 hgsc.bcm.edu 37 11 60642633 60642633 + Silent SNP C C T rs112864814 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 126.0 60.0 99.0 0.0 0.47619 0 C|0.980;T|0.020 0.020 strong . ZP1 69 . NM_207341 exon11 c.C1686T p.D562D TAATGACACTGCC . PASS Atlas-SNP FANCA 2175 hgsc.bcm.edu 37 16 89874756 89874756 + Missense_Mutation SNP G G A rs17232246 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 194.0 87.0 172.0 0.0 0.448454 0 G|0.950;A|0.050 0.050 strong . FANCA 99 . NM_000135 exon6 c.C542T p.A181V CACACCGCTTCAA . PASS Atlas-SNP ARHGEF10 9639 hgsc.bcm.edu 37 8 1905222 1905222 + Silent SNP A A G rs146227529 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 72.0 38.0 67.0 0.0 0.527778 0 A|0.996;G|0.004 0.004 strong . ARHGEF10 255 . NM_014629 exon29 c.A3828G p.S1276S CAGATCAGAGGAC . PASS Atlas-SNP CHRNA1 1134 hgsc.bcm.edu 37 2 175613477 175613477 + Missense_Mutation SNP T T A rs6739001 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 134.0 59.0 175.0 0.0 0.440298 0 T|0.971;A|0.029 0.029 strong . CHRNA1 92 . NM_001039523 exon9 c.A1148T p.D383V TTTTTGTCTTGCT . PASS Atlas-SNP EPHX1 2052 hgsc.bcm.edu 37 1 226032896 226032896 + Silent SNP T T C rs2234700 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 147.0 78.0 143.0 0.0 0.530612 0 T|0.980;C|0.020 0.020 strong . EPHX1 57 . NM_001136018 exon9 c.T1216C p.L406L GAGCTATTGCACA . PASS Atlas-SNP DISP1 84976 hgsc.bcm.edu 37 1 223178226 223178226 + Missense_Mutation SNP A A G rs61743732 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 28.0 12.0 27.0 0.0 0.428571 0 A|0.971;G|0.029 0.029 strong . DISP1 145 . NM_032890 exon10 c.A3487G p.S1163G AGTCCCAGTGACA . PASS Atlas-SNP TBC1D9B 23061 hgsc.bcm.edu 37 5 179300131 179300131 + Silent SNP T T C rs269469 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 139.0 60.0 144.0 0.0 0.431655 0 T|0.899;C|0.101 0.101 strong . TBC1D9B 157 . NM_198868 exon13 c.A2304G p.K768K GGACACTTTCAGG . PASS Atlas-SNP EGFR 1956 hgsc.bcm.edu 37 7 55238087 55238087 + Silent SNP C C T rs10258429 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 147.0 79.0 161.0 0.0 0.537415 0 C|0.889;T|0.111 0.111 strong . EGFR 20426 . NM_201284 exon16 c.C1968T p.H656H GTCCCACCAGAGC . PASS Atlas-SNP PCDHB8 56128 hgsc.bcm.edu 37 5 140558384 140558384 + Missense_Mutation SNP C C T rs116452537 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 285.0 140.0 469.0 1.0 0.491228 0.0021322 C|0.994;T|0.006 0.006 strong . PCDHB8 199 . NM_019120 exon1 c.C769T p.P257S GACAGTCCAATAA . PASS Atlas-SNP PDGFRB 5159 hgsc.bcm.edu 37 5 149509508 149509508 + Missense_Mutation SNP G G A rs74943037 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 133.0 58.0 100.0 1.0 0.43609 0.01 G|0.972;A|0.028 0.028 strong PDGFRB,NS,carcinoma,0,1 PDGFRB 142 1 NM_002609 exon10 c.C1391T p.T464M AGCAGCGTGGGCG . scavenged Atlas-SNP NEIL3 55247 hgsc.bcm.edu 37 4 178283474 178283474 + Missense_Mutation SNP A A G rs35418725 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 124.0 55.0 146.0 0.0 0.443548 0 A|0.996;G|0.004 0.004 strong . NEIL3 89 . NM_018248 exon10 c.A1667G p.H556R GCAACCATGGCAA . PASS Atlas-SNP GLT1D1 144423 hgsc.bcm.edu 37 12 129360518 129360518 + Missense_Mutation SNP G G A rs73438369 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 151.0 72.0 140.0 0.0 0.476821 0 G|0.981;A|0.019 0.019 strong . GLT1D1 48 . NM_144669 exon2 c.G128A p.S43N TTGAAAGCCGATC . PASS Atlas-SNP MAATS1 89876 hgsc.bcm.edu 37 3 119445139 119445139 + Silent SNP A A G rs9835381 bycluster;byfrequency;by2hit2allele;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 131.0 62.0 153.0 0.0 0.473282 0 A|0.983;G|0.017 0.017 strong . . . . NM_033364 exon7 c.A804G p.K268K GAGGAAAATGATG . PASS Atlas-SNP ACVRL1 94 hgsc.bcm.edu 37 12 52308344 52308344 + Silent SNP G G A rs1058563 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 221.0 113.0 190.0 0.0 0.511312 0 G|0.957;A|0.043 0.043 strong . ACVRL1 60 . NM_000020 exon6 c.G747A p.V249V CACAGTGTTGCTC . PASS Atlas-SNP DDX49 54555 hgsc.bcm.edu 37 19 19035080 19035080 + Missense_Mutation SNP G G C rs143159618 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 231.0 99.0 214.0 0.0 0.428571 0 G|1.000;C|0.000 0.000 weak . DDX49 37 . NM_019070 exon7 c.G815C p.S272T AATTCAGCTTCCC . PASS Atlas-SNP OR1E1 8387 hgsc.bcm.edu 37 17 3301246 3301246 + Silent SNP G G A rs11078447 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 243.0 121.0 200.0 0.0 0.497942 0 G|0.983;A|0.017 0.017 strong . OR1E1 37 . NM_003553 exon1 c.C459T p.T153T ATGGAAGGTGGTC . PASS Atlas-SNP GADL1 339896 hgsc.bcm.edu 37 3 30842517 30842517 + Missense_Mutation SNP C C A rs61738477 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 122.0 46.0 99.0 0.0 0.377049 0 C|0.996;A|0.004 0.004 strong . GADL1 91 . NM_207359 exon12 c.G1114T p.D372Y TCACATCATAGAA . PASS Atlas-SNP CLUAP1 23059 hgsc.bcm.edu 37 16 3556398 3556398 + Missense_Mutation SNP G G T rs34115694 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 101.0 63.0 98.0 0.0 0.623762 0 G|0.974;T|0.026 0.026 strong . CLUAP1 32 . NM_015041 exon3 c.G202T p.A68S ATTAAGGCAATTG . PASS Atlas-SNP ACSM2A 123876 hgsc.bcm.edu 37 16 20471487 20471487 + Missense_Mutation SNP G G C rs74483128 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 120.0 68.0 124.0 0.0 0.566667 0 . . weak . ACSM2A 120 . NM_001010845 exon3 c.G51C p.Q17H TACTCAGATGTCC . PASS Atlas-SNP FBXW9 84261 hgsc.bcm.edu 37 19 12805431 12805431 + Missense_Mutation SNP T T C rs10424623 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 108.0 48.0 81.0 0.0 0.444444 0 T|0.921;C|0.079 0.079 strong . FBXW9 30 . NM_032301 exon3 c.A655G p.T219A GCTTAGTGCCTAA . PASS Atlas-SNP SPTA1 6708 hgsc.bcm.edu 37 1 158632531 158632531 + Missense_Mutation SNP T T C rs7547313 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 205.0 104.0 179.0 0.0 0.507317 0 T|0.946;C|0.054 0.054 strong SPTA1,NS,carcinoma,+2,1 SPTA1 720 1 NM_003126 exon17 c.A2425G p.I809V CTTGGATCCAGGC . PASS Atlas-SNP CYP4F12 66002 hgsc.bcm.edu 37 19 15791066 15791066 + Missense_Mutation SNP C C T rs61731193 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 355.0 89.0 254.0 0.0 0.250704 0 C|0.988;T|0.012 0.012 strong . CYP4F12 89 . NM_023944 exon4 c.C356T p.P119L TTGCACCCAAGGA . PASS Atlas-SNP GPR144 347088 hgsc.bcm.edu 37 9 127231763 127231763 + Missense_Mutation SNP G G A rs114565703 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 143.0 137.0 131.0 1.0 0.958042 0.00763359 G|0.975;A|0.025 0.025 strong . GPR144 33 . NM_001161808 exon16 c.G2495A p.R832H GTGCCCGCCGCCG . PASS Atlas-SNP FBN3 84467 hgsc.bcm.edu 37 19 8150393 8150393 + Missense_Mutation SNP C C T rs17160151 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 49.0 26.0 34.0 0.0 0.530612 0 C|0.903;T|0.097 0.097 strong . FBN3 300 . NM_032447 exon55 c.G6941A p.S2314N CTGCTGCTGGACA . PASS Atlas-SNP NR5A1 2516 hgsc.bcm.edu 37 9 127245070 127245070 + Silent SNP C C T rs79833327 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 115.0 42.0 113.0 0.0 0.365217 0 C|0.983;T|0.017 0.017 strong . NR5A1 32 . NM_004959 exon7 c.G1353A p.L451L GATGAGCAGGTTG . PASS Atlas-SNP DENND5A 23258 hgsc.bcm.edu 37 11 9286515 9286515 + Silent SNP C C T rs75717840 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 42.0 25.0 15.0 0.0 0.595238 0 C|0.980;T|0.020 0.020 strong . DENND5A 84 . NM_015213 exon1 c.G102A p.E34E CGACAGCTCGTCC . PASS Atlas-SNP AMOTL1 154810 hgsc.bcm.edu 37 11 94602457 94602457 + Silent SNP G G A rs181764487 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 139.0 69.0 120.0 0.0 0.496403 0 G|0.995;A|0.005 0.005 strong AMOTL1,NS,carcinoma,+1,2 AMOTL1 95 2 NM_130847 exon12 c.G2583A p.T861T CACTACGGCAGCC . PASS Atlas-SNP TTC28 23331 hgsc.bcm.edu 37 22 28378450 28378450 + Missense_Mutation SNP T T C rs61744744 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 105.0 44.0 97.0 0.0 0.419048 0 T|0.988;C|0.012 0.012 strong . TTC28 84 . NM_001145418 exon23 c.A7205G p.N2402S TTCTTATTGTGCC . PASS Atlas-SNP ZNF804B 219578 hgsc.bcm.edu 37 7 88965992 88965992 + Missense_Mutation SNP T T G rs115968745 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 193.0 93.0 169.0 0.0 0.481865 0 T|0.996;G|0.004 0.004 strong . ZNF804B 322 . NM_181646 exon4 c.T3696G p.I1232M CCCTATTGCTCAT . PASS Atlas-SNP TTBK1 84630 hgsc.bcm.edu 37 6 43251608 43251608 + Missense_Mutation SNP C C T rs146633224 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 99.0 44.0 99.0 0.0 0.444444 0 C|0.997;T|0.003 0.003 strong . TTBK1 124 . NM_032538 exon14 c.C3130T p.R1044C CCCAGACGCCATG . PASS Atlas-SNP CCDC65 85478 hgsc.bcm.edu 37 12 49310831 49310831 + Missense_Mutation SNP A A G rs140228766 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 175.0 68.0 143.0 0.0 0.388571 0 A|0.999;G|0.001 0.001 strong . CCDC65 41 . NM_033124 exon4 c.A549G p.I183M CTATATAGATTCT . PASS Atlas-SNP RECQL 5965 hgsc.bcm.edu 37 12 21643223 21643223 + Missense_Mutation SNP C C T rs1065751 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 115.0 60.0 128.0 0.0 0.521739 0 T|0.045;G|0.039 0.045 strong . RECQL 45 . NM_032941 exon5 c.G304A p.V102I TTGTTACGTTAAT . PASS Atlas-SNP ESRRG 2104 hgsc.bcm.edu 37 1 216692741 216692741 + Silent SNP C C T rs10863247 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 34.0 10.0 37.0 0.0 0.294118 0 C|0.910;T|0.090 0.090 strong . ESRRG 111 . NM_001243518 exon7 c.G921A p.A307A CTGGTCCGCCAGG . PASS Atlas-SNP POMT1 10585 hgsc.bcm.edu 37 9 134393834 134393834 + Silent SNP A A G rs62620174 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 115.0 68.0 110.0 0.0 0.591304 0 A|0.976;G|0.024 0.024 strong . POMT1 59 . NM_007171 exon14 c.A1341G p.E447E GCAGGAAATTGTG . PASS Atlas-SNP ZBTB7C 201501 hgsc.bcm.edu 37 18 45566903 45566903 + Silent SNP T T C rs114461217 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 376.0 168.0 365.0 1.0 0.446809 0.00273973 T|0.990;C|0.010 0.010 strong . ZBTB7C 73 . NM_001039360 exon2 c.A576G p.T192T ATGGTCTGTCTTG . PASS Atlas-SNP KRT31 3881 hgsc.bcm.edu 37 17 39553676 39553676 + Missense_Mutation SNP G G C rs6503628 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 205.0 90.0 215.0 0.0 0.439024 0 G|0.997;C|0.003 0.003 strong . KRT31 158 . NM_002277 exon1 c.C116G p.A39G ACATTGGCGGGGA . PASS Atlas-SNP C9orf84 158401 hgsc.bcm.edu 37 9 114454735 114454735 + Silent SNP T T C rs73656294 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 40.0 9.0 57.0 0.0 0.225 0 T|0.988;C|0.012 0.012 strong . C9orf84 207 . NM_173521 exon25 c.A3330G p.S1110S TTGCGGTGATTTT . PASS Atlas-SNP LYST 1130 hgsc.bcm.edu 37 1 235971802 235971802 + Silent SNP G G A rs16832868 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 173.0 90.0 189.0 0.0 0.520231 0 G|0.934;A|0.066 0.066 strong . LYST 370 . NM_000081 exon5 c.C2316T p.D772D AAGCACGTCCTGA . PASS Atlas-SNP KIF16B 55614 hgsc.bcm.edu 37 20 16492163 16492163 + Silent SNP T T C rs16997775 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 50.0 21.0 40.0 0.0 0.42 0 T|0.978;C|0.022 0.022 strong . KIF16B 305 . NM_001199865 exon6 c.A456G p.E152E ATAAATTTCTAAG . PASS Atlas-SNP GNB2L1 10399 hgsc.bcm.edu 37 5 180665123 180665123 + Silent SNP G G A rs11540200 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 168.0 75.0 158.0 0.0 0.446429 0 G|0.977;A|0.023 0.023 strong . GNB2L1 22 . NM_006098 exon6 c.C753T p.A251A GCCTGTGGCAGCA . PASS Atlas-SNP ADAM32 203102 hgsc.bcm.edu 37 8 39091546 39091546 + Missense_Mutation SNP G G A rs114068623 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 82.0 46.0 90.0 0.0 0.560976 0 G|0.990;A|0.010 0.010 strong . ADAM32 70 . NM_145004 exon16 c.G1763A p.R588Q TGCCTCGAACAGT . PASS Atlas-SNP IPO7 10527 hgsc.bcm.edu 37 11 9456506 9456506 + Silent SNP T T C rs148344816 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 89.0 55.0 102.0 0.0 0.617977 0 T|0.998;C|0.002 0.002 strong . IPO7 72 . NM_006391 exon19 c.T2100C p.Y700Y TAATTATGTAACA . PASS Atlas-SNP DDX31 64794 hgsc.bcm.edu 37 9 135493792 135493792 + Nonsense_Mutation SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 120.0 48.0 129.0 0.0 0.4 0 . . none . DDX31 76 . NM_022779 exon18 c.C2065T p.R689X TGGCTCGCTCTCG . PASS Atlas-SNP SERPINB4 6318 hgsc.bcm.edu 37 18 61310738 61310738 + Missense_Mutation SNP T T C rs79086230 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 547.0 254.0 550.0 0.0 0.464351 0 . . weak . SERPINB4 89 . NM_002974 exon2 c.A74G p.N25S ATGTTGTTCTCTT . PASS Atlas-SNP C17orf74 201243 hgsc.bcm.edu 37 17 7330437 7330437 + Missense_Mutation SNP A A G rs3892554 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 67.0 30.0 68.0 0.0 0.447761 0 A|0.955;G|0.045 0.045 strong . C17orf74 56 . NM_175734 exon3 c.A1127G p.Q376R GCTCCCAGGACCC . PASS Atlas-SNP CACNA1A 773 hgsc.bcm.edu 37 19 13563767 13563767 + Silent SNP G G A rs1800039 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 216.0 98.0 198.0 0.0 0.453704 0 G|0.992;A|0.008 0.008 strong . CACNA1A 715 . NM_001127221 exon3 c.C462T p.A154A CCCAAGGGCAATG . PASS Atlas-SNP TTC40 54777 hgsc.bcm.edu 37 10 134626383 134626383 + Silent SNP C C T rs7090011 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 21.0 8.0 17.0 0.0 0.380952 0 C|0.966;T|0.034 0.034 strong . TTC40 100 . NM_001200049 exon55 c.G7407A p.Q2469Q CAGGGCCTGCTCC . PASS Atlas-SNP MUC6 4588 hgsc.bcm.edu 37 11 1017522 1017522 + Missense_Mutation SNP T T G rs199592093 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 1236.0 124.0 957.0 0.0 0.100324 0 . . weak . MUC6 408 . NM_005961 exon31 c.A5279C p.E1760A GTGACTTCAGGAT . PASS Atlas-SNP SLC35G6 643664 hgsc.bcm.edu 37 17 7385774 7385774 + Silent SNP C C T rs201649944 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 235.0 120.0 235.0 1.0 0.510638 0.00425532 C|0.999;T|0.001 0.001 weak . . . . NM_001102614 exon2 c.C471T p.Y157Y TGGCTACGACTGG . PASS Atlas-SNP LIFR 3977 hgsc.bcm.edu 37 5 38523529 38523529 + Missense_Mutation SNP C C T rs140538535 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 267.0 115.0 280.0 0.0 0.430712 0 C|0.999;T|0.001 0.001 strong LIFR_ENST00000263409,NS,carcinoma,0,2 LIFR 348 2 NM_002310 exon5 c.G553A p.V185I ATTTTACGAGCTC . PASS Atlas-SNP MORN2 729967 hgsc.bcm.edu 37 2 39108693 39108693 + Silent SNP G G A rs6756998 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 115.0 60.0 100.0 0.0 0.521739 0 G|0.983;A|0.017 0.017 strong . MORN2 3 . NM_001145450 exon4 c.G111A p.K37K GGCAAAGTATACT . PASS Atlas-SNP ASXL1 171023 hgsc.bcm.edu 37 20 31024488 31024488 + Missense_Mutation SNP C C T rs6057581 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 69.0 31.0 79.0 0.0 0.449275 0 C|0.971;T|0.029 0.029 strong . ASXL1 1114 . NM_015338 exon12 c.C3973T p.L1325F ATGCCTCTTCCTG . PASS Atlas-SNP CDC14A 8556 hgsc.bcm.edu 37 1 100856380 100856380 + Silent SNP A A C rs28361212 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 68.0 32.0 59.0 0.0 0.470588 0 A|0.885;C|0.115 0.115 strong . CDC14A 65 . NM_033313 exon4 c.A309C p.A103A CTATGCAGTAAGT . PASS Atlas-SNP TDRD5 163589 hgsc.bcm.edu 37 1 179621253 179621253 + Missense_Mutation SNP G G T rs147309264 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 215.0 107.0 164.0 0.0 0.497674 0 G|0.997;T|0.003 0.003 strong . TDRD5 149 . NM_173533 exon13 c.G2081T p.G694V AACTGGGTTATCC . PASS Atlas-SNP IFT140 9742 hgsc.bcm.edu 37 16 1637998 1637998 + Missense_Mutation SNP G G A rs8058674 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 94.0 50.0 103.0 0.0 0.531915 0 G|0.978;A|0.022 0.022 strong . IFT140 128 . NM_014714 exon8 c.C838T p.R280W CTGCCCGGCGGCC . PASS Atlas-SNP KLK14 43847 hgsc.bcm.edu 37 19 51582090 51582090 + Silent SNP G G A rs79507858 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 93.0 61.0 0.0 1 0 G|0.981;A|0.019 0.019 strong . KLK14 49 . NM_022046 exon6 c.C633T p.G211G CTTCCCGCCCTGG . PASS Atlas-SNP ASMTL 8623 hgsc.bcm.edu 37 X 1522325 1522325 + Missense_Mutation SNP C C T rs11553055 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 192.0 100.0 151.0 0.0 0.520833 0 C|0.977;T|0.023 0.023 strong . ASMTL 56 . NM_004192 exon13 c.G1703A p.R568H AGGGCGCGCTGCG . PASS Atlas-SNP NDFIP2 54602 hgsc.bcm.edu 37 13 80094993 80094993 + Missense_Mutation SNP C C T rs55887763 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 117.0 57.0 110.0 0.0 0.487179 0 C|0.952;T|0.048 0.048 strong . NDFIP2 23 . NM_019080 exon2 c.C370T p.P124S CAGCCACCTACTT . PASS Atlas-SNP ZNF189 7743 hgsc.bcm.edu 37 9 104170580 104170580 + Missense_Mutation SNP A A G rs148414030 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 158.0 102.0 157.0 0.0 0.64557 0 A|0.998;G|0.002 0.002 strong . ZNF189 79 . NM_003452 exon3 c.A530G p.Q177R CTTTTCAGTGCAA . PASS Atlas-SNP CCNH 902 hgsc.bcm.edu 37 5 86695228 86695228 + Silent SNP A A T rs150856919 byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 75.0 33.0 86.0 0.0 0.44 0 A|1.000;T|0.000 0.000 strong . CCNH 40 . NM_001239 exon7 c.T855A p.L285L AAGTGCAAGCTCA . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195481111 195481111 + Missense_Mutation SNP G G T rs73079395 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 307.0 155.0 232.0 0.0 0.504886 0 G|0.924;T|0.076 0.076 strong . MUC4 1505 . NM_018406 exon19 c.C15301A p.L5101M CAGTCAGGTTTGG . PASS Atlas-SNP PKD1L1 168507 hgsc.bcm.edu 37 7 47925485 47925485 + Missense_Mutation SNP T T G rs113527998 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 198.0 81.0 185.0 0.0 0.409091 0 T|0.950;G|0.050 0.050 strong . PKD1L1 328 . NM_138295 exon18 c.A3004C p.T1002P CTGAAGTGGCAGG . PASS Atlas-SNP DDX25 29118 hgsc.bcm.edu 37 11 125778305 125778305 + Silent SNP C C T rs34007659 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 146.0 83.0 153.0 0.0 0.568493 0 C|0.985;T|0.015 0.015 strong . DDX25 65 . NM_013264 exon6 c.C414T p.N138N CCAGAACCTCATA . PASS Atlas-SNP SUPV3L1 6832 hgsc.bcm.edu 37 10 70940066 70940066 + Silent SNP C C T rs12251842 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 62.0 27.0 59.0 0.0 0.435484 0 C|0.962;T|0.038 0.038 strong . SUPV3L1 61 . NM_003171 exon1 c.C19T p.L7L CGTGCCCTATTGT . PASS Atlas-SNP HIPK4 147746 hgsc.bcm.edu 37 19 40895493 40895493 + Missense_Mutation SNP G G A rs79236726 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 104.0 53.0 96.0 1.0 0.509615 0.0104167 G|0.992;A|0.008 0.008 strong HIPK4_ENST00000291823,colon,carcinoma,+1,2 HIPK4 100 2 NM_144685 exon1 c.C317T p.A106V AGGGGCGCGAAGT . scavenged Atlas-SNP GIMAP1-GIMAP5 0 hgsc.bcm.edu 37 7 150439554 150439554 + Silent SNP G G A rs61751040 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 109.0 52.0 95.0 1.0 0.477064 0.0105263 G|0.953;A|0.047 0.047 strong GIMAP5,NS,carcinoma,+1,1 . . 1 NM_001199577 exon6 c.G939A p.P313P TGCCCCGGGGCCC . scavenged Atlas-SNP OR10G7 390265 hgsc.bcm.edu 37 11 123909524 123909524 + Missense_Mutation SNP G G A rs75423810 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 468.0 56.0 624.0 0.0 0.119658 0 A|1.000;|0.000 1.000 weak OR10G7,NS,carcinoma,+1,1 OR10G7 103 1 NM_001004463 exon1 c.C185T p.T62I AGGTTGGTGAGGA . scavenged Atlas-SNP ARL5C 390790 hgsc.bcm.edu 37 17 37317566 37317566 + Silent SNP C C A rs11653423 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 60.0 35.0 63.0 0.0 0.583333 0 C|0.933;A|0.067 0.067 strong . ARL5C 3 . NM_001143968 exon4 c.G294T p.R98R CAGCAGCCGATCC . PASS Atlas-SNP FBN3 84467 hgsc.bcm.edu 37 19 8196645 8196645 + Missense_Mutation SNP G G A rs61729592 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 181.0 96.0 156.0 0.0 0.530387 0 G|0.996;A|0.004 0.004 strong . FBN3 300 . NM_032447 exon14 c.C1783T p.R595C GGCAGCGGAAGGA . PASS Atlas-SNP PEX6 5190 hgsc.bcm.edu 37 6 42932080 42932080 + Missense_Mutation SNP G G A rs115180949 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 98.0 45.0 107.0 0.0 0.459184 0 G|0.993;A|0.007 0.007 strong . PEX6 44 . NM_000287 exon17 c.C2936T p.A979V TAGCAGGCAGCAA . PASS Atlas-SNP GLDC 2731 hgsc.bcm.edu 37 9 6587176 6587176 + Silent SNP G G A rs74461075 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 135.0 64.0 125.0 0.0 0.474074 0 G|0.987;A|0.013 0.013 strong . GLDC 118 . NM_000170 exon15 c.C1815T p.L605L ACCTGTGAGTTCA . PASS Atlas-SNP LCE1C 353133 hgsc.bcm.edu 37 1 152777874 152777874 + Silent SNP T T A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 403.0 21.0 282.0 0.0 0.0521092 0 . . none . LCE1C 40 . NM_178351 exon2 c.A81T p.P27P ACACTTTGGGGTG . PASS Atlas-SNP LILRB3 11025 hgsc.bcm.edu 37 19 54721337 54721337 + Missense_Mutation SNP G G A rs75437884 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 384.0 90.0 534.0 0.0 0.234375 0 G|0.996;A|0.004 0.004 strong LILRB3,NS,lymphoid_neoplasm,+2,1 LILRB3 67 1 NM_001081450 exon12 c.C1603T p.H535Y CATCGTGTGGGCT . PASS Atlas-SNP MGAT1 4245 hgsc.bcm.edu 37 5 180219842 180219842 + Missense_Mutation SNP C C T rs34344788 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 87.0 36.0 76.0 0.0 0.413793 0 C|0.993;T|0.007 0.007 strong . MGAT1 48 . NM_001114617 exon3 c.G130A p.D44N CGCCATCGAGAGC . PASS Atlas-SNP USP6 9098 hgsc.bcm.edu 37 17 5039138 5039138 + Silent SNP C C T rs3213878 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 21.0 10.0 14.0 0.0 0.47619 0 C|0.883;T|0.117 0.117 strong . USP6 213 . NM_004505 exon9 c.C579T p.T193T CATCACCGCCTTG . PASS Atlas-SNP C4A 720 hgsc.bcm.edu 37 6 31963860 31963860 + Missense_Mutation SNP C C G rs2734319 bycluster;by2hit2allele;byhapmap;alternate_allele TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 527.0 256.0 750.0 0.0 0.485768 0 . . alt . C4A 15 . NM_007293 exon26 c.T3359G p.L1120R AGGACCCCTGTCC . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195512219 195512219 + Missense_Mutation SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 220.0 75.0 439.0 1.0 0.340909 0.0022779 . . none . MUC4 1505 . NM_018406 exon2 c.G6232A p.A2078T GGGTGGCGTGACC . PASS Atlas-SNP BIRC8 112401 hgsc.bcm.edu 37 19 53793162 53793162 + Missense_Mutation SNP C C T rs35880972 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 221.0 101.0 199.0 0.0 0.457014 0 C|0.937;T|0.063 0.063 strong . BIRC8 54 . NM_033341 exon1 c.G466A p.A156T TCTGAGCGCTCAC . PASS Atlas-SNP UBA7 7318 hgsc.bcm.edu 37 3 49845526 49845526 + Missense_Mutation SNP T T C rs2230149 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 84.0 38.0 90.0 0.0 0.452381 0 T|0.973;C|0.027 0.027 strong . UBA7 64 . NM_003335 exon20 c.A2450G p.H817R TCCACATGGAAGT . PASS Atlas-SNP SACS 26278 hgsc.bcm.edu 37 13 23905481 23905481 + Silent SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 105.0 59.0 103.0 0.0 0.561905 0 . . none . SACS 871 . NM_014363 exon10 c.G12534A p.P4178P TTCTCCCGGGTAA . PASS Atlas-SNP REV3L 5980 hgsc.bcm.edu 37 6 111695304 111695304 + Silent SNP A A G rs3218589 bycluster;byfrequency;by2hit2allele TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 147.0 76.0 122.0 0.0 0.517007 0 A|0.999;G|0.001 0.001 strong . REV3L 386 . NM_002912 exon13 c.T4254C p.N1418N CAAAAAATTAGGG . PASS Atlas-SNP OBSCN 84033 hgsc.bcm.edu 37 1 228565325 228565325 + Silent SNP C C T rs61743077 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 170.0 94.0 142.0 0.0 0.552941 0 C|0.992;T|0.008 0.008 strong . OBSCN 2142 . NM_001271223 exon113 c.C26286T p.L8762L CCTGCTCAAGGTC . PASS Atlas-SNP RANBP3L 202151 hgsc.bcm.edu 37 5 36257134 36257134 + Missense_Mutation SNP G G A rs16902872 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 136.0 75.0 172.0 0.0 0.551471 0 G|0.906;A|0.094 0.094 strong . RANBP3L 41 . NM_001161429 exon11 c.C887T p.A296V GCAGCAGCTGATT . PASS Atlas-SNP LAMA5 3911 hgsc.bcm.edu 37 20 60884473 60884473 + Silent SNP C C T rs115306720 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 32.0 21.0 28.0 0.0 0.65625 0 C|0.976;T|0.024 0.024 strong . LAMA5 268 . NM_005560 exon80 c.G11007A p.A3669A GTTCACCGCCAGC . PASS Atlas-SNP CFHR4 10877 hgsc.bcm.edu 37 1 196887411 196887411 + Missense_Mutation SNP T T C rs200907976 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 393.0 216.0 354.0 1.0 0.549618 0.00282486 . . weak . CFHR4 141 . NM_001201550 exon10 c.T1612C p.Y538H ATAAAATATTATG . PASS Atlas-SNP ALDH8A1 64577 hgsc.bcm.edu 37 6 135254034 135254034 + Silent SNP G G A rs114000920 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 79.0 43.0 92.0 0.0 0.544304 0 G|0.987;A|0.013 0.013 strong . ALDH8A1 68 . NM_022568 exon5 c.C729T p.S243S GGGAGCGCTCAGC . PASS Atlas-SNP BPIFB3 359710 hgsc.bcm.edu 37 20 31644436 31644436 + Silent SNP A A C rs35539872 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 129.0 64.0 97.0 0.0 0.496124 0 A|0.957;C|0.043 0.043 strong . . . . NM_182658 exon2 c.A213C p.G71G CTCAGGAGGGCTG . PASS Atlas-SNP MRGPRX3 117195 hgsc.bcm.edu 37 11 18159406 18159406 + Silent SNP C C G rs28628238 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 138.0 137.0 123.0 0.0 0.992754 0 C|0.948;G|0.052 0.052 strong . MRGPRX3 59 . NM_054031 exon3 c.C657G p.L219L CATCCTCCTCACA . PASS Atlas-SNP B4GALT3 8703 hgsc.bcm.edu 37 1 161141862 161141862 + Missense_Mutation SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 89.0 43.0 73.0 0.0 0.483146 0 . . none . B4GALT3 39 . NM_003779 exon8 c.G926A p.R309H TGGGTACGGACCA . PASS Atlas-SNP MYH11 4629 hgsc.bcm.edu 37 16 15841534 15841534 + Silent SNP G G T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 96.0 55.0 110.0 0.0 0.572917 0 . . none . MYH11 520 . NM_001040114 exon20 c.C2325A p.I775I GAAGAAGATTTTG . PASS Atlas-SNP ZNF689 115509 hgsc.bcm.edu 37 16 30616317 30616317 + Silent SNP A A G rs34007971 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 90.0 47.0 62.0 0.0 0.522222 0 A|0.917;G|0.083 0.083 strong . ZNF689 48 . NM_138447 exon3 c.T771C p.G257G TTTTTCACCTGTG . PASS Atlas-SNP KIAA1211L 343990 hgsc.bcm.edu 37 2 99412654 99412654 + Missense_Mutation SNP C C T rs73962467 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 112.0 54.0 119.0 0.0 0.482143 0 C|0.991;T|0.009 0.009 strong . . . . NM_207362 exon9 c.G2678A p.R893Q TGCTTCCGGTCCA . PASS Atlas-SNP PIK3AP1 118788 hgsc.bcm.edu 37 10 98469734 98469734 + Missense_Mutation SNP G G A rs73334383 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 91.0 40.0 94.0 0.0 0.43956 0 G|0.987;A|0.013 0.013 strong . PIK3AP1 111 . NM_152309 exon2 c.C20T p.P7L CCTCTGGGCACCC . PASS Atlas-SNP AIFM3 150209 hgsc.bcm.edu 37 22 21333605 21333605 + Missense_Mutation SNP G G C rs61356271 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 183.0 98.0 133.0 0.0 0.535519 0 G|0.946;C|0.054 0.054 strong . AIFM3 49 . NM_001146288 exon17 c.G1541C p.S514T AGATGAGCACTGT . PASS Atlas-SNP AHNAK2 113146 hgsc.bcm.edu 37 14 105414559 105414559 + Missense_Mutation SNP T T C rs11845746 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 240.0 236.0 208.0 0.0 0.983333 0 T|0.967;C|0.033 0.033 strong . AHNAK2 719 . NM_138420 exon7 c.A7229G p.K2410R GGCATCTTGAAAC . PASS Atlas-SNP ZNF782 158431 hgsc.bcm.edu 37 9 99581440 99581440 + Missense_Mutation SNP T T C rs35403084 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 92.0 57.0 81.0 0.0 0.619565 0 T|0.971;C|0.029 0.029 strong . ZNF782 64 . NM_001001662 exon6 c.A865G p.T289A CTCCTGTGAGAGT . PASS Atlas-SNP DMRT2 10655 hgsc.bcm.edu 37 9 1056517 1056517 + Silent SNP C C G rs16928356 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 138.0 137.0 160.0 0.0 0.992754 0 C|0.951;G|0.049 0.049 strong . DMRT2 70 . NM_181872 exon4 c.C930G p.T310T TTTAACCATGCAG . PASS Atlas-SNP DNAH5 1767 hgsc.bcm.edu 37 5 13701422 13701422 + Missense_Mutation SNP G G T rs113425437 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 73.0 41.0 80.0 0.0 0.561644 0 G|0.961;T|0.039 0.039 strong . DNAH5 868 . NM_001369 exon77 c.C13462A p.P4488T CCTGGGGGTTAAA . PASS Atlas-SNP OR8K1 390157 hgsc.bcm.edu 37 11 56113923 56113923 + Silent SNP C C T rs61745885 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 148.0 71.0 152.0 0.0 0.47973 0 C|0.993;T|0.007 0.007 strong OR8K1,shoulder,malignant_melanoma,0,1 OR8K1 93 1 NM_001002907 exon1 c.C409T p.L137L CCTCTTCTGTACG . PASS Atlas-SNP MCM2 4171 hgsc.bcm.edu 37 3 127340583 127340583 + Silent SNP C C T rs6794323 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 90.0 41.0 81.0 0.0 0.455556 0 C|0.930;T|0.070 0.070 strong . MCM2 79 . NM_004526 exon16 c.C2682T p.D894D CCACGACCTGAAA . PASS Atlas-SNP ADAMDEC1 27299 hgsc.bcm.edu 37 8 24250809 24250809 + Missense_Mutation SNP T T C rs77012108 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 127.0 68.0 124.0 0.0 0.535433 0 T|0.973;C|0.027 0.027 strong ADAMDEC1,arm,malignant_melanoma,-1,1 ADAMDEC1 69 1 NM_014479 exon3 c.T242C p.I81T AGATGATCTTAAA . PASS Atlas-SNP VWF 7450 hgsc.bcm.edu 37 12 6103281 6103281 + Silent SNP A A T rs11537642 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 88.0 36.0 71.0 0.0 0.409091 0 A|0.955;T|0.045 0.045 strong . VWF 338 . NM_000552 exon37 c.T6345A p.T2115T CTGCACAGTCCAT . PASS Atlas-SNP MRI1 84245 hgsc.bcm.edu 37 19 13875453 13875453 + Silent SNP C C T rs141796284 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 123.0 48.0 107.0 0.0 0.390244 0 C|0.993;T|0.007 0.007 strong . MRI1 35 . NM_001031727 exon1 c.C51T p.D17D CCTAGACCAGCTG . PASS Atlas-SNP EEF2 1938 hgsc.bcm.edu 37 19 3980852 3980852 + Silent SNP G G A rs140573073 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 53.0 27.0 32.0 0.0 0.509434 0 G|0.997;A|0.003 0.003 strong . EEF2 57 . NM_001961 exon8 c.C1137T p.D379D AGCCTCGTCGTCC . PASS Atlas-SNP DDX27 55661 hgsc.bcm.edu 37 20 47849904 47849904 + Missense_Mutation SNP C C T rs145681733 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 83.0 34.0 85.0 0.0 0.409639 0 C|1.000;T|0.000 0.000 weak . DDX27 74 . NM_017895 exon10 c.C1186T p.R396C CACCACCGCCAGA . PASS Atlas-SNP C7orf71 285941 hgsc.bcm.edu 37 7 26678881 26678881 + Missense_Mutation SNP G G A rs78525926 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 28.0 28.0 36.0 0.0 1 0 G|0.964;A|0.036 0.036 strong . C7orf71 6 . NM_001145531 exon2 c.G118A p.G40S CAAGGCGGCTACC . PASS Atlas-SNP ATP6AP2 10159 hgsc.bcm.edu 37 X 40464822 40464822 + Missense_Mutation SNP G G C rs35798522 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 34.0 19.0 25.0 0.0 0.558824 0 G|0.977;C|0.023 0.023 strong . ATP6AP2 45 . NM_005765 exon9 c.G868C p.A290P AACCCAGCAAGTC . PASS Atlas-SNP ORM2 5005 hgsc.bcm.edu 37 9 117094200 117094200 + Silent SNP C C T rs1826232 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 160.0 49.0 136.0 0.0 0.30625 0 C|0.873;T|0.127 0.127 strong ORM2,face,carcinoma,-2,1 ORM2 13 1 NM_000608 exon5 c.C531T p.D177D CACCGACTGGAAA . PASS Atlas-SNP COG2 22796 hgsc.bcm.edu 37 1 230796533 230796533 + Silent SNP T T G rs16852160 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 245.0 105.0 232.0 0.0 0.428571 0 T|0.962;G|0.038 0.038 strong . COG2 61 . NM_007357 exon3 c.T264G p.L88L CCAGCTTTCTGTG . PASS Atlas-SNP INHA 3623 hgsc.bcm.edu 37 2 220439826 220439826 + Missense_Mutation SNP G G A rs12720061 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 139.0 75.0 121.0 0.0 0.539568 0 G|0.973;A|0.027 0.027 strong . INHA 30 . NM_002191 exon2 c.G679A p.G227R AGTGGAGGGGAGA . PASS Atlas-SNP CCDC155 147872 hgsc.bcm.edu 37 19 49920719 49920719 + Silent SNP C C T rs79452032 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 83.0 41.0 62.0 0.0 0.493976 0 C|0.987;T|0.013 0.013 strong . CCDC155 46 . NM_144688 exon20 c.C1641T p.P547P ACCTCCCACCTGG . PASS Atlas-SNP CEACAM1 634 hgsc.bcm.edu 37 19 43031369 43031369 + Missense_Mutation SNP G G A rs8110904 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 456.0 238.0 449.0 1.0 0.52193 0.00222717 G|0.900;A|0.100 0.100 strong . CEACAM1 43 . NM_001184816 exon2 c.C248T p.A83V CCTATTGCATATC . PASS Atlas-SNP KCNN1 3780 hgsc.bcm.edu 37 19 18084724 18084724 + Silent SNP C C T rs77030907 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 12.0 7.0 2.0 0.0 0.583333 0 C|0.990;T|0.010 0.010 strong . KCNN1 74 . NM_002248 exon3 c.C27T p.S9S TGGCAGCGTGGGG . PASS Atlas-SNP AKNA 80709 hgsc.bcm.edu 37 9 117099574 117099574 + Silent SNP A A G rs148856699 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 147.0 99.0 136.0 0.0 0.673469 0 A|0.995;G|0.005 0.005 strong . AKNA 119 . NM_030767 exon22 c.T4080C p.P1360P TCCTGCAGGCGCA . PASS Atlas-SNP SPAG8 26206 hgsc.bcm.edu 37 9 35811215 35811215 + Silent SNP C C T rs73444820 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 71.0 89.0 1.0 0.71 0.011236 C|0.978;T|0.022 0.022 strong SPAG8_ENST00000396638,caecum,carcinoma,0,2 SPAG8 67 2 NM_001039592 exon2 c.G828A p.P276P GCCCCGCGGCAAA . scavenged Atlas-SNP SERPINE3 647174 hgsc.bcm.edu 37 13 51936079 51936079 + Silent SNP T T C rs74084815 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 202.0 95.0 222.0 1.0 0.470297 0.0045045 T|0.992;C|0.008 0.008 strong . SERPINE3 37 . NM_001101320 exon7 c.T1221C p.S407S TCTCTCTAGCAAC . PASS Atlas-SNP ROBO4 54538 hgsc.bcm.edu 37 11 124765511 124765511 + Missense_Mutation SNP T T G rs60888551 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 31.0 93.0 0.0 0.333333 0 T|0.952;G|0.048 0.048 strong . ROBO4 130 . NM_019055 exon6 c.A878C p.Q293P GCTCCCTGGCCTC . PASS Atlas-SNP NLRP11 204801 hgsc.bcm.edu 37 19 56303806 56303806 + Missense_Mutation SNP A A C rs80143194 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 124.0 62.0 122.0 0.0 0.5 0 A|0.976;C|0.024 0.024 strong . NLRP11 139 . NM_145007 exon9 c.T2374G p.C792G CGCTGCAGCAATT . PASS Atlas-SNP TACC2 10579 hgsc.bcm.edu 37 10 123843946 123843946 + Missense_Mutation SNP C C T rs60531929 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 31.0 16.0 32.0 0.0 0.516129 0 C|0.965;T|0.035 0.035 strong . TACC2 271 . NM_206862 exon4 c.C1931T p.T644M GGCACACGGACGG . PASS Atlas-SNP LCN8 138307 hgsc.bcm.edu 37 9 139649701 139649701 + Missense_Mutation SNP C C T rs144857499 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 80.0 55.0 78.0 0.0 0.6875 0 C|0.997;T|0.003 0.003 strong . LCN8 14 . NM_178469 exon5 c.G416A p.R139Q CCAGGCCGGGCCG . PASS Atlas-SNP MUC5B 727897 hgsc.bcm.edu 37 11 1271582 1271582 + Missense_Mutation SNP C C T rs4963055 by2hit2allele TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 596.0 279.0 827.0 2.0 0.468121 0.00241838 . . weak . MUC5B 473 . NM_002458 exon31 c.C13472T p.T4491I CAGTCACCAGCTC . PASS Atlas-SNP SMC1B 27127 hgsc.bcm.edu 37 22 45741416 45741416 + Missense_Mutation SNP T T A rs61737925 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 148.0 78.0 125.0 0.0 0.527027 0 T|0.960;A|0.040 0.040 strong . SMC1B 215 . NM_148674 exon24 c.A3530T p.Q1177L TGAAACTGGTCTT . PASS Atlas-SNP WBSCR27 155368 hgsc.bcm.edu 37 7 73249092 73249092 + Missense_Mutation SNP C C T rs73369956 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 103.0 103.0 111.0 0.0 1 0 C|0.962;T|0.038 0.038 strong . WBSCR27 21 . NM_152559 exon6 c.G719A p.R240Q CTGGGTCGCCTTC . PASS Atlas-SNP AMER1 139285 hgsc.bcm.edu 37 X 63410110 63410110 + Silent SNP T T C rs61730681 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 157.0 157.0 149.0 0.0 1 0 T|0.758;C|0.242 0.242 strong . . . . NM_152424 exon2 c.A3057G p.Q1019Q AGCTAGTTGAGGC . PASS Atlas-SNP KRTAP5-9 3846 hgsc.bcm.edu 37 11 71259709 71259709 + Silent SNP C C T rs180808688 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 521.0 234.0 453.0 1.0 0.449136 0.00220751 C|0.999;T|0.001 0.001 strong . KRTAP5-9 19 . NM_005553 exon1 c.C6T p.G2G CATGGGCTGCTGT . PASS Atlas-SNP CRTAC1 55118 hgsc.bcm.edu 37 10 99696031 99696031 + Missense_Mutation SNP G G A rs80014629 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 112.0 52.0 132.0 0.0 0.464286 0 G|0.999;A|0.001 0.001 strong CRTAC1,NS,carcinoma,0,2 CRTAC1 86 2 NM_001206528 exon3 c.C317T p.A106V CGCAGCGCGTAGT . PASS Atlas-SNP KIAA0922 23240 hgsc.bcm.edu 37 4 154525446 154525446 + Silent SNP A A C rs17030219 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 134.0 75.0 135.0 0.0 0.559702 0 A|0.987;C|0.013 0.013 strong . KIAA0922 214 . NM_001131007 exon25 c.A3282C p.S1094S AACTTCAGAGAAC . PASS Atlas-SNP PDE5A 8654 hgsc.bcm.edu 37 4 120440278 120440278 + Missense_Mutation SNP A A G rs116396619 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 261.0 129.0 241.0 1.0 0.494253 0.00414938 A|0.996;G|0.004 0.004 strong . PDE5A 83 . NM_001083 exon14 c.T1922C p.L641P ATCTCCAGGTCAG . PASS Atlas-SNP MATN2 4147 hgsc.bcm.edu 37 8 99028811 99028811 + Silent SNP G G A rs79255841 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 204.0 104.0 208.0 0.0 0.509804 0 G|0.976;A|0.024 0.024 strong MATN2_ENST00000520016,NS,carcinoma,+1,2 MATN2 165 2 NM_002380 exon11 c.G1617A p.S539S ACATTCGTGTGTA . PASS Atlas-SNP IPO4 79711 hgsc.bcm.edu 37 14 24652350 24652350 + Silent SNP G G A rs377303706 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 136.0 72.0 138.0 0.0 0.529412 0 . . weak . IPO4 74 . NM_024658 exon23 c.C2253T p.V751V TGGCACGACTCGG . PASS Atlas-SNP THNSL2 55258 hgsc.bcm.edu 37 2 88478341 88478341 + Missense_Mutation SNP C C A rs34136143 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 204.0 204.0 188.0 0.0 1 0 C|0.974;A|0.026 0.026 strong . THNSL2 66 . NM_018271 exon4 c.C611A p.T204N TCAAGACTGTGTT . PASS Atlas-SNP TRIM16 10626 hgsc.bcm.edu 37 17 15532430 15532430 + Silent SNP G G A rs7225221 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 324.0 142.0 269.0 0.0 0.438272 0 G|0.953;A|0.047 0.047 strong . TRIM16 45 . NM_006470 exon9 c.C1194T p.T398T GGGCGTGGTGTTG . PASS Atlas-SNP NEFH 4744 hgsc.bcm.edu 37 22 29886341 29886341 + Silent SNP C C T rs61744118 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 136.0 135.0 140.0 1.0 0.992647 0.00714286 C|0.990;T|0.010 0.010 strong . NEFH 178 . NM_021076 exon4 c.C2712T p.P904P AGTCCCCACCCCA . PASS Atlas-SNP SPTA1 6708 hgsc.bcm.edu 37 1 158618320 158618320 + Silent SNP G G A rs34773716 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 80.0 53.0 82.0 0.0 0.6625 0 G|0.988;A|0.012 0.012 strong SPTA1,NS,carcinoma,-2,1 SPTA1 720 1 NM_003126 exon26 c.C3693T p.D1231D TACGAGGTCCCTT . PASS Atlas-SNP RNF216 54476 hgsc.bcm.edu 37 7 5765034 5765034 + Silent SNP C C T rs77500990 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 150.0 79.0 144.0 0.0 0.526667 0 C|0.996;T|0.004 0.004 strong . RNF216 71 . NM_207111 exon8 c.G1425A p.L475L TGGTGACAGCTCC . PASS Atlas-SNP OR51F1 256892 hgsc.bcm.edu 37 11 4790868 4790868 + Missense_Mutation SNP T T C rs75972277 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 83.0 33.0 83.0 0.0 0.39759 0 T|0.955;C|0.045 0.045 strong . OR51F1 60 . NM_001004752 exon1 c.A280G p.I94V GACTGATTTCACG . PASS Atlas-SNP TMPRSS15 5651 hgsc.bcm.edu 37 21 19704422 19704422 + Missense_Mutation SNP T T A rs8134187 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 79.0 37.0 65.0 0.0 0.468354 0 T|0.954;A|0.046 0.046 strong . TMPRSS15 189 . NM_002772 exon14 c.A1633T p.S545C GGTAGCTGTTTGG . PASS Atlas-SNP ENGASE 64772 hgsc.bcm.edu 37 17 77079854 77079854 + Silent SNP A A G rs61729127 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 85.0 46.0 63.0 0.0 0.541176 0 A|0.956;G|0.044 0.044 strong . ENGASE 55 . NM_001042573 exon10 c.A1263G p.V421V GGCGGTAGGGCCC . PASS Atlas-SNP HAGH 3029 hgsc.bcm.edu 37 16 1869907 1869907 + Silent SNP G G A rs17849371 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 78.0 28.0 84.0 0.0 0.358974 0 G|0.958;A|0.042 0.042 strong . HAGH 20 . NM_005326 exon4 c.C423T p.S141S CAGTGTGGACAGG . PASS Atlas-SNP C14orf80 283643 hgsc.bcm.edu 37 14 105957446 105957446 + Missense_Mutation SNP G G A rs76864584 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 168.0 91.0 117.0 0.0 0.541667 0 G|0.956;A|0.044 0.044 strong . C14orf80 19 . NM_001134877 exon2 c.G7A p.G3S ATGTCCGGCCAGC . PASS Atlas-SNP OR2T4 127074 hgsc.bcm.edu 37 1 248524974 248524974 + Missense_Mutation SNP A A G rs57795102 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 800.0 387.0 775.0 1.0 0.48375 0.00129032 A|0.925;G|0.075 0.075 strong OR2T4,NS,adenocarcinoma,-1,1 OR2T4 126 1 NM_001004696 exon1 c.A92G p.N31S TGGCCAATATCAC . PASS Atlas-SNP KIAA1009 22832 hgsc.bcm.edu 37 6 84856409 84856409 + Silent SNP T T C rs9449804 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 54.0 25.0 65.0 0.0 0.462963 0 T|0.900;C|0.100 0.100 strong . KIAA1009 119 . NM_014895 exon25 c.A3867G p.K1289K TACCTCTTTCTGT . PASS Atlas-SNP NEB 4703 hgsc.bcm.edu 37 2 152547268 152547268 + Silent SNP G G A rs373946448 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 170.0 91.0 164.0 0.0 0.535294 0 . . weak . NEB 1697 . NM_004543 exon24 c.C2283T p.A761A GAGCTGGGCTTGC . PASS Atlas-SNP VWF 7450 hgsc.bcm.edu 37 12 6094249 6094249 + Missense_Mutation SNP C C T rs62641242 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 154.0 82.0 128.0 0.0 0.532468 0 C|0.999;T|0.001 0.001 strong . VWF 338 . NM_000552 exon40 c.G6938A p.R2313H TTCTGGCGGAGGC . PASS Atlas-SNP IL21R 50615 hgsc.bcm.edu 37 16 27460437 27460437 + Missense_Mutation SNP G G A rs3093386 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 112.0 58.0 103.0 0.0 0.517857 0 G|0.962;A|0.038 0.038 strong . IL21R 95 . NM_181079 exon10 c.G1516A p.G506S CTGGCCGGCCTGG . PASS Atlas-SNP ALDH3A2 224 hgsc.bcm.edu 37 17 19559770 19559770 + Missense_Mutation SNP C C T rs115977487 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 265.0 135.0 219.0 1.0 0.509434 0.00456621 C|0.990;T|0.010 0.010 strong . ALDH3A2 41 . NM_001031806 exon4 c.C563T p.A188V ACACTGCGGTTGG . PASS Atlas-SNP DDX51 317781 hgsc.bcm.edu 37 12 132628285 132628285 + Silent SNP G G A rs191101265 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 16.0 6.0 8.0 0.0 0.375 0 G|0.968;A|0.032 0.032 strong . DDX51 33 . NM_175066 exon2 c.C474T p.V158V GCCGGGGACCAGG . PASS Atlas-SNP TTPAL 79183 hgsc.bcm.edu 37 20 43117986 43117986 + Missense_Mutation SNP C C G rs59069332 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 144.0 83.0 125.0 0.0 0.576389 0 C|0.976;G|0.024 0.024 strong . TTPAL 31 . NM_001039199 exon5 c.C833G p.A278G GCACGGCTGGGGA . PASS Atlas-SNP CSMD1 64478 hgsc.bcm.edu 37 8 3432586 3432586 + Silent SNP T T G rs146006696 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 75.0 31.0 60.0 0.0 0.413333 0 T|0.988;G|0.012 0.012 strong . CSMD1 1469 . NM_033225 exon10 c.A1225C p.R409R ATGTTCTCGCTGG . PASS Atlas-SNP SCN4A 6329 hgsc.bcm.edu 37 17 62029006 62029006 + Silent SNP A A G rs79893125 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 332.0 155.0 305.0 1.0 0.466867 0.00327869 A|0.936;G|0.064 0.064 strong . SCN4A 205 . NM_000334 exon14 c.T2631C p.D877D CTTCTCATCCTCG . PASS Atlas-SNP ZNF358 140467 hgsc.bcm.edu 37 19 7585762 7585762 + Missense_Mutation SNP G G C rs116797831 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 207.0 117.0 183.0 0.0 0.565217 0 G|0.977;C|0.023 0.023 strong . ZNF358 41 . NM_018083 exon2 c.G1634C p.S545T CTGTCAGCCCAGC . PASS Atlas-SNP SLC26A6 65010 hgsc.bcm.edu 37 3 48664473 48664473 + Missense_Mutation SNP C C T rs59643945 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 175.0 96.0 208.0 1.0 0.548571 0.00480769 C|0.962;T|0.038 0.038 strong . SLC26A6 45 . NM_022911 exon18 c.G1909A p.D637N TCTTATCTCCTGA . PASS Atlas-SNP RP1L1 94137 hgsc.bcm.edu 37 8 10470764 10470764 + Missense_Mutation SNP T T G rs75814156 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 40.0 13.0 48.0 0.0 0.325 0 T|0.984;G|0.016 0.016 strong RP1L1,NS,carcinoma,+2,1 RP1L1 453 1 NM_178857 exon4 c.A844C p.N282H GGGGGTTGCTAGG . PASS Atlas-SNP ZKSCAN3 80317 hgsc.bcm.edu 37 6 28331573 28331573 + Missense_Mutation SNP T T A rs213227 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 47.0 91.0 0.0 0.47 0 T|0.958;A|0.042 0.042 strong . ZKSCAN3 50 . NM_024493 exon5 c.T738A p.H246Q GAACCATGGCAGC . PASS Atlas-SNP TRPM2 7226 hgsc.bcm.edu 37 21 45825818 45825818 + Silent SNP C C T rs17004645 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 46.0 21.0 55.0 0.0 0.456522 0 C|0.993;T|0.007 0.007 strong TRPM2,NS,carcinoma,+1,1 TRPM2 196 1 NM_003307 exon18 c.C2688T p.R896R CGGGCGCGTCATC . PASS Atlas-SNP TDP1 55775 hgsc.bcm.edu 37 14 90451500 90451500 + Silent SNP A A G rs17126522 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 162.0 80.0 153.0 0.0 0.493827 0 A|0.938;G|0.062 0.062 strong . TDP1 47 . NM_018319 exon10 c.A1077G p.P359P AACCCCAGGACGC . PASS Atlas-SNP BPIFC 254240 hgsc.bcm.edu 37 22 32843312 32843312 + Silent SNP G G A rs28733723 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 78.0 43.0 102.0 0.0 0.551282 0 G|0.968;A|0.032 0.032 strong . . . . NM_174932 exon3 c.C261T p.A87A TGAAAAGGCACTG . PASS Atlas-SNP NOXO1 124056 hgsc.bcm.edu 37 16 2030029 2030029 + Silent SNP C C T rs34358073 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 82.0 46.0 74.0 0.0 0.560976 0 C|0.966;T|0.034 0.034 strong . NOXO1 13 . NM_172168 exon5 c.G570A p.E190E CAGGCTCTCCTGG . PASS Atlas-SNP JRK 8629 hgsc.bcm.edu 37 8 143746107 143746107 + Silent SNP C C T rs61747165 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 52.0 38.0 25.0 0.0 0.730769 0 C|0.992;T|0.008 0.008 strong . . . . NM_003724 exon2 c.G1371A p.S457S TGCTGGCGACGTG . PASS Atlas-SNP ARHGAP17 55114 hgsc.bcm.edu 37 16 24942272 24942272 + Missense_Mutation SNP T T A rs111463480 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 179.0 76.0 161.0 0.0 0.424581 0 T|0.999;A|0.001 0.001 strong . ARHGAP17 138 . NM_001006634 exon19 c.A2348T p.N783I TCAGGGTTACCCC . PASS Atlas-SNP KIRREL2 84063 hgsc.bcm.edu 37 19 36350474 36350474 + Missense_Mutation SNP G G A rs34494265 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 68.0 38.0 53.0 0.0 0.558824 0 G|0.982;A|0.018 0.018 strong . KIRREL2 170 . NM_199180 exon5 c.G614A p.R205Q TCTGCCGGGCCCG . PASS Atlas-SNP GOLGA3 2802 hgsc.bcm.edu 37 12 133358984 133358984 + Silent SNP A A G rs76963006 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 201.0 107.0 234.0 0.0 0.532338 0 A|0.990;G|0.010 0.010 strong . GOLGA3 234 . NM_005895 exon17 c.T3363C p.L1121L GCCCGTAAGCTTC . PASS Atlas-SNP RGS3 5998 hgsc.bcm.edu 37 9 116356549 116356549 + Missense_Mutation SNP C C G rs113405588 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 72.0 42.0 75.0 0.0 0.583333 0 C|0.988;G|0.012 0.012 strong . RGS3 251 . NM_144489 exon1 c.C350G p.P117R GGGGCCCTACAGA . PASS Atlas-SNP RP1L1 94137 hgsc.bcm.edu 37 8 10467130 10467130 + Missense_Mutation SNP G G A rs138261433 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 48.0 24.0 36.0 0.0 0.5 0 G|0.998;A|0.002 0.002 strong . RP1L1 453 . NM_178857 exon4 c.C4478T p.A1493V GGTTGGGCCTGCG . PASS Atlas-SNP OR5J2 282775 hgsc.bcm.edu 37 11 55944501 55944501 + Missense_Mutation SNP G G C rs12279899 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 426.0 193.0 316.0 0.0 0.453052 0 G|0.979;C|0.021 0.021 strong . OR5J2 98 . NM_001005492 exon1 c.G408C p.M136I AGCCATGTCTGAT . PASS Atlas-SNP ARHGEF17 9828 hgsc.bcm.edu 37 11 73078685 73078685 + Missense_Mutation SNP G G A rs143114785 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 70.0 37.0 72.0 0.0 0.528571 0 G|0.991;A|0.009 0.009 strong . ARHGEF17 117 . NM_014786 exon21 c.G6052A p.A2018T GGCCCCGCCCCTG . PASS Atlas-SNP FZD3 7976 hgsc.bcm.edu 37 8 28413375 28413375 + Silent SNP C C T rs62001924 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 58.0 124.0 0.0 0.58 0 C|0.984;T|0.016 0.016 strong . FZD3 65 . NM_017412 exon7 c.C1674T p.T558T ATCCACCCATGCT . PASS Atlas-SNP TTN 7273 hgsc.bcm.edu 37 2 179586779 179586779 + Silent SNP A A G rs16866469 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 120.0 58.0 123.0 0.0 0.483333 0 A|0.982;G|0.018 0.018 strong . TTN 18412 . NM_001267550 exon78 c.T22611C p.H7537H AGTAACATGACAC . PASS Atlas-SNP TH 7054 hgsc.bcm.edu 37 11 2191006 2191006 + Silent SNP C C T rs34510659 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 68.0 40.0 74.0 0.0 0.588235 0 C|0.971;T|0.029 0.029 strong . TH 43 . NM_199292 exon3 c.G279A p.S93S GGGCTCCGAGGGG . PASS Atlas-SNP NCOR2 9612 hgsc.bcm.edu 37 12 124846788 124846788 + Missense_Mutation SNP G G C rs11057592 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 42.0 16.0 41.0 0.0 0.380952 0 G|0.973;C|0.027 0.027 strong . NCOR2 475 . NM_006312 exon24 c.C2984G p.A995G GGGGGAGCTGGCT . PASS Atlas-SNP QRFP 347148 hgsc.bcm.edu 37 9 133768921 133768921 + Missense_Mutation SNP G G A rs140393161 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 105.0 38.0 98.0 0.0 0.361905 0 G|0.999;A|0.001 0.001 strong . QRFP 14 . NM_198180 exon1 c.C305T p.P102L GCAGCAGGGAGGA . PASS Atlas-SNP POLR2A 5430 hgsc.bcm.edu 37 17 7412349 7412349 + Silent SNP G G A rs2228134 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 251.0 135.0 262.0 1.0 0.537849 0.00381679 G|0.935;A|0.065 0.065 strong POLR2A,colon,carcinoma,+1,1 POLR2A 157 1 NM_000937 exon21 c.G3552A p.T1184T GAGCACGGTGGTG . PASS Atlas-SNP RICTOR 253260 hgsc.bcm.edu 37 5 38960006 38960006 + Silent SNP G G A rs73751814 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 158.0 82.0 136.0 0.0 0.518987 0 G|0.993;A|0.007 0.007 strong . RICTOR 182 . NM_152756 exon21 c.C1926T p.P642P TCTTTCGGGTTTC . PASS Atlas-SNP B3GNT4 79369 hgsc.bcm.edu 37 12 122691058 122691058 + Missense_Mutation SNP T T C rs35203505 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 187.0 82.0 194.0 0.0 0.438503 0 T|0.944;C|0.056 0.056 strong . B3GNT4 35 . NM_030765 exon3 c.T260C p.L87P CCTCTCTGTCCCT . PASS Atlas-SNP TMEM37 140738 hgsc.bcm.edu 37 2 120194673 120194673 + Missense_Mutation SNP G G A rs114197773 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 54.0 25.0 38.0 0.0 0.462963 0 G|0.973;A|0.027 0.027 strong . TMEM37 40 . NM_183240 exon2 c.G230A p.G77D ACCTGGGCCAGGC . PASS Atlas-SNP SORBS2 8470 hgsc.bcm.edu 37 4 186573817 186573817 + Silent SNP C C T rs61732192 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 149.0 75.0 174.0 1.0 0.503356 0.00574713 C|0.984;T|0.016 0.016 strong SORBS2_ENST00000448662,NS,carcinoma,-1,4 SORBS2 300 4 NM_001145673 exon8 c.G870A p.P290P CATACCCGGCTTG . scavenged Atlas-SNP TCEAL3 85012 hgsc.bcm.edu 37 X 102864251 102864251 + Missense_Mutation SNP C C G rs12009847 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 389.0 379.0 379.0 1.0 0.974293 0.00263852 C|0.936;G|0.064 0.064 strong . TCEAL3 24 . NM_001006933 exon3 c.C259G p.Q87E GCCTCCCAGGCAA . PASS Atlas-SNP AJUBA 84962 hgsc.bcm.edu 37 14 23444247 23444247 + Silent SNP G G A rs10130692 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 81.0 49.0 60.0 0.0 0.604938 0 G|0.955;A|0.045 0.045 strong . . . . NM_032876 exon5 c.C1306T p.L436L CATCCAGGCACTT . PASS Atlas-SNP HLTF 6596 hgsc.bcm.edu 37 3 148768130 148768130 + Silent SNP T T C rs16861365 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 161.0 84.0 157.0 0.0 0.521739 0 T|0.956;C|0.044 0.044 strong . HLTF 87 . NM_139048 exon15 c.A1506G p.V502V CAAGTGTACATCT . PASS Atlas-SNP TRIM36 55521 hgsc.bcm.edu 37 5 114482847 114482847 + Silent SNP T T C rs12109197 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 459.0 209.0 466.0 1.0 0.455338 0.00214592 T|0.998;C|0.002 0.002 strong . TRIM36 126 . NM_018700 exon3 c.A543G p.E181E GAAGCATTCATTG . PASS Atlas-SNP DLAT 1737 hgsc.bcm.edu 37 11 111908137 111908137 + Missense_Mutation SNP G G A rs116125936 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 64.0 21.0 97.0 0.0 0.328125 0 G|0.992;A|0.008 0.008 strong . DLAT 39 . NM_001931 exon6 c.G928A p.E310K CCAACCGAAGTAA . PASS Atlas-SNP DTNBP1 84062 hgsc.bcm.edu 37 6 15533469 15533469 + Splice_Site SNP G G A rs61739410 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 45.0 79.0 0.0 0.45 0 G|0.969;A|0.031 0.031 strong . DTNBP1 56 . NM_032122 exon9 c.667+2C>T . CCACTCGCCTCGC . PASS Atlas-SNP C1orf173 127254 hgsc.bcm.edu 37 1 75038963 75038963 + Missense_Mutation SNP C C A rs75061423 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 126.0 60.0 121.0 0.0 0.47619 0 A|0.022;C|0.978 0.022 strong . C1orf173 380 . NM_001002912 exon14 c.G2431T p.A811S TCCACGCCCTCAA . PASS Atlas-SNP ITGAV 3685 hgsc.bcm.edu 37 2 187490232 187490232 + Silent SNP G G A rs114767222 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 85.0 33.0 95.0 0.0 0.388235 0 G|0.992;A|0.008 0.008 strong . ITGAV 124 . NM_001145000 exon4 c.G441A p.E147E AACTGAGATGAAA . PASS Atlas-SNP RBCK1 10616 hgsc.bcm.edu 37 20 398175 398175 + Missense_Mutation SNP G G C rs143804674 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 94.0 54.0 85.0 0.0 0.574468 0 G|1.000;C|0.000 0.000 strong . RBCK1 38 . NM_031229 exon3 c.G173C p.W58S GGCTGTGGGTGAG . PASS Atlas-SNP NPFFR2 10886 hgsc.bcm.edu 37 4 73012709 73012709 + Missense_Mutation SNP T T C rs61733659 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 86.0 42.0 84.0 0.0 0.488372 0 T|0.990;C|0.010 0.010 strong . NPFFR2 98 . NM_004885 exon4 c.T749C p.V250A GTGTGGTCTACCC . PASS Atlas-SNP SOWAHA 134548 hgsc.bcm.edu 37 5 132150804 132150804 + Silent SNP G G A rs7719416 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 103.0 50.0 78.0 0.0 0.485437 0 G|0.965;A|0.035 0.035 strong . . . . NM_175873 exon1 c.G1491A p.K497K CTTGAAGAAGTCG . PASS Atlas-SNP ZC3HAV1L 92092 hgsc.bcm.edu 37 7 138713674 138713674 + Silent SNP C C G rs7800990 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 78.0 43.0 93.0 0.0 0.551282 0 C|0.961;G|0.039 0.039 strong . ZC3HAV1L 15 . NM_080660 exon3 c.G534C p.L178L GCCATACAGGGCT . PASS Atlas-SNP GNAI1 2770 hgsc.bcm.edu 37 7 79828573 79828573 + Silent SNP A A G rs6970347 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 78.0 40.0 122.0 0.0 0.512821 0 A|0.982;G|0.018 0.018 strong . GNAI1 44 . NM_002069 exon4 c.A336G p.G112G AGCTGGAGCTGCT . PASS Atlas-SNP TLR6 10333 hgsc.bcm.edu 37 4 38829702 38829702 + Missense_Mutation SNP C C T rs5743816 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 211.0 80.0 207.0 0.0 0.379147 0 C|0.931;T|0.069 0.069 strong . TLR6 67 . NM_006068 exon2 c.G1393A p.V465I TAGGAACGCTCTT . PASS Atlas-SNP AFAP1L2 84632 hgsc.bcm.edu 37 10 116064528 116064528 + Missense_Mutation SNP G G A rs73365341 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 49.0 49.0 40.0 0.0 1 0 G|0.884;A|0.116 0.116 strong . AFAP1L2 90 . NM_032550 exon11 c.C1234T p.L412F AGTAGAGGTGGTC . PASS Atlas-SNP GBP5 115362 hgsc.bcm.edu 37 1 89735229 89735229 + Missense_Mutation SNP C C G rs17130763 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 137.0 72.0 142.0 0.0 0.525547 0 C|0.976;G|0.024 0.024 strong . GBP5 65 . NM_052942 exon3 c.G10C p.E4Q GGATCTCTAAAGC . PASS Atlas-SNP ABCA1 19 hgsc.bcm.edu 37 9 107547872 107547872 + Silent SNP C C T rs61741359 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 71.0 54.0 70.0 0.0 0.760563 0 C|0.985;T|0.015 0.015 strong . ABCA1 244 . NM_005502 exon49 c.G6450A p.P2150P CAGGTCCGGGTTG . PASS Atlas-SNP PKD1L1 168507 hgsc.bcm.edu 37 7 47925609 47925609 + Silent SNP G G A rs78480673 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 128.0 65.0 115.0 0.0 0.507812 0 G|0.951;A|0.049 0.049 strong PKD1L1,NS,carcinoma,0,2 PKD1L1 328 2 NM_138295 exon18 c.C2880T p.L960L GGCACCGAGTCCC . PASS Atlas-SNP KIAA1683 80726 hgsc.bcm.edu 37 19 18376780 18376780 + Missense_Mutation SNP T T C rs12462974 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 153.0 83.0 127.0 0.0 0.542484 0 T|0.861;C|0.139 0.139 strong . KIAA1683 190 . NM_001145304 exon3 c.A1570G p.T524A CCACTGTTGGAGA . PASS Atlas-SNP CRNKL1 51340 hgsc.bcm.edu 37 20 20033194 20033194 + Silent SNP G G T rs145198573 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 37.0 68.0 0.0 0.486842 0 G|0.996;T|0.004 0.004 strong . CRNKL1 101 . NM_016652 exon2 c.C276A p.R92R CTCCTTGCGGCAG . PASS Atlas-SNP ANKRD34B 340120 hgsc.bcm.edu 37 5 79854667 79854667 + Missense_Mutation SNP A A G rs147745221 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 57.0 34.0 46.0 0.0 0.596491 0 A|0.999;G|0.001 0.001 strong . ANKRD34B 61 . NM_001004441 exon5 c.T1172C p.I391T TTTCCTATAAGTG . PASS Atlas-SNP XKR3 150165 hgsc.bcm.edu 37 22 17288849 17288849 + Missense_Mutation SNP A A G rs150400922 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 209.0 94.0 185.0 0.0 0.449761 0 A|0.996;G|0.004 0.004 strong . XKR3 51 . NM_175878 exon2 c.T115C p.F39L TTGAGAAGATAAT . PASS Atlas-SNP BRAF 673 hgsc.bcm.edu 37 7 140449150 140449150 + Silent SNP T T C rs9648696 bycluster;byfrequency;by2hit2allele;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 148.0 148.0 141.0 0.0 1 0 T|0.696;C|0.304 0.304 strong . BRAF 36346 . NM_004333 exon16 c.A1929G p.G643G AACAATTCCAAAT . PASS Atlas-SNP C7orf55-LUC7L2 100996928 hgsc.bcm.edu 37 7 139090515 139090515 + Silent SNP A A G rs74758604 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 133.0 62.0 139.0 0.0 0.466165 0 A|0.981;G|0.019 0.019 strong LUC7L2,NS,carcinoma,+2,1 . . 1 NM_001244584 exon6 c.A690G p.A230A ACGGGCAAAGAAA . PASS Atlas-SNP C1orf127 148345 hgsc.bcm.edu 37 1 11008102 11008102 + Missense_Mutation SNP G G A rs1281018 bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 114.0 52.0 93.0 0.0 0.45614 0 G|0.914;A|0.086 0.086 strong . C1orf127 134 . NM_001170754 exon12 c.C2090T p.A697V AGGGGCGCTGCCA . PASS Atlas-SNP MKRN1 23608 hgsc.bcm.edu 37 7 140158960 140158960 + Silent SNP G G A rs61736379 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 260.0 125.0 198.0 0.0 0.480769 0 G|0.993;A|0.007 0.007 strong . MKRN1 35 . NM_013446 exon4 c.C618T p.A206A CTCCACGGCGGTT . PASS Atlas-SNP SPAG7 9552 hgsc.bcm.edu 37 17 4863574 4863574 + Silent SNP G G A rs73343383 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 127.0 67.0 163.0 0.0 0.527559 0 G|0.978;A|0.022 0.022 strong . SPAG7 22 . NM_004890 exon4 c.C282T p.S94S CCCAAAGGAGAAG . PASS Atlas-SNP UGGT2 55757 hgsc.bcm.edu 37 13 96508566 96508566 + Missense_Mutation SNP T T A rs35123499 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 177.0 88.0 133.0 0.0 0.497175 0 T|0.980;A|0.020 0.020 strong . UGGT2 127 . NM_020121 exon34 c.A3854T p.Y1285F AATCCATACTCTT . PASS Atlas-SNP KNTC1 9735 hgsc.bcm.edu 37 12 123089955 123089955 + Missense_Mutation SNP C C T rs7310898 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 172.0 71.0 172.0 0.0 0.412791 0 C|0.962;T|0.038 0.038 strong KNTC1,caecum,carcinoma,0,1 KNTC1 182 1 NM_014708 exon51 c.C5489T p.P1830L CAAAACCTGGTGA . PASS Atlas-SNP LIPN 643418 hgsc.bcm.edu 37 10 90530683 90530683 + Missense_Mutation SNP C C T rs114737713 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 150.0 76.0 136.0 0.0 0.506667 0 C|0.983;T|0.017 0.017 strong . LIPN 28 . NM_001102469 exon6 c.C754T p.L252F AAGATACTCTGGT . PASS Atlas-SNP TBXAS1 6916 hgsc.bcm.edu 37 7 139661964 139661964 + Missense_Mutation SNP C C G rs4529 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 114.0 55.0 136.0 0.0 0.482456 0 C|0.953;G|0.047 0.047 strong . TBXAS1 121 . NM_001166253 exon10 c.C1207G p.L403V ACCTACCTACTGG . PASS Atlas-SNP COL18A1 80781 hgsc.bcm.edu 37 21 46900670 46900670 + Silent SNP C C T rs112723616 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 57.0 36.0 31.0 0.0 0.631579 0 C|0.990;T|0.010 0.010 strong . COL18A1 129 . NM_030582 exon12 c.C2049T p.G683G GCCCGGCGAGCCA . PASS Atlas-SNP C1orf109 54955 hgsc.bcm.edu 37 1 38155319 38155319 + Silent SNP C C T rs61731880 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 214.0 103.0 187.0 0.0 0.481308 0 C|0.966;T|0.034 0.034 strong . C1orf109 13 . NM_017850 exon2 c.G234A p.L78L AGCCACCAGCTGC . PASS Atlas-SNP DPY19L3 147991 hgsc.bcm.edu 37 19 32930808 32930808 + Missense_Mutation SNP G G A rs139732410 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 110.0 51.0 100.0 0.0 0.463636 0 G|0.998;A|0.002 0.002 strong . DPY19L3 70 . NM_001172774 exon8 c.G847A p.A283T CTGCCAGCAGTGA . PASS Atlas-SNP TNFRSF11A 8792 hgsc.bcm.edu 37 18 60036547 60036547 + Missense_Mutation SNP G G A rs35993683 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 27.0 12.0 27.0 0.0 0.444444 0 G|0.989;A|0.011 0.011 strong . TNFRSF11A 51 . NM_003839 exon9 c.G1397A p.R466H CAAAACGTGGACC . PASS Atlas-SNP SI 6476 hgsc.bcm.edu 37 3 164750325 164750325 + Silent SNP A A G rs140829463 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 57.0 24.0 65.0 0.0 0.421053 0 A|0.999;G|0.001 0.001 strong . SI 500 . NM_001041 exon24 c.T2721C p.Y907Y AGCATCATAAGTG . PASS Atlas-SNP PLA2G4F 255189 hgsc.bcm.edu 37 15 42434905 42434905 + Missense_Mutation SNP T T C rs144100358 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 114.0 67.0 97.0 0.0 0.587719 0 T|0.992;C|0.008 0.008 strong . PLA2G4F 75 . NM_213600 exon19 c.A2150G p.K717R GTCATCTTCAAGA . PASS Atlas-SNP FBXW12 285231 hgsc.bcm.edu 37 3 48420987 48420987 + Missense_Mutation SNP A A G rs77256337 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 220.0 119.0 214.0 1.0 0.540909 0.0046729 A|0.994;G|0.006 0.006 strong . FBXW12 44 . NM_207102 exon7 c.A713G p.H238R TTCTACACTGCTC . PASS Atlas-SNP CRTAC1 55118 hgsc.bcm.edu 37 10 99667840 99667840 + Silent SNP A A G rs35333633 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 153.0 75.0 115.0 0.0 0.490196 0 A|0.946;G|0.054 0.054 strong . CRTAC1 86 . NM_001206528 exon6 c.T780C p.N260N ATTCTCATTGTCG . PASS Atlas-SNP TTF2 8458 hgsc.bcm.edu 37 1 117637966 117637966 + Silent SNP A A G rs34079217 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 107.0 43.0 96.0 0.0 0.401869 0 A|0.964;G|0.036 0.036 strong . TTF2 92 . NM_003594 exon19 c.A3012G p.Q1004Q AATTCAAAGAAAT . PASS Atlas-SNP MSL1 339287 hgsc.bcm.edu 37 17 38285681 38285681 + Silent SNP T T C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 95.0 5.0 80.0 0.0 0.0526316 0 . . none . MSL1 21 . NM_001012241 exon4 c.T387C p.S129S CCGGTCTTCAGTG . PASS Atlas-SNP NF1 4763 hgsc.bcm.edu 37 17 29652884 29652884 + Silent SNP T T C rs10512435 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 42.0 93.0 0.0 0.552632 0 T|0.979;C|0.021 0.021 strong . NF1 1586 . NM_001042492 exon37 c.T4882C p.L1628L CATGTCTTACTGA . PASS Atlas-SNP TRIO 7204 hgsc.bcm.edu 37 5 14291259 14291259 + Silent SNP G G A rs61737132 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 143.0 63.0 142.0 0.0 0.440559 0 G|0.963;A|0.037 0.037 strong . TRIO 305 . NM_007118 exon5 c.G975A p.L325L GCATCTGCACCAG . PASS Atlas-SNP WDR53 348793 hgsc.bcm.edu 37 3 196281263 196281263 + Missense_Mutation SNP C C T rs61730533 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 549.0 259.0 523.0 1.0 0.471767 0.00191205 C|0.942;T|0.058 0.058 strong . WDR53 26 . NM_182627 exon4 c.G896A p.G299D TTTCCACCCTGCT . PASS Atlas-SNP STOX1 219736 hgsc.bcm.edu 37 10 70646139 70646139 + Missense_Mutation SNP G G A rs7904300 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 105.0 42.0 88.0 0.0 0.4 0 G|0.968;A|0.032 0.032 strong . STOX1 75 . NM_152709 exon3 c.G2587A p.A863T AGAAAAGCCAGTT . PASS Atlas-SNP SENP7 57337 hgsc.bcm.edu 37 3 101090925 101090925 + Missense_Mutation SNP C C A rs115061809 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 156.0 72.0 145.0 0.0 0.461538 0 C|0.988;A|0.012 0.012 strong . SENP7 170 . NM_020654 exon7 c.G723T p.Q241H CGCAGTCTGCTTT . PASS Atlas-SNP CATSPERG 57828 hgsc.bcm.edu 37 19 38834974 38834974 + Missense_Mutation SNP G G A rs61732182 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 127.0 69.0 117.0 0.0 0.543307 0 G|0.997;A|0.003 0.003 strong . CATSPERG 121 . NM_021185 exon6 c.G635A p.R212Q GAGACCGGGACAA . PASS Atlas-SNP CYP1A2 1544 hgsc.bcm.edu 37 15 75043592 75043592 + Missense_Mutation SNP C C A rs17861157 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 119.0 119.0 111.0 1.0 1 0.00900901 C|0.973;A|0.027 0.027 strong . CYP1A2 70 . NM_000761 exon3 c.C894A p.S298R AGCCAGCGGCAAC . PASS Atlas-SNP KRTAP4-8 728224 hgsc.bcm.edu 37 17 39254074 39254074 + Missense_Mutation SNP G G T rs78662167 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 133.0 19.0 139.0 0.0 0.142857 0 G|0.500;T|0.500 0.500 weak . KRTAP4-8 57 . NM_031960 exon1 c.C263A p.T88N CAGCAGGTGGGCT . PASS Atlas-SNP C9orf173 441476 hgsc.bcm.edu 37 9 140146526 140146526 + Silent SNP G G A rs74822962 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 71.0 52.0 58.0 0.0 0.732394 0 G|0.991;A|0.009 0.009 strong C9orf173,colon,carcinoma,0,1 C9orf173 19 1 NM_001256701 exon3 c.G342A p.P114P GAGCCCGTCCGTA . PASS Atlas-SNP ZFC3H1 196441 hgsc.bcm.edu 37 12 72020103 72020103 + Silent SNP G G A rs56384440 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 147.0 70.0 173.0 0.0 0.47619 0 A|0.013;G|0.987 0.013 strong . ZFC3H1 172 . NM_144982 exon22 c.C4254T p.D1418D CACCTCGTCCTTG . PASS Atlas-SNP NUDT9 53343 hgsc.bcm.edu 37 4 88344063 88344063 + Silent SNP G G C rs11937770 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 21.0 20.0 37.0 0.0 0.952381 0 G|0.895;C|0.105 0.105 strong . NUDT9 21 . NM_001248011 exon1 c.G6C p.A2A CATGGCGGGACGC . PASS Atlas-SNP GJB4 127534 hgsc.bcm.edu 37 1 35227041 35227041 + Silent SNP C C T rs76188300 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 166.0 77.0 148.0 0.0 0.463855 0 C|0.964;T|0.036 0.036 strong . GJB4 51 . NM_153212 exon2 c.C186T p.N62N CCCCAACGTCTGC . PASS Atlas-SNP ABCB11 8647 hgsc.bcm.edu 37 2 169853220 169853220 + Silent SNP G G A rs11568377 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 59.0 59.0 84.0 0.0 1 0 G|0.935;A|0.065 0.065 strong . ABCB11 136 . NM_003742 exon6 c.C402T p.I134I GCTCTCGATGTTC . PASS Atlas-SNP SPATA5L1 79029 hgsc.bcm.edu 37 15 45695612 45695612 + Silent SNP C C T rs1346265 bycluster;byfrequency;by2hit2allele;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 79.0 35.0 62.0 0.0 0.443038 0 C|0.860;T|0.140 0.140 strong . SPATA5L1 40 . NM_024063 exon1 c.C985T p.L329L ACGCTGCTGGACG . PASS Atlas-SNP PVRL2 5819 hgsc.bcm.edu 37 19 45368805 45368805 + Silent SNP C C T rs34929997 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 33.0 11.0 47.0 0.0 0.333333 0 C|0.980;T|0.020 0.020 strong . PVRL2 58 . NM_002856 exon2 c.C366T p.D122D CCAGGACGCCACG . PASS Atlas-SNP TTYH2 94015 hgsc.bcm.edu 37 17 72227040 72227040 + Missense_Mutation SNP G G A rs150215307 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 162.0 59.0 183.0 0.0 0.364198 0 G|0.995;A|0.005 0.005 strong . TTYH2 63 . NM_032646 exon3 c.G316A p.V106I GTGGGCGTTGGTT . PASS Atlas-SNP KDM3A 55818 hgsc.bcm.edu 37 2 86709704 86709704 + Silent SNP C C T rs34673273 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 185.0 96.0 144.0 0.0 0.518919 0 C|0.969;T|0.031 0.031 strong . KDM3A 179 . NM_001146688 exon18 c.C2809T p.L937L AGCATTCTGGGCT . PASS Atlas-SNP MAGED2 10916 hgsc.bcm.edu 37 X 54837277 54837277 + Missense_Mutation SNP G G C rs12014977 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 196.0 105.0 150.0 0.0 0.535714 0 G|0.973;C|0.027 0.027 strong . MAGED2 74 . NM_201222 exon4 c.G561C p.E187D GGAAGAGGATGGC . PASS Atlas-SNP GPR110 266977 hgsc.bcm.edu 37 6 46977783 46977783 + Missense_Mutation SNP C C T rs45598235 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 176.0 85.0 134.0 0.0 0.482955 0 C|0.952;T|0.048 0.048 strong GPR110,NS,carcinoma,0,1 GPR110 102 1 NM_153840 exon11 c.G1388A p.R463H AACACACGGCCTC . PASS Atlas-SNP CHI3L1 1116 hgsc.bcm.edu 37 1 203152851 203152851 + Missense_Mutation SNP C C T rs147131854 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 103.0 50.0 101.0 0.0 0.485437 0 C|0.999;T|0.001 0.001 strong CHI3L1,colon,carcinoma,0,1 CHI3L1 51 1 NM_001276 exon5 c.G383A p.R128H TGGGTGCGCAGAA . PASS Atlas-SNP COX1 5742 hgsc.bcm.edu 37 MT 6150 6150 + Missense_Mutation SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 9.0 9.0 8.0 0.0 1 0 . . none . . . . ENST00000361624 exon1 c.G247A p.V83I TGACTAGTTCCCC . PASS Atlas-SNP ZNF43 7594 hgsc.bcm.edu 37 19 21991663 21991663 + Silent SNP A A G rs61733114 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 49.0 28.0 52.0 0.0 0.571429 0 A|0.968;G|0.032 0.032 strong . ZNF43 152 . NM_001256653 exon4 c.T1203C p.H401H TTCAGTATGAATT . PASS Atlas-SNP FAM166A 401565 hgsc.bcm.edu 37 9 140140188 140140188 + Silent SNP G G A rs112239130 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 116.0 76.0 135.0 0.0 0.655172 0 G|0.992;A|0.008 0.008 strong . FAM166A 44 . NM_001001710 exon2 c.C174T p.P58P GGACATGGGGGAC . PASS Atlas-SNP WDR31 114987 hgsc.bcm.edu 37 9 116085148 116085148 + Silent SNP A A C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 195.0 68.0 176.0 0.0 0.348718 0 . . none . WDR31 23 . NM_001012361 exon7 c.T513G p.L171L CCACAGAAGCAGG . PASS Atlas-SNP KLF16 83855 hgsc.bcm.edu 37 19 1854701 1854701 + Silent SNP G G A rs76157530 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 43.0 25.0 30.0 0.0 0.581395 0 G|0.989;A|0.011 0.011 strong . KLF16 9 . NM_031918 exon2 c.C516T p.D172D CAGCTCGTCGGAG . PASS Atlas-SNP ABCC11 85320 hgsc.bcm.edu 37 16 48234214 48234214 + Silent SNP C C T rs61745566 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 61.0 27.0 62.0 0.0 0.442623 0 C|0.980;T|0.020 0.020 strong . ABCC11 177 . NM_033151 exon14 c.G2055A p.T685T GACGACCGTCTTC . PASS Atlas-SNP WDR19 57728 hgsc.bcm.edu 37 4 39267749 39267749 + Missense_Mutation SNP G G A rs16995209 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 161.0 66.0 141.0 0.0 0.409938 0 G|0.962;A|0.038 0.038 strong . WDR19 96 . NM_025132 exon29 c.G3250A p.G1084S AACGATGGCATGC . PASS Atlas-SNP PTPN1 5770 hgsc.bcm.edu 37 20 49197955 49197955 + Silent SNP C C T rs74607837 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 162.0 81.0 138.0 0.0 0.5 0 C|0.980;T|0.020 0.020 strong . PTPN1 36 . NM_002827 exon9 c.C1242T p.C414C CATGTGCGTGGCT . PASS Atlas-SNP KRTAP3-2 83897 hgsc.bcm.edu 37 17 39156085 39156085 + Silent SNP G G T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 174.0 58.0 172.0 0.0 0.333333 0 . . none KRTAP3-2,rectum,carcinoma,0,1 KRTAP3-2 11 1 NM_031959 exon1 c.C21A p.R7R GCAGCTGCGAGAG . PASS Atlas-SNP TAGLN 6876 hgsc.bcm.edu 37 11 117075014 117075014 + Missense_Mutation SNP A A G rs12284316 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 255.0 146.0 312.0 1.0 0.572549 0.00320513 A|0.996;G|0.004 0.004 strong . TAGLN 17 . NM_001001522 exon5 c.A545G p.N182S GCAGCAACAGAGG . PASS Atlas-SNP AKNA 80709 hgsc.bcm.edu 37 9 117110112 117110112 + Missense_Mutation SNP T T C rs1265891 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 101.0 101.0 138.0 1.0 1 0.00724638 T|0.754;C|0.246 0.246 strong . AKNA 119 . NM_030767 exon16 c.A3290G p.Q1097R AGTGGCTGGTGCA . PASS Atlas-SNP TEKT3 64518 hgsc.bcm.edu 37 17 15217535 15217535 + Silent SNP C C T rs144456077 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 312.0 159.0 286.0 0.0 0.509615 0 C|0.996;T|0.004 0.004 strong TEKT3,NS,adenocarcinoma,0,1 TEKT3 64 1 NM_031898 exon6 c.G747A p.A249A CTGGGACGCTCTG . PASS Atlas-SNP GPR107 57720 hgsc.bcm.edu 37 9 132854643 132854643 + Silent SNP T T C rs34227818 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 203.0 126.0 163.0 0.0 0.62069 0 T|0.980;C|0.020 0.020 strong . GPR107 30 . NM_001136557 exon9 c.T846C p.H282H GATTCATATCCTT . PASS Atlas-SNP TICRR 90381 hgsc.bcm.edu 37 15 90164769 90164769 + Silent SNP T T C rs75934760 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 55.0 26.0 70.0 0.0 0.472727 0 T|0.973;C|0.027 0.027 strong . . . . NM_152259 exon19 c.T3300C p.P1100P GGTACCTGCAGCT . PASS Atlas-SNP MOGS 7841 hgsc.bcm.edu 37 2 74688884 74688884 + Missense_Mutation SNP G G A rs13405869 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 118.0 47.0 126.0 0.0 0.398305 0 G|0.980;A|0.020 0.020 strong . MOGS 58 . NM_006302 exon4 c.C2032T p.R678W GGGGCCGACCCAC . PASS Atlas-SNP PCLO 27445 hgsc.bcm.edu 37 7 82764924 82764924 + Missense_Mutation SNP C C T rs138200846 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 155.0 83.0 159.0 0.0 0.535484 0 C|0.995;T|0.005 0.005 strong . PCLO 1506 . NM_014510 exon3 c.G1942A p.G648R GATCCCCGCCTAG . PASS Atlas-SNP UCK1 83549 hgsc.bcm.edu 37 9 134404337 134404337 + Silent SNP G G A rs11557925 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 35.0 20.0 34.0 0.0 0.571429 0 G|0.976;A|0.024 0.024 strong . UCK1 29 . NM_001261451 exon5 c.C612T p.C204C CGGCAGGCAGAAC . PASS Atlas-SNP CCDC138 165055 hgsc.bcm.edu 37 2 109429277 109429277 + Missense_Mutation SNP G G C rs58170568 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 163.0 76.0 165.0 0.0 0.466258 0 G|0.993;C|0.007 0.007 strong . CCDC138 49 . NM_144978 exon9 c.G935C p.R312T TGCAGAGGAAGTA . PASS Atlas-SNP CXorf57 55086 hgsc.bcm.edu 37 X 105883826 105883826 + Missense_Mutation SNP T T G rs5962707 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 419.0 145.0 406.0 0.0 0.346062 0 0|0.014;G|0.148 0.148 strong . CXorf57 107 . NM_018015 exon10 c.T1779G p.I593M AGAAATTCAAGAA . PASS Atlas-SNP NPSR1 387129 hgsc.bcm.edu 37 7 34917759 34917759 + Missense_Mutation SNP C C T rs13230135 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 288.0 146.0 224.0 0.0 0.506944 0 C|0.987;T|0.013 0.013 strong . NPSR1 134 . NM_207173 exon9 c.C1097T p.T366I AGGGTACTTGGCC . PASS Atlas-SNP SULT1A1 6817 hgsc.bcm.edu 37 16 28617413 28617413 + Missense_Mutation SNP A A G rs28374453 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 271.0 83.0 516.0 0.0 0.306273 0 A|0.974;G|0.026 0.026 strong SULT1A1_ENST00000350842,NS,carcinoma,0,10 SULT1A1 53 10 NM_177534 exon6 c.T739C p.F247L CCATGAACTCCTG . scavenged Atlas-SNP SARDH 1757 hgsc.bcm.edu 37 9 136535746 136535746 + Missense_Mutation SNP C C T rs61685718 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 119.0 41.0 107.0 0.0 0.344538 0 C|0.987;T|0.013 0.013 strong SARDH,colon,carcinoma,0,1 SARDH 112 1 NM_007101 exon19 c.G2455A p.A819T GGCCTGCGGCCCG . PASS Atlas-SNP SMURF2 64750 hgsc.bcm.edu 37 17 62567987 62567987 + Silent SNP G G A rs34788315 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 182.0 92.0 205.0 0.0 0.505495 0 G|0.964;A|0.036 0.036 strong . SMURF2 63 . NM_022739 exon10 c.C945T p.F315F GTCAACGAAATAA . PASS Atlas-SNP OAF 220323 hgsc.bcm.edu 37 11 120097551 120097551 + Silent SNP G G A rs873058 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 70.0 45.0 85.0 0.0 0.642857 0 G|0.982;A|0.018 0.018 strong . OAF 12 . NM_178507 exon3 c.G393A p.A131A GCAGGCGGAGGAG . PASS Atlas-SNP SOWAHA 134548 hgsc.bcm.edu 37 5 132149593 132149593 + Missense_Mutation SNP G G A rs114865630 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 16.0 12.0 4.0 0.0 0.75 0 G|0.964;A|0.036 0.036 strong . . . . NM_175873 exon1 c.G280A p.G94S CCCTTCGGCCCCC . PASS Atlas-SNP GEMIN4 50628 hgsc.bcm.edu 37 17 648916 648916 + Silent SNP T T C rs12942598 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 98.0 38.0 80.0 0.0 0.387755 0 T|0.974;C|0.026 0.026 strong . GEMIN4 116 . NM_015721 exon2 c.A2367G p.T789T AAAAAGTGTGGCT . PASS Atlas-SNP MBOAT1 154141 hgsc.bcm.edu 37 6 20109842 20109842 + Missense_Mutation SNP T T C rs2065649 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 102.0 47.0 113.0 0.0 0.460784 0 T|0.949;C|0.051 0.051 strong . MBOAT1 48 . NM_001080480 exon12 c.A1348G p.I450V AGCTGATGGTCGG . PASS Atlas-SNP FAAH 2166 hgsc.bcm.edu 37 1 46876488 46876488 + Silent SNP G G C rs74783386 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 176.0 80.0 168.0 0.0 0.454545 0 G|0.998;C|0.002 0.002 strong . FAAH 36 . NM_001441 exon11 c.G1278C p.L426L GCAGCTGCCAAGG . PASS Atlas-SNP CEACAM8 1088 hgsc.bcm.edu 37 19 43098931 43098931 + Missense_Mutation SNP C C A rs28367882 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 64.0 33.0 85.0 0.0 0.515625 0 C|0.939;A|0.061 0.061 strong . CEACAM8 44 . NM_001816 exon1 c.G50T p.G17V AGGAGCCCCTGCC . PASS Atlas-SNP MED22 6837 hgsc.bcm.edu 37 9 136208405 136208405 + Missense_Mutation SNP C C T rs145653063 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 115.0 39.0 106.0 0.0 0.33913 0 C|0.989;T|0.011 0.011 strong . MED22 13 . NM_133640 exon5 c.G553A p.A185T CAGGGGCTGCCAC . PASS Atlas-SNP LLGL2 3993 hgsc.bcm.edu 37 17 73566094 73566094 + Missense_Mutation SNP G G C rs115026154 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 62.0 87.0 0.0 0.62 0 G|0.977;C|0.023 0.023 strong . LLGL2 155 . NM_004524 exon15 c.G1632C p.Q544H GGAGCAGGTGGAG . PASS Atlas-SNP CYP4F12 66002 hgsc.bcm.edu 37 19 15794423 15794423 + Silent SNP C C T rs114945576 byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 189.0 52.0 124.0 0.0 0.275132 0 C|0.990;T|0.010 0.010 strong . CYP4F12 89 . NM_023944 exon7 c.C768T p.F256F GCGCTTCCACAGG . PASS Atlas-SNP GGT7 2686 hgsc.bcm.edu 37 20 33447314 33447314 + Missense_Mutation SNP C C T rs61319953 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 70.0 34.0 76.0 0.0 0.485714 0 C|0.971;T|0.029 0.029 strong . GGT7 41 . NM_178026 exon7 c.G946A p.V316I CAAGTACATCCAG . PASS Atlas-SNP LRP2 4036 hgsc.bcm.edu 37 2 169993977 169993977 + Silent SNP C C T rs34029982 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 96.0 46.0 113.0 0.0 0.479167 0 C|0.992;T|0.008 0.008 strong . LRP2 751 . NM_004525 exon76 c.G13545A p.G4515G CTGCTTCCCCATT . PASS Atlas-SNP ZNF467 168544 hgsc.bcm.edu 37 7 149462055 149462055 + Silent SNP G G A rs863021 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 17.0 8.0 4.0 0.0 0.470588 0 G|0.947;A|0.053 0.053 strong . ZNF467 50 . NM_207336 exon5 c.C1536T p.S512S GGGGCGGCTGCCA . PASS Atlas-SNP NUFIP2 57532 hgsc.bcm.edu 37 17 27620934 27620934 + Silent SNP G G A rs1054145 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 525.0 275.0 476.0 0.0 0.52381 0 G|0.981;A|0.019 0.019 strong NUFIP2,NS,carcinoma,-2,1 NUFIP2 60 1 NM_020772 exon1 c.C144T p.H48H ATGATGGTGGTGG . PASS Atlas-SNP MTTP 4547 hgsc.bcm.edu 37 4 100512919 100512919 + Missense_Mutation SNP C C G rs17599091 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 150.0 60.0 117.0 0.0 0.4 0 C|0.964;G|0.036 0.036 strong . MTTP 127 . NM_000253 exon7 c.C730G p.Q244E TTCCTACAAACCA . PASS Atlas-SNP DDX51 317781 hgsc.bcm.edu 37 12 132628281 132628281 + Missense_Mutation SNP C C T rs78871841 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 16.0 6.0 8.0 0.0 0.375 0 C|0.962;T|0.038 0.038 strong . DDX51 33 . NM_175066 exon2 c.G478A p.G160S CCAGGCCGGGGAC . PASS Atlas-SNP CD36 948 hgsc.bcm.edu 37 7 80300449 80300449 + Nonsense_Mutation SNP T T G rs3211938 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 47.0 47.0 49.0 0.0 1 0 T|0.967;G|0.033 0.033 strong . CD36 185 . NM_001127444 exon8 c.T975G p.Y325X ATCATATGGTGTG . PASS Atlas-SNP LRRC8B 23507 hgsc.bcm.edu 37 1 90049088 90049088 + Silent SNP G G A rs35903285 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 94.0 43.0 67.0 0.0 0.457447 0 G|0.976;A|0.024 0.024 strong . LRRC8B 49 . NM_015350 exon5 c.G879A p.V293V TGATGTGCAGGCT . PASS Atlas-SNP HOMEZ 57594 hgsc.bcm.edu 37 14 23745723 23745723 + Silent SNP G G A rs11844797 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 134.0 67.0 155.0 0.0 0.5 0 G|0.948;A|0.052 0.052 strong . HOMEZ 80 . NM_020834 exon2 c.C714T p.N238N TGACTGGTTGGGA . PASS Atlas-SNP COL20A1 57642 hgsc.bcm.edu 37 20 61960961 61960961 + Missense_Mutation SNP T T C rs6011740 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 31.0 14.0 39.0 0.0 0.451613 0 T|0.949;C|0.051 0.051 strong . COL20A1 137 . NM_020882 exon35 c.T3806C p.M1269T GTCAGATGGGCAG . PASS Atlas-SNP KRTAP10-6 386674 hgsc.bcm.edu 37 21 46011571 46011571 + Silent SNP G G T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 341.0 21.0 280.0 0.0 0.0615836 0 . . none . KRTAP10-6 57 . NM_198688 exon1 c.C795A p.P265P CTGGCAGGGGGAG . PASS Atlas-SNP MYH8 4626 hgsc.bcm.edu 37 17 10312792 10312792 + Silent SNP C C T rs73275411 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 251.0 134.0 316.0 0.0 0.533865 0 C|0.976;T|0.024 0.024 strong . MYH8 346 . NM_002472 exon16 c.G1701A p.Q567Q GGGCTTCTGGAAG . PASS Atlas-SNP KRTAP26-1 388818 hgsc.bcm.edu 37 21 31692173 31692173 + Missense_Mutation SNP C C T rs78165499 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 196.0 114.0 231.0 0.0 0.581633 0 C|0.988;T|0.012 0.012 strong . KRTAP26-1 58 . NM_203405 exon1 c.G181A p.G61S GTTCACCGCAGGT . PASS Atlas-SNP E2F4 1874 hgsc.bcm.edu 37 16 67229827 67229827 + Silent SNP C C T rs3730404 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 115.0 63.0 118.0 0.0 0.547826 0 C|0.949;T|0.051 0.051 strong . E2F4 25 . NM_001950 exon7 c.C951T p.S317S CAGCAGCAGCAGC . PASS Atlas-SNP PCDHB14 56122 hgsc.bcm.edu 37 5 140604694 140604694 + Silent SNP G G A rs76971158 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 247.0 119.0 194.0 0.0 0.481781 0 G|0.978;A|0.022 0.022 strong PCDHB14,caecum,carcinoma,0,1 PCDHB14 132 1 NM_018934 exon1 c.G1617A p.P539P GTCCCCGGCGTTG . PASS Atlas-SNP TTF2 8458 hgsc.bcm.edu 37 1 117618024 117618024 + Missense_Mutation SNP G G C rs17036832 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 118.0 58.0 120.0 0.0 0.491525 0 A|0.000;C|0.019;G|0.980 0.019 strong . TTF2 92 . NM_003594 exon5 c.G818C p.S273T CAATAAGCAAGCC . PASS Atlas-SNP ADAMTS8 11095 hgsc.bcm.edu 37 11 130284495 130284495 + Silent SNP C C T rs142963990 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 271.0 127.0 258.0 1.0 0.468635 0.00387597 C|0.996;T|0.004 0.004 strong . ADAMTS8 172 . NM_007037 exon5 c.G1497A p.T499T GCACGGCGTGCCG . PASS Atlas-SNP TF 7018 hgsc.bcm.edu 37 3 133486988 133486988 + Silent SNP C C T rs7845 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 81.0 36.0 78.0 0.0 0.444444 0 C|0.985;G|0.000;T|0.015 0.015 strong . TF 116 . NM_001063 exon13 c.C1602T p.Y534Y ATACTACGGCTAC . PASS Atlas-SNP CYP4F12 66002 hgsc.bcm.edu 37 19 15795939 15795939 + Silent SNP A A G rs61729075 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 258.0 71.0 157.0 0.0 0.275194 0 A|0.981;G|0.019 0.019 strong . CYP4F12 89 . NM_023944 exon9 c.A1047G p.E349E CCCAGAATACCAG . PASS Atlas-SNP ZDHHC1 29800 hgsc.bcm.edu 37 16 67440289 67440289 + Silent SNP C C T rs8058306 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 161.0 71.0 138.0 0.0 0.440994 0 C|0.924;T|0.076 0.076 strong . ZDHHC1 28 . NM_013304 exon3 c.G66A p.T22T CGGTGCCGTCCAC . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195515030 195515030 + Missense_Mutation SNP C C A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 436.0 23.0 143.0 0.0 0.0527523 0 . . none MUC4_ENST00000463781,NS,carcinoma,0,2 MUC4 1505 2 NM_018406 exon2 c.G3421T p.D1141Y AAGTGTCGGTGAC . scavenged Atlas-SNP CFC1B 653275 hgsc.bcm.edu 37 2 131356322 131356322 + Missense_Mutation SNP C C T rs201431919 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 797.0 540.0 1076.0 0.0 0.677541 0 C|0.969;T|0.031 0.031 strong CFC1,fourth_ventricle,glioma,0,1 . . 1 NM_001079530 exon3 c.G140A p.R47Q GACTGTCGGTGCT . PASS Atlas-SNP MSLN 10232 hgsc.bcm.edu 37 16 815593 815593 + Missense_Mutation SNP G G C rs115279916 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 117.0 65.0 60.0 0.0 0.555556 0 G|0.985;C|0.015 0.015 strong . MSLN 109 . NM_005823 exon10 c.G771C p.Q257H GGGCCAGCCCATC . PASS Atlas-SNP MUC17 140453 hgsc.bcm.edu 37 7 100678693 100678693 + Silent SNP T T C rs78176991 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 144.0 16.0 148.0 0.0 0.111111 0 T|0.994;C|0.006 0.006 strong . MUC17 804 . NM_001040105 exon3 c.T3996C p.Y1332Y AACTTATAGTGAA . PASS Atlas-SNP KIAA1967 57805 hgsc.bcm.edu 37 8 22473646 22473646 + Missense_Mutation SNP A A C rs143150726 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 116.0 44.0 113.0 0.0 0.37931 0 A|0.998;C|0.002 0.002 strong . KIAA1967 72 . NM_021174 exon14 c.A1730C p.E577A AGGAGGAGGCGGC . PASS Atlas-SNP GBE1 2632 hgsc.bcm.edu 37 3 81586149 81586149 + Silent SNP G G A rs2229520 bycluster;byfrequency;bysubmitter;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 127.0 49.0 107.0 0.0 0.385827 0 G|0.987;A|0.013 0.013 strong . GBE1 111 . NM_000158 exon13 c.C1716T p.D572D AAGGTCGTCGTCA . PASS Atlas-SNP IFT140 9742 hgsc.bcm.edu 37 16 1634225 1634225 + Missense_Mutation SNP G G A rs8060532 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 43.0 24.0 41.0 0.0 0.55814 0 G|0.969;A|0.031 0.031 strong . IFT140 128 . NM_014714 exon11 c.C1352T p.A451V TTGGTGGCAAACA . PASS Atlas-SNP PRPH2 5961 hgsc.bcm.edu 37 6 42689940 42689940 + Missense_Mutation SNP G G A rs61755770 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 121.0 68.0 94.0 0.0 0.561983 0 G|0.994;A|0.006 0.006 strong . PRPH2 47 . NM_000322 exon1 c.C133T p.L45F TTCGGAGTTCAAT . PASS Atlas-SNP DCTN1 1639 hgsc.bcm.edu 37 2 74597937 74597937 + Missense_Mutation SNP G G T rs13420401 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 138.0 73.0 113.0 0.0 0.528986 0 G|0.954;T|0.046 0.046 strong . DCTN1 110 . NM_004082 exon10 c.C859A p.L287M CCTCCAGCGCCTC . PASS Atlas-SNP PPP1R26 9858 hgsc.bcm.edu 37 9 138378308 138378308 + Missense_Mutation SNP G G A rs35142799 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 147.0 107.0 120.0 0.0 0.727891 0 G|0.994;A|0.006 0.006 strong . . . . NM_014811 exon4 c.G1952A p.G651D GGGAGGGCACCGC . PASS Atlas-SNP DNAJC13 23317 hgsc.bcm.edu 37 3 132218075 132218075 + Missense_Mutation SNP C C T rs61748102 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 148.0 66.0 142.0 0.0 0.445946 0 C|0.981;T|0.019 0.019 strong . DNAJC13 253 . NM_015268 exon37 c.C4262T p.A1421V TGCCTGCGGCTAC . PASS Atlas-SNP PHIP 55023 hgsc.bcm.edu 37 6 79700648 79700648 + Silent SNP C C T rs149171291 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 220.0 101.0 243.0 1.0 0.459091 0.00411523 C|0.997;T|0.003 0.003 strong . PHIP 177 . NM_017934 exon20 c.G2256A p.R752R TTCTGACCTGTAA . PASS Atlas-SNP NLRC3 197358 hgsc.bcm.edu 37 16 3613239 3613239 + Missense_Mutation SNP C C T rs8057436 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 32.0 20.0 24.0 0.0 0.625 0 C|0.969;T|0.031 0.031 strong . NLRC3 103 . NM_178844 exon5 c.G1699A p.V567M GCAACACGTTGAT . PASS Atlas-SNP PKD1L2 114780 hgsc.bcm.edu 37 16 81232426 81232426 + Missense_Mutation SNP A A C rs9934856 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 203.0 111.0 245.0 0.0 0.546798 0 A|0.984;C|0.016;G|0.000 0.016 strong . PKD1L2 361 . NM_001076780 exon7 c.T1384G p.L462V GCTCCAAATGGTC . PASS Atlas-SNP OR1F1 4992 hgsc.bcm.edu 37 16 3254622 3254622 + Missense_Mutation SNP G G A rs8045183 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 250.0 126.0 243.0 1.0 0.504 0.00411523 G|0.966;A|0.034 0.034 strong . OR1F1 36 . NM_012360 exon1 c.G376A p.V126M GTCGCCGTGTGCC . PASS Atlas-SNP GAB4 128954 hgsc.bcm.edu 37 22 17447237 17447237 + Silent SNP C C G rs115898475 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 55.0 33.0 64.0 0.0 0.6 0 C|0.994;G|0.006 0.006 strong . GAB4 95 . NM_001037814 exon6 c.G1041C p.V347V CAGGCCCACAAGC . PASS Atlas-SNP TMED7-TICAM2 100302736 hgsc.bcm.edu 37 5 114916763 114916763 + Missense_Mutation SNP C C T rs113049216 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 148.0 68.0 122.0 0.0 0.459459 0 C|0.989;T|0.011 0.011 strong . . . . NM_001164468 exon4 c.G698A p.S233N TCCACGCTCTGAG . PASS Atlas-SNP PPAN 56342 hgsc.bcm.edu 37 19 10221804 10221804 + Missense_Mutation SNP G G T rs200927331 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 14.0 7.0 8.0 0.0 0.5 0 . . weak . PPAN 43 . NM_020230 exon12 c.G1385T p.G462V GGCGAGGCCGGGG . PASS Atlas-SNP SIRPB1 10326 hgsc.bcm.edu 37 20 1546906 1546906 + Silent SNP C C T rs11907593 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 73.0 51.0 71.0 0.0 0.69863 0 C|0.984;T|0.016 0.016 strong . SIRPB1 83 . NM_006065 exon5 c.G1092A p.A364A AGCCAGCGCTGCT . PASS Atlas-SNP DGKZ 8525 hgsc.bcm.edu 37 11 46388024 46388024 + Missense_Mutation SNP G G A rs11827702 bycluster;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 44.0 26.0 23.0 0.0 0.590909 0 G|0.968;A|0.032 0.032 strong . DGKZ 199 . NM_001105540 exon2 c.G218A p.R73Q GCCGCCGGCGCTC . PASS Atlas-SNP GPR144 347088 hgsc.bcm.edu 37 9 127231765 127231765 + Missense_Mutation SNP C C T rs76434769 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 143.0 140.0 134.0 1.0 0.979021 0.00746269 C|0.977;T|0.023 0.023 strong . GPR144 33 . NM_001161808 exon16 c.C2497T p.R833C GCCCGCCGCCGTG . PASS Atlas-SNP TMEM176A 55365 hgsc.bcm.edu 37 7 150500832 150500832 + Missense_Mutation SNP C C T rs76937000 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 75.0 38.0 50.0 0.0 0.506667 0 C|0.977;T|0.023 0.023 strong . TMEM176A 35 . NM_018487 exon5 c.C467T p.S156L CCAGCTCGAGTGA . PASS Atlas-SNP OR4A5 81318 hgsc.bcm.edu 37 11 51412370 51412370 + Missense_Mutation SNP T T A rs149177099 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 88.0 38.0 94.0 0.0 0.431818 0 T|0.990;A|0.010 0.010 strong OR4A5,NS,carcinoma,-1,1 OR4A5 116 1 NM_001005272 exon1 c.A26T p.E9V ACAAATTCTGTAA . PASS Atlas-SNP OR5L1 219437 hgsc.bcm.edu 37 11 55579078 55579078 + Missense_Mutation SNP A A T rs2869020 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 238.0 107.0 238.0 1.0 0.44958 0.00420168 A|0.976;T|0.024 0.024 strong . OR5L1 145 . NM_001004738 exon1 c.A136T p.I46F GGCATGATTGCAC . PASS Atlas-SNP CRAT 1384 hgsc.bcm.edu 37 9 131860421 131860421 + Silent SNP G G A rs16930895 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 37.0 17.0 53.0 0.0 0.459459 0 G|0.943;A|0.057 0.057 strong . CRAT 43 . NM_000755 exon11 c.C1335T p.Y445Y CTGTCCGTAGATC . PASS Atlas-SNP RBM11 54033 hgsc.bcm.edu 37 21 15599354 15599354 + Missense_Mutation SNP G G A rs139439630 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 361.0 160.0 342.0 0.0 0.443213 0 G|0.988;A|0.012 0.012 strong . RBM11 41 . NM_144770 exon5 c.G586A p.D196N CCAAGTGACTCTG . PASS Atlas-SNP EPPK1 83481 hgsc.bcm.edu 37 8 144940462 144940462 + Silent SNP G G A rs56146920 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 198.0 11.0 174.0 0.0 0.0555556 0 G|0.500;A|0.500 0.500 weak . EPPK1 199 . NM_031308 exon1 c.C6960T p.S2320S GAAGAGGGAGATC . PASS Atlas-SNP OR52L1 338751 hgsc.bcm.edu 37 11 6007679 6007679 + Missense_Mutation SNP C C T rs61742092 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 160.0 70.0 164.0 0.0 0.4375 0 A|0.000;C|0.988;T|0.012 0.012 strong OR52L1_ENST00000332249,NS,carcinoma,-1,2 OR52L1 100 2 NM_001005173 exon1 c.G482A p.C161Y CCGATGCACCCTA . PASS Atlas-SNP BIVM-ERCC5 0 hgsc.bcm.edu 37 13 103514939 103514939 + Silent SNP C C T rs4150316 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 120.0 69.0 111.0 0.0 0.575 0 C|0.959;T|0.041 0.041 strong . . . . NM_001204425 exon16 c.C2802T p.H934H TGTTCACGTGGGG . PASS Atlas-SNP CYP3A7 1551 hgsc.bcm.edu 37 7 99317993 99317993 + Silent SNP G G A rs45466796 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 299.0 142.0 251.0 0.0 0.474916 0 G|0.983;A|0.017 0.017 strong . CYP3A7 59 . NM_000765 exon4 c.C261T p.P87P CATGTCGGGATCT . PASS Atlas-SNP ABI3 51225 hgsc.bcm.edu 37 17 47295165 47295165 + Missense_Mutation SNP G G A rs137924898 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 59.0 28.0 64.0 0.0 0.474576 0 G|0.997;A|0.003 0.003 strong . ABI3 35 . NM_016428 exon3 c.G350A p.R117Q TCCAGCGGCTGCC . PASS Atlas-SNP EBNA1BP2 10969 hgsc.bcm.edu 37 1 43630156 43630156 + Silent SNP A A C rs11559311 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 158.0 80.0 140.0 0.0 0.506329 0 A|0.912;C|0.088 0.088 strong . EBNA1BP2 37 . NM_001159936 exon10 c.T1044G p.P348P TTTTCCAGGTCTC . PASS Atlas-SNP PCDHB14 56122 hgsc.bcm.edu 37 5 140605092 140605092 + Missense_Mutation SNP C C G rs76671799 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 66.0 29.0 40.0 0.0 0.439394 0 C|0.978;G|0.022 0.022 strong . PCDHB14 132 . NM_018934 exon1 c.C2015G p.P672R ACCTGCCGCTCCC . PASS Atlas-SNP EPHA1 2041 hgsc.bcm.edu 37 7 143088592 143088592 + Silent SNP G G A rs56307701 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 175.0 84.0 134.0 0.0 0.48 0 G|0.988;A|0.013 0.013 strong . EPHA1 193 . NM_005232 exon18 c.C2889T p.H963H CTTCTGGTGCCCG . PASS Atlas-SNP COL27A1 85301 hgsc.bcm.edu 37 9 117068826 117068826 + Silent SNP G G A rs1249762 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 73.0 31.0 62.0 0.0 0.424658 0 G|0.974;A|0.026 0.026 strong . COL27A1 200 . NM_032888 exon58 c.G4965A p.V1655V GCTGGTGCTGGAC . PASS Atlas-SNP DNAH5 1767 hgsc.bcm.edu 37 5 13753517 13753517 + Missense_Mutation SNP A A T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 216.0 24.0 218.0 0.0 0.111111 0 . . none DNAH5,NS,carcinoma,+1,1 DNAH5 868 1 NM_001369 exon63 c.T10697A p.M3566K ATCAACATCTCAC . PASS Atlas-SNP LAMA1 284217 hgsc.bcm.edu 37 18 7043335 7043335 + Missense_Mutation SNP A A G rs9950267 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 137.0 135.0 160.0 0.0 0.985401 0 A|0.939;G|0.061 0.061 strong . LAMA1 458 . NM_005559 exon8 c.T1046C p.L349S GTATTCAAACTTT . PASS Atlas-SNP ZNF678 339500 hgsc.bcm.edu 37 1 227842405 227842405 + Missense_Mutation SNP C C A rs61283390 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 90.0 52.0 62.0 0.0 0.577778 0 C|0.987;A|0.013 0.013 strong . ZNF678 137 . NM_178549 exon4 c.C619A p.P207T GAGAAACCCTACA . PASS Atlas-SNP DDX27 55661 hgsc.bcm.edu 37 20 47838020 47838020 + Missense_Mutation SNP C C T rs114928867 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 126.0 59.0 115.0 0.0 0.468254 0 C|0.997;T|0.003 0.003 strong . DDX27 74 . NM_017895 exon2 c.C218T p.A73V AAAAAGCTTTGGG . PASS Atlas-SNP TJP3 27134 hgsc.bcm.edu 37 19 3747910 3747910 + Missense_Mutation SNP G G A rs10408494 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 140.0 80.0 100.0 0.0 0.571429 0 G|0.950;A|0.050 0.050 strong . TJP3 79 . NM_001267561 exon19 c.G2468A p.G823D AGGGCGGCGCGTA . PASS Atlas-SNP TRIM15 89870 hgsc.bcm.edu 37 6 30139971 30139971 + Missense_Mutation SNP G G C rs115649931 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 57.0 32.0 41.0 0.0 0.561404 0 G|0.990;C|0.010 0.010 strong . TRIM15 34 . NM_033229 exon7 c.G1243C p.V415L CGCGGCGTGAGAG . PASS Atlas-SNP ABCA7 10347 hgsc.bcm.edu 37 19 1052086 1052086 + Silent SNP G G A rs61576791 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 102.0 44.0 91.0 0.0 0.431373 0 G|0.938;A|0.062 0.062 strong . ABCA7 174 . NM_019112 exon22 c.G3108A p.T1036T CCTGACGCTGGTG . PASS Atlas-SNP PXDN 7837 hgsc.bcm.edu 37 2 1642700 1642700 + Missense_Mutation SNP G G A rs61747875 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 131.0 53.0 130.0 0.0 0.40458 0 G|0.990;A|0.010 0.010 strong . PXDN 255 . NM_012293 exon21 c.C4124T p.T1375I GAGCGTGTGCTGA . PASS Atlas-SNP STRADA 92335 hgsc.bcm.edu 37 17 61787892 61787892 + Silent SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 143.0 69.0 121.0 0.0 0.482517 0 . . none . STRADA 27 . NM_001003787 exon8 c.G540A p.L180L GGCCTTCAGCACC . PASS Atlas-SNP C6orf170 221322 hgsc.bcm.edu 37 6 121576518 121576518 + Missense_Mutation SNP C C G rs201833154 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 141.0 73.0 136.0 0.0 0.51773 0 . . weak C6orf170,colon,carcinoma,-2,1 C6orf170 146 1 NM_152730 exon17 c.G1974C p.E658D AGAACCCTCTACT . PASS Atlas-SNP RP1L1 94137 hgsc.bcm.edu 37 8 10470130 10470130 + Missense_Mutation SNP C C T rs79401306 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 33.0 11.0 24.0 0.0 0.333333 0 C|0.987;T|0.013 0.013 strong . RP1L1 453 . NM_178857 exon4 c.G1478A p.R493Q GCTTTCCGCTCAG . PASS Atlas-SNP PDP1 54704 hgsc.bcm.edu 37 8 94935623 94935623 + Missense_Mutation SNP A A G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 221.0 117.0 159.0 0.0 0.529412 0 . . none PDP1,caecum,carcinoma,-2,1 PDP1 97 1 NM_001161780 exon3 c.A1411G p.I471V CAGCCAATAGCTG . PASS Atlas-SNP TSPAN18 90139 hgsc.bcm.edu 37 11 44948263 44948263 + Silent SNP C C T rs34695714 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 124.0 65.0 107.0 0.0 0.524194 0 C|0.972;T|0.028 0.028 strong TSPAN18,colon,carcinoma,+1,1 TSPAN18 38 1 NM_130783 exon8 c.C654T p.Y218Y GACCTACGTCTAC . PASS Atlas-SNP ZNF180 7733 hgsc.bcm.edu 37 19 45001398 45001398 + Silent SNP G G A rs10423647 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 44.0 20.0 32.0 0.0 0.454545 0 G|0.906;A|0.094 0.094 strong . ZNF180 103 . NM_013256 exon2 c.C70T p.L24L CCTCCAGGCACAG . PASS Atlas-SNP TRAPPC9 83696 hgsc.bcm.edu 37 8 140743460 140743460 + Silent SNP G G A rs148857575 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 85.0 43.0 76.0 0.0 0.505882 0 G|0.998;A|0.002 0.002 strong . TRAPPC9 114 . NM_031466 exon23 c.C3585T p.S1195S CTGGCCGGACGGC . PASS Atlas-SNP BRCA1 672 hgsc.bcm.edu 37 17 41245643 41245643 + Silent SNP A A G rs369373293 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 136.0 61.0 122.0 0.0 0.448529 0 . . weak . BRCA1 304 . NM_007300 exon10 c.T1905C p.N635N AGTACAATTAGGT . PASS Atlas-SNP TMBIM6 7009 hgsc.bcm.edu 37 12 50153060 50153060 + Silent SNP A A G rs12310796 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 128.0 58.0 142.0 0.0 0.453125 0 A|0.993;G|0.007 0.007 strong . TMBIM6 26 . NM_001098576 exon8 c.A744G p.Q248Q TACTCAACTCATT . PASS Atlas-SNP FLT3LG 2323 hgsc.bcm.edu 37 19 49977929 49977929 + Silent SNP A A G rs75750998 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 357.0 183.0 285.0 0.0 0.512605 0 A|0.974;G|0.026 0.026 strong . FLT3LG 22 . NM_001204503 exon1 c.A33G p.T11T CCCAACAGTGCGT . PASS Atlas-SNP GLI3 2737 hgsc.bcm.edu 37 7 42004897 42004897 + Silent SNP G G C rs35448119 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 88.0 41.0 100.0 0.0 0.465909 0 G|0.984;C|0.016 0.016 strong . GLI3 312 . NM_000168 exon15 c.C3774G p.L1258L CCTGTTGAGACAG . PASS Atlas-SNP KCNK12 56660 hgsc.bcm.edu 37 2 47748487 47748487 + Silent SNP G G A rs77883212 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 81.0 35.0 86.0 0.0 0.432099 0 G|0.986;A|0.014 0.014 strong . KCNK12 11 . NM_022055 exon2 c.C852T p.I284I GAGCAGGATGAAG . PASS Atlas-SNP ERN1 2081 hgsc.bcm.edu 37 17 62137893 62137893 + Missense_Mutation SNP T T C rs79107850 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 150.0 64.0 135.0 0.0 0.426667 0 T|0.990;C|0.010 0.010 strong . ERN1 102 . NM_001433 exon11 c.A1142G p.N381S AGATTGTTGGGAA . PASS Atlas-SNP OC90 729330 hgsc.bcm.edu 37 8 133036743 133036743 + Silent SNP A A G rs11991659 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 34.0 20.0 52.0 0.0 0.588235 0 A|0.952;G|0.048 0.048 strong OC90_ENST00000262283,brain,primitive_neuroectodermal_tumour-medulloblastoma,-1,2 OC90 163 2 NM_001080399 exon14 c.T1419C p.P473P ATGAAGAGGCCCG . PASS Atlas-SNP TTN 7273 hgsc.bcm.edu 37 2 179610695 179610695 + Missense_Mutation SNP C C T rs72648915 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 47.0 97.0 0.0 0.47 0 C|0.961;T|0.039 0.039 strong . TTN 18412 . NM_133379 exon46 c.G16432A p.V5478M CTATCACAGCAAA . PASS Atlas-SNP IKBKE 9641 hgsc.bcm.edu 37 1 206658404 206658404 + Missense_Mutation SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 122.0 56.0 162.0 0.0 0.459016 0 . . none . IKBKE 77 . NM_001193322 exon14 c.C1498T p.R500W AGGCTGCGGACTG . PASS Atlas-SNP GTPBP3 84705 hgsc.bcm.edu 37 19 17450038 17450038 + Silent SNP C C T rs11880362 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 47.0 23.0 43.0 0.0 0.489362 0 C|0.972;T|0.028 0.028 strong . GTPBP3 40 . NM_133644 exon5 c.C867T p.P289P TGGACCCCCCAAT . PASS Atlas-SNP MRPS24 64951 hgsc.bcm.edu 37 7 43906544 43906544 + Silent SNP C C T rs9154 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 68.0 28.0 55.0 0.0 0.411765 0 C|0.953;T|0.047 0.047 strong MRPS24,colon,carcinoma,-1,2 MRPS24 9 2 NM_032014 exon4 c.G258A p.T86T CTCCACCGTTCGC . PASS Atlas-SNP CYP4F12 66002 hgsc.bcm.edu 37 19 15795690 15795690 + Missense_Mutation SNP G G C rs61729079 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 151.0 48.0 96.0 0.0 0.317881 0 G|0.981;C|0.019 0.019 strong . CYP4F12 89 . NM_023944 exon8 c.G983C p.G328A TGTTTGGAGGTGA . PASS Atlas-SNP RPGR 6103 hgsc.bcm.edu 37 X 38145841 38145841 + Missense_Mutation SNP C C T rs147388235 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 522.0 236.0 469.0 1.0 0.452107 0.0021322 C|0.985;T|0.015 0.015 strong . RPGR 175 . NM_001034853 exon15 c.G2411A p.R804K TCCCCTCTCCCCT . PASS Atlas-SNP POLRMT 5442 hgsc.bcm.edu 37 19 617804 617804 + Silent SNP G G A rs144281668 byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 139.0 58.0 128.0 0.0 0.417266 0 G|0.999;A|0.001 0.001 strong . POLRMT 91 . NM_005035 exon18 c.C3468T p.H1156H AGCTGCGTGAGTC . PASS Atlas-SNP SPTAN1 6709 hgsc.bcm.edu 37 9 131362361 131362361 + Silent SNP T T C rs945831 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 229.0 93.0 202.0 0.0 0.406114 0 T|0.963;C|0.037 0.037 strong . SPTAN1 266 . NM_003127 exon27 c.T3546C p.D1182D ATAGGATGAAACT . PASS Atlas-SNP RIF1 55183 hgsc.bcm.edu 37 2 152320501 152320501 + Silent SNP T T C rs7566841 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 80.0 50.0 113.0 0.0 0.625 0 T|0.981;C|0.019 0.019 strong . RIF1 244 . NM_018151 exon30 c.T4467C p.T1489T GAAGACTCTTGGG . PASS Atlas-SNP CNNM1 26507 hgsc.bcm.edu 37 10 101120671 101120671 + Silent SNP G G A rs61735150 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 46.0 75.0 0.0 0.494624 0 G|0.992;A|0.008 0.008 strong CNNM1_ENST00000356713,NS,carcinoma,0,2 CNNM1 101 2 NM_020348 exon3 c.G1797A p.T599T GGACACGGAGATG . PASS Atlas-SNP MESP2 145873 hgsc.bcm.edu 37 15 90320000 90320000 + Missense_Mutation SNP G G A rs28462216 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 42.0 42.0 36.0 0.0 1 0 G|0.940;A|0.060 0.060 strong . MESP2 20 . NM_001039958 exon1 c.G412A p.V138M TCGGCCGTGCTGG . PASS Atlas-SNP KIAA0947 23379 hgsc.bcm.edu 37 5 5464237 5464237 + Missense_Mutation SNP A A C rs10065646 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 43.0 23.0 43.0 0.0 0.534884 0 A|0.932;C|0.068 0.068 strong . KIAA0947 301 . NM_015325 exon13 c.A4790C p.Q1597P AAACTCAAAGAAG . PASS Atlas-SNP SIPA1L3 23094 hgsc.bcm.edu 37 19 38610394 38610394 + Missense_Mutation SNP G G A rs140119542 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 66.0 33.0 61.0 0.0 0.5 0 G|1.000;A|0.000 0.000 strong SIPA1L3,caecum,carcinoma,0,1 SIPA1L3 150 1 NM_015073 exon9 c.G2740A p.G914R TACTGCGGGGATG . PASS Atlas-SNP ACER2 340485 hgsc.bcm.edu 37 9 19450598 19450598 + Silent SNP G G C rs7855739 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 330.0 328.0 282.0 1.0 0.993939 0.0035461 G|0.933;C|0.067 0.067 strong . ACER2 24 . NM_001010887 exon6 c.G792C p.L264L CCTCCTGTGTGCC . PASS Atlas-SNP PDIA4 9601 hgsc.bcm.edu 37 7 148701245 148701245 + Missense_Mutation SNP C C T rs61739277 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 175.0 78.0 208.0 0.0 0.445714 0 C|0.992;T|0.008 0.008 strong . PDIA4 57 . NM_004911 exon10 c.G1579A p.V527I CCTTGACGGGTCC . PASS Atlas-SNP KRT72 140807 hgsc.bcm.edu 37 12 52995127 52995127 + Missense_Mutation SNP C C T rs61747194 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 46.0 21.0 45.0 0.0 0.456522 0 C|0.987;T|0.013 0.013 strong . KRT72 70 . NM_001146225 exon1 c.G110A p.R37Q TTGACCCGGGCCC . PASS Atlas-SNP USP19 10869 hgsc.bcm.edu 37 3 49149020 49149020 + Missense_Mutation SNP T T C rs13321689 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 64.0 39.0 65.0 0.0 0.609375 0 T|0.972;C|0.028 0.028 strong . USP19 158 . NM_001199161 exon21 c.A3130G p.T1044A CACTGGTGCTGGG . PASS Atlas-SNP ZBTB37 84614 hgsc.bcm.edu 37 1 173839435 173839435 + Silent SNP G G A rs9425761 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 192.0 89.0 170.0 0.0 0.463542 0 G|0.875;A|0.125 0.125 strong . ZBTB37 38 . NM_032522 exon3 c.G72A p.Q24Q AAACCAGTTGCGC . PASS Atlas-SNP SRGAP2D 100996712 hgsc.bcm.edu 37 1 206574931 206574931 + Missense_Mutation SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 1642.0 188.0 1644.0 1.0 0.114495 0.000608273 . . none SRGAP2_ENST00000414007,NS,carcinoma,0,3 . . 3 NM_001271887 exon4 c.G521A p.R174H AGCAGCGCCTCAT . scavenged Atlas-SNP SPAG17 200162 hgsc.bcm.edu 37 1 118512719 118512719 + Missense_Mutation SNP G G T rs140504036 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 49.0 49.0 59.0 0.0 1 0 G|0.999;T|0.001 0.001 strong . SPAG17 263 . NM_206996 exon46 c.C6347A p.P2116Q CTGGGTGGGGGCT . PASS Atlas-SNP NAT10 55226 hgsc.bcm.edu 37 11 34133767 34133767 + Silent SNP G G A rs36003235 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 163.0 77.0 168.0 0.0 0.472393 0 G|0.996;A|0.004 0.004 strong . NAT10 78 . NM_024662 exon4 c.G369A p.L123L TGTGCTGCAGGTG . PASS Atlas-SNP TMEM102 284114 hgsc.bcm.edu 37 17 7339903 7339903 + Missense_Mutation SNP C C G rs76805816 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 131.0 62.0 89.0 0.0 0.473282 0 C|0.967;G|0.033 0.033 strong . TMEM102 11 . NM_178518 exon3 c.C605G p.A202G ACGAGGCGCCGGT . PASS Atlas-SNP MAP3K19 80122 hgsc.bcm.edu 37 2 135745648 135745648 + Missense_Mutation SNP G G A rs113683052 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 106.0 45.0 119.0 0.0 0.424528 0 G|0.989;A|0.011 0.011 strong . . . . NM_025052 exon7 c.C794T p.P265L GCTCCCGGAGGCT . PASS Atlas-SNP CLDND2 125875 hgsc.bcm.edu 37 19 51870771 51870771 + Missense_Mutation SNP C C A rs61737052 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 192.0 101.0 179.0 0.0 0.526042 0 C|0.949;A|0.051 0.051 strong . CLDND2 11 . NM_152353 exon3 c.G370T p.V124F AGAAGACGTTGTT . PASS Atlas-SNP OR51L1 119682 hgsc.bcm.edu 37 11 5020542 5020542 + Silent SNP A A T rs368384016 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 423.0 203.0 374.0 0.0 0.479905 0 . . weak . OR51L1 60 . NM_001004755 exon1 c.A330T p.T110T ATTCACATTCCTG . PASS Atlas-SNP INCENP 3619 hgsc.bcm.edu 37 11 61897542 61897542 + Silent SNP G G A rs145875137 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 40.0 20.0 42.0 0.0 0.5 0 G|0.996;A|0.004 0.004 strong . INCENP 122 . NM_001040694 exon4 c.G543A p.Q181Q TGAGCAGCATGTC . PASS Atlas-SNP MS4A6A 64231 hgsc.bcm.edu 37 11 59943082 59943082 + Silent SNP C C T rs138028890 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 110.0 64.0 94.0 0.0 0.581818 0 C|0.997;T|0.003 0.003 strong . MS4A6A 85 . NM_001247999 exon6 c.G426A p.V142V GCTATGCACCTGA . PASS Atlas-SNP TAAR1 134864 hgsc.bcm.edu 37 6 132967032 132967032 + Silent SNP T T G rs73775159 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 272.0 144.0 221.0 0.0 0.529412 0 T|0.989;G|0.011 0.011 strong . TAAR1 41 . NM_138327 exon1 c.A111C p.T37T AACGAGTGTGGTC . PASS Atlas-SNP CCDC168 643677 hgsc.bcm.edu 37 13 103398300 103398300 + Missense_Mutation SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 227.0 27.0 207.0 0.0 0.118943 0 . . none . . . . NM_001146197 exon4 c.C4747T p.L1583F TGACAAGCTCATT . PASS Atlas-SNP MYCBPAP 84073 hgsc.bcm.edu 37 17 48594973 48594973 + Missense_Mutation SNP G G A rs75706684 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 196.0 100.0 169.0 0.0 0.510204 0 G|0.970;A|0.030 0.030 strong MYCBPAP,NS,NS,0,1 MYCBPAP 135 1 NM_032133 exon4 c.G511A p.D171N AGCTTCGATGGCA . PASS Atlas-SNP PPIG 9360 hgsc.bcm.edu 37 2 170493784 170493784 + Silent SNP T T C rs114584157 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 123.0 44.0 137.0 0.0 0.357724 0 T|0.997;C|0.003 0.003 strong . PPIG 100 . NM_004792 exon14 c.T2016C p.N672N TCATAATAGCTCA . PASS Atlas-SNP CHRD 8646 hgsc.bcm.edu 37 3 184099050 184099050 + Missense_Mutation SNP C C T rs34095724 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 259.0 135.0 232.0 0.0 0.521236 0 C|0.949;T|0.051 0.051 strong . CHRD 149 . NM_003741 exon3 c.C280T p.P94S AGGGGCCCTGGCA . PASS Atlas-SNP KRTAP22-2 100288287 hgsc.bcm.edu 37 21 31962649 31962649 + Silent SNP G G A rs78392137 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 149.0 79.0 123.0 0.0 0.530201 0 G|0.990;A|0.010 0.010 strong . KRTAP22-2 6 . NM_001164434 exon1 c.C45T p.C15C ATAGCTGCAACCA . PASS Atlas-SNP FAM211B 388886 hgsc.bcm.edu 37 22 24984261 24984261 + Nonsense_Mutation SNP G G A rs201281973 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 201.0 106.0 195.0 0.0 0.527363 0 G|1.000;A|0.000 0.000 strong C22orf36,colon,carcinoma,0,1 . . 1 NM_207644 exon3 c.C343T p.R115X GCTGTCGGCAGAT . PASS Atlas-SNP DEF8 54849 hgsc.bcm.edu 37 16 90032296 90032296 + Silent SNP T T G rs11861894 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 109.0 63.0 122.0 0.0 0.577982 0 T|0.861;G|0.139 0.139 strong . DEF8 28 . NM_207514 exon13 c.T1464G p.T488T CACCACTTGTCCC . PASS Atlas-SNP IFNA14 3448 hgsc.bcm.edu 37 9 21239578 21239578 + Silent SNP C C T rs141933410 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 429.0 43.0 360.0 0.0 0.100233 0 C|0.999;G|0.000;T|0.001 0.001 strong . IFNA14 29 . NM_002172 exon1 c.G357A p.L119L GGCTTCCAGGTCA . PASS Atlas-SNP BIVM-ERCC5 0 hgsc.bcm.edu 37 13 103518036 103518036 + Silent SNP A A G rs55686372 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 63.0 29.0 61.0 0.0 0.460317 0 A|0.995;G|0.005 0.005 strong . . . . NM_001204425 exon17 c.A3336G p.Q1112Q AGTGCAAAGTGTG . PASS Atlas-SNP MAN2B2 23324 hgsc.bcm.edu 37 4 6621677 6621677 + Silent SNP C C G rs147252633 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 181.0 88.0 204.0 0.0 0.486188 0 C|0.994;G|0.006 0.006 strong . MAN2B2 80 . NM_015274 exon18 c.C2838G p.S946S GGGGTCCGTGGTG . PASS Atlas-SNP ZNF469 84627 hgsc.bcm.edu 37 16 88500822 88500822 + Missense_Mutation SNP C C G rs77490207 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 60.0 31.0 62.0 0.0 0.516667 0 C|0.988;G|0.012 0.012 strong . ZNF469 121 . NM_001127464 exon2 c.C6860G p.P2287R CCCCGCCCCACAC . PASS Atlas-SNP LIFR 3977 hgsc.bcm.edu 37 5 38510768 38510768 + Silent SNP T T C rs141925289 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 123.0 54.0 118.0 0.0 0.439024 0 T|0.997;C|0.003 0.003 strong . LIFR 348 . NM_002310 exon7 c.A789G p.V263V TGAGCCTACAAGT . PASS Atlas-SNP RAB11FIP1 80223 hgsc.bcm.edu 37 8 37730017 37730017 + Missense_Mutation SNP G G A rs16887092 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 113.0 113.0 114.0 0.0 1 0 G|0.890;A|0.110 0.110 strong . RAB11FIP1 105 . NM_001002814 exon4 c.C2303T p.A768V TCTTCAGCTGCAT . PASS Atlas-SNP TRAF3IP1 26146 hgsc.bcm.edu 37 2 239237783 239237783 + Missense_Mutation SNP C C T rs34723381 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 132.0 55.0 142.0 0.0 0.416667 0 C|0.950;T|0.050 0.050 strong . TRAF3IP1 58 . NM_015650 exon5 c.C715T p.R239W AGGGAGCGGGACA . PASS Atlas-SNP THBD 7056 hgsc.bcm.edu 37 20 23029971 23029971 + Silent SNP G G T rs201268201 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 40.0 30.0 32.0 0.0 0.75 0 G|0.999;T|0.001 0.001 strong . THBD 26 . NM_000361 exon1 c.C171A p.G57G TAGGTGGCCCCGC . PASS Atlas-SNP RABGAP1L 9910 hgsc.bcm.edu 37 1 174219724 174219724 + Missense_Mutation SNP A A G rs7339904 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 104.0 56.0 97.0 0.0 0.538462 0 A|0.914;G|0.086 0.086 strong . RABGAP1L 103 . NM_014857 exon6 c.A829G p.S277G ACCTTCAGTGTCT . PASS Atlas-SNP RASA1 5921 hgsc.bcm.edu 37 5 86681125 86681125 + Silent SNP A A T rs137898246 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 122.0 68.0 115.0 0.0 0.557377 0 A|1.000;G|0.000;T|0.000 0.000 strong . RASA1 213 . NM_002890 exon22 c.A2766T p.P922P TTCTCCATCTCCT . PASS Atlas-SNP PRPH2 5961 hgsc.bcm.edu 37 6 42666244 42666244 + Missense_Mutation SNP A A C rs140406696 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 82.0 40.0 76.0 0.0 0.487805 0 A|1.000;C|0.000 0.000 weak . PRPH2 47 . NM_000322 exon3 c.T830G p.V277G ATGGTCACCTGGT . PASS Atlas-SNP KIAA1683 80726 hgsc.bcm.edu 37 19 18376509 18376509 + Missense_Mutation SNP G G A rs16982285 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 149.0 66.0 152.0 0.0 0.442953 0 G|0.854;A|0.146 0.146 strong KIAA1683_ENST00000392413,colon,carcinoma,0,2 KIAA1683 190 2 NM_001145304 exon3 c.C1841T p.A614V GTTTTCGCCTGTT . PASS Atlas-SNP ZBTB9 221504 hgsc.bcm.edu 37 6 33423698 33423698 + Missense_Mutation SNP C C G rs9469425 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 58.0 35.0 82.0 0.0 0.603448 0 C|0.921;G|0.079 0.079 strong . ZBTB9 23 . NM_152735 exon2 c.C821G p.A274G TTCCTGCCCCTCC . PASS Atlas-SNP SPP1 6696 hgsc.bcm.edu 37 4 88903774 88903774 + Missense_Mutation SNP G G A rs7435825 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 182.0 85.0 186.0 0.0 0.467033 0 G|0.958;A|0.042 0.042 strong . SPP1 35 . NM_001251830 exon8 c.G710A p.S237N AGGACAGTTATGA . PASS Atlas-SNP LLGL2 3993 hgsc.bcm.edu 37 17 73566469 73566469 + Missense_Mutation SNP C C T rs150412778 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 104.0 58.0 102.0 0.0 0.557692 0 C|0.989;T|0.011 0.011 strong . LLGL2 155 . NM_004524 exon16 c.C1915T p.P639S GAGGGCCCACTCT . PASS Atlas-SNP MICA 100507436 hgsc.bcm.edu 37 6 31379802 31379802 + Missense_Mutation SNP A A G rs41546915 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 79.0 39.0 129.0 0.0 0.493671 0 . . weak . MICA 21 . NM_001177519 exon4 c.A692G p.Y231C GCTTCTATCCCCG . PASS Atlas-SNP TUBGCP6 85378 hgsc.bcm.edu 37 22 50667859 50667859 + Silent SNP A A G rs6010211 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 208.0 86.0 158.0 0.0 0.413462 0 A|0.936;G|0.064 0.064 strong . TUBGCP6 132 . NM_020461 exon4 c.T1264C p.L422L TGTACAAAGAGTC . PASS Atlas-SNP PI16 221476 hgsc.bcm.edu 37 6 36930795 36930795 + Missense_Mutation SNP A A T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 130.0 54.0 93.0 0.0 0.415385 0 . . none . PI16 50 . NM_001199159 exon6 c.A677T p.D226V CATCAGACTCTAG . PASS Atlas-SNP SIGLEC12 89858 hgsc.bcm.edu 37 19 52000616 52000616 + Missense_Mutation SNP T T C rs28572419 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 212.0 120.0 184.0 1.0 0.566038 0.00543478 T|0.968;C|0.032 0.032 strong . SIGLEC12 243 . NM_053003 exon6 c.A1489G p.I497V AGATGATGCAGAA . PASS Atlas-SNP UTP20 27340 hgsc.bcm.edu 37 12 101679569 101679569 + Missense_Mutation SNP A A G rs140064475 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 44.0 25.0 69.0 0.0 0.568182 0 A|0.998;G|0.002 0.002 strong . UTP20 222 . NM_014503 exon4 c.A236G p.N79S CATTCAATCAGTT . PASS Atlas-SNP KEL 3792 hgsc.bcm.edu 37 7 142640004 142640004 + Silent SNP T T C rs8176039 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 129.0 64.0 113.0 0.0 0.496124 0 A|0.102;C|0.060 0.060 strong . KEL 128 . NM_000420 exon17 c.A1899G p.L633L ATTCTCTAAGAAT . PASS Atlas-SNP WDR62 284403 hgsc.bcm.edu 37 19 36583692 36583692 + Missense_Mutation SNP A A G rs61747277 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 170.0 76.0 151.0 0.0 0.447059 0 A|0.982;G|0.018 0.018 strong . WDR62 102 . NM_173636 exon19 c.A2312G p.K771R ATGACAAGAAGCG . PASS Atlas-SNP FLG 2312 hgsc.bcm.edu 37 1 152282899 152282899 + Missense_Mutation SNP G G T rs3120648 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 424.0 423.0 461.0 0.0 0.997642 0 G|0.915;T|0.085 0.085 strong . FLG 900 . NM_002016 exon3 c.C4463A p.T1488N CGAATGGTGTCCT . PASS Atlas-SNP CCDC157 550631 hgsc.bcm.edu 37 22 30772567 30772567 + Missense_Mutation SNP T T C rs202178544 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 125.0 15.0 109.0 0.0 0.12 0 . . weak CCDC157_ENST00000405659,bladder,carcinoma,0,4 CCDC157 86 4 NM_001017437 exon12 c.T2092C p.S698P TCCCCATCTCGGC . PASS Atlas-SNP OBSCN 84033 hgsc.bcm.edu 37 1 228399628 228399628 + Silent SNP G G A rs114375717 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 71.0 42.0 62.0 0.0 0.591549 0 G|0.992;A|0.008 0.008 strong . OBSCN 2142 . NM_001271223 exon2 c.G144A p.Q48Q CCAGCAGCCGGTG . PASS Atlas-SNP URB1 9875 hgsc.bcm.edu 37 21 33755787 33755787 + Missense_Mutation SNP G G A rs148857803 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 68.0 27.0 70.0 0.0 0.397059 0 G|0.998;A|0.002 0.002 strong . URB1 176 . NM_014825 exon4 c.C511T p.H171Y CAAAATGGCTGCA . PASS Atlas-SNP MCM8 84515 hgsc.bcm.edu 37 20 5974265 5974265 + Missense_Mutation SNP A A G rs16991638 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 48.0 17.0 46.0 0.0 0.354167 0 A|0.934;G|0.066 0.066 strong . MCM8 125 . NM_032485 exon18 c.A2354G p.N785S TCAACAACGTTGC . PASS Atlas-SNP POLR1A 25885 hgsc.bcm.edu 37 2 86305404 86305404 + Missense_Mutation SNP T T C rs35239368 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 128.0 64.0 111.0 0.0 0.5 0 T|0.930;C|0.070 0.070 strong . POLR1A 137 . NM_015425 exon10 c.A1090G p.K364E AGTCTTTTTCCTG . PASS Atlas-SNP RBM10 8241 hgsc.bcm.edu 37 X 47041414 47041414 + Silent SNP C C T rs112102343 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 144.0 73.0 111.0 0.0 0.506944 0 C|0.986;T|0.014 0.014 strong . RBM10 117 . NM_001204468 exon16 c.C1953T p.T651T CCAGACCGGCCTC . PASS Atlas-SNP HS3ST3B1 9953 hgsc.bcm.edu 37 17 14248345 14248345 + Silent SNP G G A rs77608217 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 290.0 148.0 241.0 0.0 0.510345 0 G|0.995;A|0.005 0.005 strong . HS3ST3B1 19 . NM_006041 exon2 c.G555A p.R185R TCTCAGGGACCTG . PASS Atlas-SNP C2orf54 79919 hgsc.bcm.edu 37 2 241835110 241835110 + Missense_Mutation SNP G G A rs146162100 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 142.0 68.0 143.0 0.0 0.478873 0 G|0.990;A|0.010 0.010 strong . C2orf54 14 . NM_001085437 exon1 c.C305T p.P102L TCCTCCGGCTGGG . PASS Atlas-SNP HBS1L 10767 hgsc.bcm.edu 37 6 135358398 135358398 + Silent SNP G G A rs116294454 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 98.0 48.0 77.0 0.0 0.489796 0 G|0.978;A|0.022 0.022 strong . HBS1L 75 . NM_001145207 exon5 c.C1197T p.N399N TGACTGGTTACAA . PASS Atlas-SNP ZNF319 57567 hgsc.bcm.edu 37 16 58031996 58031996 + Silent SNP G G A rs115738968 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 34.0 18.0 49.0 0.0 0.529412 0 G|0.992;A|0.008 0.008 strong . ZNF319 42 . NM_020807 exon2 c.C174T p.P58P CAGGCCGGGGTCT . PASS Atlas-SNP LZTS2 84445 hgsc.bcm.edu 37 10 102762439 102762439 + Silent SNP C C T rs142122181 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 122.0 70.0 108.0 0.0 0.57377 0 C|0.998;T|0.002 0.002 strong . LZTS2 57 . NM_032429 exon2 c.C144T p.H48H CCACCACGGCCCT . PASS Atlas-SNP OR6P1 128366 hgsc.bcm.edu 37 1 158532908 158532908 + Missense_Mutation SNP T T C rs114056876 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 90.0 49.0 92.0 0.0 0.544444 0 T|0.988;C|0.012 0.012 strong . OR6P1 47 . NM_001160325 exon1 c.A487G p.I163V GGGAAATAAAAAG . PASS Atlas-SNP C1orf127 148345 hgsc.bcm.edu 37 1 11009679 11009679 + Splice_Site SNP G G A rs1281013 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 51.0 103.0 0.0 0.51 0 G|0.907;A|0.093 0.093 strong . C1orf127 134 . NM_001170754 exon12 c.1290+2C>T . AGACGTGCTTTGG . PASS Atlas-SNP PCDHA5 56143 hgsc.bcm.edu 37 5 140201418 140201418 + Missense_Mutation SNP C C T rs56285019 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 92.0 50.0 95.0 0.0 0.543478 0 C|0.952;T|0.048 0.048 strong . PCDHA5 361 . NM_018908 exon1 c.C58T p.L20F CTTCTCCTTGCCT . PASS Atlas-SNP ARMC5 79798 hgsc.bcm.edu 37 16 31477795 31477795 + Missense_Mutation SNP G G C rs115611533 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 50.0 26.0 35.0 0.0 0.52 0 G|0.992;C|0.008 0.008 strong . ARMC5 94 . NM_001105247 exon6 c.G2393C p.G798A CGCCTGGTGCAGC . PASS Atlas-SNP TMPRSS9 360200 hgsc.bcm.edu 37 19 2389793 2389793 + Missense_Mutation SNP A A G rs8100709 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 41.0 61.0 0.0 0.539474 0 A|0.948;G|0.052 0.052 strong . TMPRSS9 79 . NM_182973 exon1 c.A10G p.T4A GAGCCCACTGTGG . PASS Atlas-SNP LLGL2 3993 hgsc.bcm.edu 37 17 73559453 73559453 + Silent SNP C C T rs139362844 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 49.0 77.0 0.0 0.526882 0 C|0.996;T|0.004 0.004 strong . LLGL2 155 . NM_001015002 exon8 c.C735T p.L245L CCTGCTCGTCAGC . PASS Atlas-SNP NSUN5 55695 hgsc.bcm.edu 37 7 72717686 72717686 + Silent SNP C C T rs145622470 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 131.0 70.0 111.0 0.0 0.534351 0 C|0.993;T|0.007 0.007 strong . NSUN5 47 . NM_148956 exon9 c.G1197A p.P399P GGCACCCGGGAAC . PASS Atlas-SNP PUS10 150962 hgsc.bcm.edu 37 2 61188643 61188643 + Missense_Mutation SNP C C T rs113622721 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 235.0 112.0 211.0 0.0 0.476596 0 C|0.985;T|0.015 0.015 strong . PUS10 49 . NM_144709 exon10 c.G829A p.A277T GAACAGCGCATAC . PASS Atlas-SNP CRNN 49860 hgsc.bcm.edu 37 1 152382436 152382436 + Missense_Mutation SNP C C G rs6695830 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 341.0 340.0 361.0 0.0 0.997067 0 C|0.939;G|0.061 0.061 strong CRNN,NS,carcinoma,-2,1 CRNN 78 1 NM_016190 exon3 c.G1122C p.Q374H CTGTCCCTGTTCT . PASS Atlas-SNP RPP38 10557 hgsc.bcm.edu 37 10 15145917 15145917 + Missense_Mutation SNP A A C rs12249258 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 87.0 44.0 92.0 0.0 0.505747 0 A|0.946;C|0.054 0.054 strong . RPP38 26 . NM_001265601 exon2 c.A604C p.S202R GTCCCCAGTTTAA . PASS Atlas-SNP BPTF 2186 hgsc.bcm.edu 37 17 65919092 65919092 + Silent SNP G G A rs59088743 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 138.0 59.0 107.0 0.0 0.427536 0 G|0.981;A|0.019 0.019 strong . BPTF 415 . NM_004459 exon16 c.G6072A p.R2024R GATCAGGGCATTT . PASS Atlas-SNP GRM5 2915 hgsc.bcm.edu 37 11 88337922 88337922 + Missense_Mutation SNP G G A rs61741175 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 54.0 28.0 49.0 0.0 0.518519 0 G|0.972;A|0.028 0.028 strong GRM5_ENST00000418177,right_upper_lobe,carcinoma,+1,2 GRM5 414 2 NM_000842 exon5 c.C1358T p.T453M AGGATCGTATCTC . PASS Atlas-SNP DNAH10 196385 hgsc.bcm.edu 37 12 124354954 124354954 + Missense_Mutation SNP C C T rs7977449 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 79.0 34.0 99.0 0.0 0.43038 0 C|0.971;T|0.029 0.029 strong . DNAH10 888 . NM_207437 exon43 c.C7207T p.R2403W AACAAACGGAATC . PASS Atlas-SNP OR4A16 81327 hgsc.bcm.edu 37 11 55110989 55110989 + Missense_Mutation SNP C C G rs116541488 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 289.0 128.0 307.0 0.0 0.442907 0 C|0.988;G|0.012 0.012 strong . OR4A16 120 . NM_001005274 exon1 c.C313G p.L105V CACTTACTTGGTG . PASS Atlas-SNP DND1 373863 hgsc.bcm.edu 37 5 140051009 140051009 + Silent SNP G G A rs146252353 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 406.0 202.0 407.0 0.0 0.497537 0 G|0.994;A|0.006 0.006 strong . DND1 15 . NM_194249 exon4 c.C931T p.L311L CATCTAGGGTCAG . PASS Atlas-SNP BBS5 129880 hgsc.bcm.edu 37 2 170336102 170336102 + Silent SNP C C G rs10188609 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 81.0 33.0 104.0 0.0 0.407407 0 C|0.954;G|0.046 0.046 strong . BBS5 27 . NM_152384 exon1 c.C39G p.V13V GGATGTCCGTTTC . PASS Atlas-SNP ZNF668 79759 hgsc.bcm.edu 37 16 31073244 31073244 + Silent SNP C C A rs34831291 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 53.0 25.0 53.0 0.0 0.471698 0 C|0.990;A|0.010 0.010 strong . ZNF668 121 . NM_001172669 exon4 c.G1074T p.P358P CTTGAACGGCCGG . PASS Atlas-SNP SERPINA1 5265 hgsc.bcm.edu 37 14 94844975 94844975 + Silent SNP G G A rs9630 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 168.0 82.0 154.0 0.0 0.488095 0 G|0.989;A|0.011 0.011 strong . SERPINA1 51 . NM_001127701 exon7 c.C1068T p.A356A ATGCACGGCCTGG . PASS Atlas-SNP PNMAL1 55228 hgsc.bcm.edu 37 19 46973693 46973693 + Silent SNP C C T rs73552938 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 65.0 64.0 61.0 1.0 0.984615 0.0163934 C|0.977;T|0.023 0.023 strong PNMAL1_ENST00000438932,lower_third,carcinoma,-1,2 PNMAL1 87 2 NM_018215 exon2 c.G600A p.P200P AAGCCCCGGTTCT . scavenged Atlas-SNP PCDHA10 56139 hgsc.bcm.edu 37 5 140237826 140237826 + Silent SNP G G C rs180990865 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 234.0 108.0 235.0 0.0 0.461538 0 G|0.989;C|0.011 0.011 strong . PCDHA10 358 . NM_031859 exon1 c.G2193C p.G731G ATGTGGGCCGGTG . PASS Atlas-SNP PODN 127435 hgsc.bcm.edu 37 1 53544271 53544271 + Silent SNP G G C rs62000444 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 120.0 61.0 97.0 0.0 0.508333 0 G|0.992;C|0.008 0.008 strong . PODN 86 . NM_153703 exon8 c.G1233C p.T411T GCACACGGTGCAC . PASS Atlas-SNP SULT6B1 391365 hgsc.bcm.edu 37 2 37406645 37406645 + Missense_Mutation SNP T T C rs61737618 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 60.0 33.0 60.0 0.0 0.55 0 T|0.997;C|0.003 0.003 strong . SULT6B1 46 . NM_001032377 exon4 c.A371G p.Y124C GAGCCATAGCTTG . PASS Atlas-SNP NAF1 92345 hgsc.bcm.edu 37 4 164087753 164087753 + Missense_Mutation SNP G G A rs12331663 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 90.0 49.0 94.0 0.0 0.544444 0 G|0.963;A|0.037 0.037 strong . NAF1 69 . NM_138386 exon1 c.C127T p.P43S GTAGCGGCGGCTG . PASS Atlas-SNP PNMAL1 55228 hgsc.bcm.edu 37 19 46973315 46973315 + Silent SNP G G A rs61628326 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 97.0 54.0 94.0 0.0 0.556701 0 G|0.982;A|0.018 0.018 strong . PNMAL1 87 . NM_018215 exon2 c.C978T p.A326A GCTCTCGGCTTCT . PASS Atlas-SNP PHF10 55274 hgsc.bcm.edu 37 6 170105725 170105725 + Silent SNP T T C rs4286788 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 140.0 63.0 166.0 0.0 0.45 0 T|0.995;C|0.005 0.005 strong . PHF10 76 . NM_018288 exon10 c.A1209G p.Q403Q CTCACATTGGGAG . PASS Atlas-SNP LPA 4018 hgsc.bcm.edu 37 6 161026103 161026103 + Missense_Mutation SNP G G A rs189364869 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 73.0 30.0 49.0 0.0 0.410959 0 G|0.999;A|0.001 0.001 strong . LPA 237 . NM_005577 exon19 c.C2920T p.R974W GGGTCCGACTATG . PASS Atlas-SNP MED12L 116931 hgsc.bcm.edu 37 3 150874033 150874033 + Silent SNP T T C rs61734152 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 75.0 27.0 66.0 0.0 0.36 0 T|0.983;C|0.017 0.017 strong MED12L,NS,carcinoma,+2,1 MED12L 271 1 NM_053002 exon5 c.T642C p.D214D GGGCGATGGCCCT . PASS Atlas-SNP KCNT2 343450 hgsc.bcm.edu 37 1 196303117 196303117 + Silent SNP C C T rs116401401 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 147.0 72.0 122.0 0.0 0.489796 0 C|0.995;T|0.005 0.005 strong . KCNT2 243 . NM_198503 exon17 c.G1857A p.E619E GCTTCCCTCTGTA . PASS Atlas-SNP CABYR 26256 hgsc.bcm.edu 37 18 21736486 21736486 + Nonsense_Mutation SNP C C T rs35554127 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 70.0 35.0 62.0 0.0 0.5 0 C|0.986;T|0.014 0.014 strong . CABYR 51 . NM_012189 exon4 c.C1021T p.R341X TCACCACGAGTTA . PASS Atlas-SNP MOB3A 126308 hgsc.bcm.edu 37 19 2078290 2078290 + Silent SNP G G A rs34483500 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 165.0 86.0 152.0 0.0 0.521212 0 G|0.994;A|0.006 0.006 strong MOBKL2A,colon,carcinoma,-2,1 . . 1 NM_130807 exon3 c.C270T p.V90V CGACATGACGGGG . PASS Atlas-SNP MYRIP 25924 hgsc.bcm.edu 37 3 40223771 40223771 + Missense_Mutation SNP G G A rs59923220 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 140.0 62.0 124.0 0.0 0.442857 0 G|0.927;A|0.073 0.073 strong . MYRIP 98 . NM_015460 exon9 c.G934A p.A312T GTGGAGGCTCCAT . PASS Atlas-SNP FMO2 2327 hgsc.bcm.edu 37 1 171176879 171176879 + Silent SNP G G A rs6671692 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 196.0 86.0 206.0 0.0 0.438776 0 G|0.953;A|0.047 0.047 strong . FMO2 66 . NM_001460 exon8 c.G1206A p.E402E CTCAGAGAGAACT . PASS Atlas-SNP POMZP3 22932 hgsc.bcm.edu 37 7 76240877 76240877 + Missense_Mutation SNP A A T rs73365247 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 284.0 110.0 226.0 0.0 0.387324 0 A|0.957;T|0.043 0.043 strong . POMZP3 19 . NM_012230 exon6 c.T469A p.C157S ATTGACAGATGTC . PASS Atlas-SNP SDK1 221935 hgsc.bcm.edu 37 7 3991479 3991479 + Silent SNP A A G rs6961589 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 38.0 15.0 25.0 0.0 0.394737 0 A|0.926;G|0.074 0.074 strong . SDK1 361 . NM_152744 exon7 c.A1077G p.P359P CGGGCCATACGTC . PASS Atlas-SNP SBSN 374897 hgsc.bcm.edu 37 19 36018435 36018435 + Missense_Mutation SNP G G A rs147913080 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 5.0 5.0 6.0 0.0 1 0 G|0.977;A|0.023 0.023 strong . SBSN 58 . NM_001166034 exon1 c.C749T p.A250V TGCCCCGCAGCAT . PASS Atlas-SNP COL20A1 57642 hgsc.bcm.edu 37 20 61959758 61959758 + Missense_Mutation SNP C C T rs115749294 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 131.0 75.0 88.0 0.0 0.572519 0 C|0.995;T|0.005 0.005 strong . COL20A1 137 . NM_020882 exon34 c.C3689T p.P1230L TGGAGCCGGGCAC . PASS Atlas-SNP DSG1 1828 hgsc.bcm.edu 37 18 28923906 28923906 + Missense_Mutation SNP A A G rs116081362 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 161.0 73.0 145.0 0.0 0.453416 0 A|0.967;G|0.033 0.033 strong . DSG1 176 . NM_001942 exon13 c.A1839G p.I613M TGTCATACCACAA . PASS Atlas-SNP UNC13B 10497 hgsc.bcm.edu 37 9 35398900 35398900 + Missense_Mutation SNP G G T rs12339582 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 200.0 88.0 186.0 0.0 0.44 0 G|0.960;T|0.040 0.040 strong . UNC13B 153 . NM_006377 exon32 c.G3696T p.E1232D TGATGAGTGTGTT . PASS Atlas-SNP LRP1B 53353 hgsc.bcm.edu 37 2 141274456 141274456 + Splice_Site SNP A A G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 66.0 12.0 80.0 0.0 0.181818 0 . . none . LRP1B 1315 . NM_018557 exon51 c.8149+2T>C . TGTCTCACCACAG . PASS Atlas-SNP MUC2 4583 hgsc.bcm.edu 37 11 1093362 1093362 + Silent SNP C C G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 132.0 8.0 117.0 0.0 0.0606061 0 . . none . MUC2 614 . NM_002457 exon30 c.C5181G p.T1727T CACCACCACTACG . PASS Atlas-SNP C14orf80 283643 hgsc.bcm.edu 37 14 105958010 105958010 + Missense_Mutation SNP G G T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 154.0 77.0 147.0 0.0 0.5 0 . . none . C14orf80 19 . NM_001134876 exon2 c.G199T p.G67C CCTGCGGGCAACG . PASS Atlas-SNP HIST1H3B 8358 hgsc.bcm.edu 37 6 26031962 26031962 + Silent SNP G G A rs34966100 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 141.0 59.0 113.0 0.0 0.41844 0 G|0.966;A|0.034 0.034 strong . HIST1H3B 59 . NM_003537 exon1 c.C327T p.N109N GCAAAGGTTTGTG . PASS Atlas-SNP YTHDF1 54915 hgsc.bcm.edu 37 20 61834169 61834169 + Missense_Mutation SNP G G A rs34379989 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 148.0 66.0 140.0 0.0 0.445946 0 G|0.991;A|0.009 0.009 strong . YTHDF1 66 . NM_017798 exon4 c.C1123T p.H375Y AGCTGTGAGCAGC . PASS Atlas-SNP CDC14A 8556 hgsc.bcm.edu 37 1 100933576 100933576 + Silent SNP T T C rs17122597 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 129.0 67.0 109.0 0.0 0.51938 0 T|0.931;C|0.069 0.069 strong . CDC14A 65 . NM_033313 exon10 c.T903C p.H301H TACACATGCTGAA . PASS Atlas-SNP CCDC168 643677 hgsc.bcm.edu 37 13 103385309 103385309 + Missense_Mutation SNP A A G rs80279368 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 261.0 141.0 208.0 0.0 0.54023 0 A|0.965;G|0.035 0.035 strong . . . . NM_001146197 exon4 c.T17738C p.V5913A TCCAGAACACCTT . PASS Atlas-SNP WDR72 256764 hgsc.bcm.edu 37 15 53997415 53997415 + Missense_Mutation SNP G G T rs142505794 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 38.0 23.0 34.0 0.0 0.605263 0 G|1.000;T|0.000 0.000 weak . WDR72 177 . NM_182758 exon11 c.C1118A p.A373D CAGGTGGCAGTTA . PASS Atlas-SNP LAMA4 3910 hgsc.bcm.edu 37 6 112513025 112513025 + Silent SNP G G A rs61742228 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 51.0 97.0 0.0 0.51 0 G|0.985;A|0.015 0.015 strong . LAMA4 227 . NM_001105206 exon6 c.C531T p.P177P GAGTAAGGGGTTT . PASS Atlas-SNP LCE2B 26239 hgsc.bcm.edu 37 1 152659392 152659392 + Missense_Mutation SNP C C T rs61730791 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 240.0 124.0 237.0 0.0 0.516667 0 C|0.986;T|0.014 0.014 strong . LCE2B 40 . NM_014357 exon2 c.C73T p.P25S AAATGTCCACCTA . PASS Atlas-SNP PROP1 5626 hgsc.bcm.edu 37 5 177421275 177421275 + Silent SNP C C T rs2233784 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 131.0 68.0 107.0 0.0 0.519084 0 C|0.969;T|0.031 0.031 strong PROP1,NS,carcinoma,-2,1 PROP1 28 1 NM_006261 exon2 c.G174A p.P58P TCCTTGCGGGGAG . PASS Atlas-SNP FBXW9 84261 hgsc.bcm.edu 37 19 12807066 12807066 + Silent SNP G G C rs6511832 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 50.0 21.0 38.0 0.0 0.42 0 G|0.902;C|0.098 0.098 strong . FBXW9 30 . NM_032301 exon1 c.C330G p.L110L GTCGCGGAGCGCG . PASS Atlas-SNP PPFIA1 8500 hgsc.bcm.edu 37 11 70200516 70200516 + Missense_Mutation SNP C C T rs139448605 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 63.0 26.0 51.0 0.0 0.412698 0 C|0.992;T|0.008 0.008 strong . PPFIA1 114 . NM_177423 exon17 c.C2273T p.A758V AAGGGGCGCTGCA . PASS Atlas-SNP PSKH2 85481 hgsc.bcm.edu 37 8 87076651 87076651 + Missense_Mutation SNP T T C rs16879427 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 142.0 70.0 110.0 0.0 0.492958 0 T|0.874;C|0.126 0.126 strong PSKH2,right_upper_lobe,carcinoma,-1,1 PSKH2 79 1 NM_033126 exon2 c.A395G p.Q132R TAAACTTGATCCT . PASS Atlas-SNP WDR88 126248 hgsc.bcm.edu 37 19 33666345 33666345 + Missense_Mutation SNP C C A rs77589178 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 224.0 103.0 257.0 1.0 0.459821 0.00389105 C|0.975;A|0.025 0.025 strong . WDR88 50 . NM_173479 exon11 c.C1286A p.T429N GTGACACCTCTTC . PASS Atlas-SNP AHNAK2 113146 hgsc.bcm.edu 37 14 105418276 105418276 + Missense_Mutation SNP G G A rs35374867 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 303.0 140.0 285.0 0.0 0.462046 0 G|0.978;A|0.022 0.022 strong . AHNAK2 719 . NM_138420 exon7 c.C3512T p.P1171L AACGATGGCATCT . PASS Atlas-SNP MLXIPL 51085 hgsc.bcm.edu 37 7 73020328 73020328 + Missense_Mutation SNP G G T rs34922362 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 33.0 73.0 0.0 0.434211 0 G|0.978;T|0.022 0.022 strong . MLXIPL 54 . NM_032954 exon6 c.C732A p.D244E ATTGAGGTCCAGG . PASS Atlas-SNP SNX7 51375 hgsc.bcm.edu 37 1 99150590 99150590 + Missense_Mutation SNP A A G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 184.0 95.0 223.0 0.0 0.516304 0 . . none . SNX7 76 . NM_015976 exon2 c.A330G p.I110M TACAATAGAAACT . PASS Atlas-SNP CTRC 11330 hgsc.bcm.edu 37 1 15767036 15767036 + Silent SNP C C A rs497078 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 108.0 40.0 105.0 0.0 0.37037 0 A|0.000;C|0.887;T|0.113 0.000 strong . CTRC 28 . NM_007272 exon3 c.C180A p.G60G GTGTGGCGGGACT . PASS Atlas-SNP FH 2271 hgsc.bcm.edu 37 1 241663825 241663825 + Silent SNP G G A rs2070080 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 142.0 68.0 149.0 0.0 0.478873 0 G|0.972;A|0.028 0.028 strong FH,NS,carcinoma,0,1 FH 64 1 NM_000143 exon9 c.C1302T p.C434C CACCACGCAGTTT . PASS Atlas-SNP TAS1R2 80834 hgsc.bcm.edu 37 1 19166100 19166100 + Missense_Mutation SNP C C T rs9988418 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 186.0 83.0 134.0 0.0 0.446237 0 C|0.950;T|0.050 0.050 strong . TAS1R2 134 . NM_152232 exon6 c.G2513A p.R838K TAGTCCCTCCTCA . PASS Atlas-SNP RFX8 731220 hgsc.bcm.edu 37 2 102031324 102031324 + Missense_Mutation SNP T T G rs6753088 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 94.0 41.0 83.0 0.0 0.43617 0 T|0.991;G|0.009 0.009 strong . RFX8 16 . NM_001145664 exon7 c.A553C p.M185L TAGCCATGTTGGA . PASS Atlas-SNP COG5 10466 hgsc.bcm.edu 37 7 106938740 106938740 + Missense_Mutation SNP C C T rs35258567 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 125.0 58.0 104.0 0.0 0.464 0 C|0.999;T|0.001 0.001 strong COG5,colon,carcinoma,-1,1 COG5 78 1 NM_006348 exon12 c.G1253A p.R418H TAAAGACGTAATA . PASS Atlas-SNP POT1 25913 hgsc.bcm.edu 37 7 124464037 124464037 + Silent SNP T T G rs17147565 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 194.0 102.0 200.0 0.0 0.525773 0 T|0.970;G|0.030 0.030 strong POT1_ENST00000357628,NS,carcinoma,-2,2 POT1 186 2 NM_015450 exon19 c.A1884C p.T628T TGCAACTGTGGTG . PASS Atlas-SNP TGM3 7053 hgsc.bcm.edu 37 20 2291722 2291722 + Missense_Mutation SNP A A C rs6048066 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 169.0 93.0 169.0 0.0 0.550296 0 A|0.871;C|0.129 0.129 strong . TGM3 105 . NM_003245 exon4 c.A487C p.I163L GGCATCATCTTTG . PASS Atlas-SNP C3orf22 152065 hgsc.bcm.edu 37 3 126270923 126270923 + Silent SNP G G C rs34760151 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 106.0 50.0 83.0 0.0 0.471698 0 G|0.912;C|0.088 0.088 strong . C3orf22 17 . NM_152533 exon3 c.C132G p.P44P CTCCCAGGGCTGC . PASS Atlas-SNP PSG6 5675 hgsc.bcm.edu 37 19 43420290 43420290 + Silent SNP A A G rs76022539 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 176.0 89.0 207.0 0.0 0.505682 0 A|0.961;G|0.039 0.039 strong . PSG6 89 . NM_001031850 exon2 c.T414C p.T138T GGTGACAGTGAAA . PASS Atlas-SNP KCTD7 154881 hgsc.bcm.edu 37 7 66094184 66094184 + Silent SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 8.0 5.0 2.0 0.0 0.625 0 . . none KCTD7,brain,glioma,-2,1 KCTD7 26 1 NM_001167961 exon1 c.C133T p.L45L CCCCTGCTGCCAC . scavenged Atlas-SNP SLCO2A1 6578 hgsc.bcm.edu 37 3 133653566 133653566 + Silent SNP G G A rs72978391 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 74.0 32.0 49.0 0.0 0.432432 0 G|0.970;A|0.030 0.030 strong . SLCO2A1 72 . NM_005630 exon14 c.C1923T p.G641G GATGAGGCCTGCC . PASS Atlas-SNP TAT 6898 hgsc.bcm.edu 37 16 71602665 71602665 + Silent SNP C C T rs16973331 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 134.0 63.0 118.0 0.0 0.470149 0 C|0.958;T|0.042 0.042 strong . TAT 80 . NM_000353 exon11 c.G1173A p.E391E CGTGAACTCCACA . PASS Atlas-SNP SERPINB7 8710 hgsc.bcm.edu 37 18 61471593 61471593 + Silent SNP A A G rs11873045 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 60.0 35.0 44.0 0.0 0.583333 0 A|0.943;G|0.057 0.057 strong . SERPINB7 66 . NM_001261830 exon8 c.A867G p.Q289Q GAAACAATATTTG . PASS Atlas-SNP OR2J3 442186 hgsc.bcm.edu 37 6 29080386 29080386 + Missense_Mutation SNP T T C rs79293918 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 370.0 177.0 386.0 0.0 0.478378 0 T|0.981;C|0.019 0.019 strong . OR2J3 53 . NM_001005216 exon1 c.T719C p.V240A AGAAAGTGTTTGG . PASS Atlas-SNP KREMEN2 79412 hgsc.bcm.edu 37 16 3016716 3016716 + Missense_Mutation SNP C C G rs111311295 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 124.0 60.0 120.0 0.0 0.483871 0 C|0.999;G|0.001 0.001 strong . KREMEN2 13 . NM_024507 exon5 c.C560G p.P187R TGGCCCCCGCCAC . PASS Atlas-SNP APBA3 9546 hgsc.bcm.edu 37 19 3760056 3760056 + Silent SNP G G A rs61729800 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 42.0 115.0 0.0 0.42 0 G|0.973;A|0.027 0.027 strong APBA3,colon,carcinoma,0,1 APBA3 28 1 NM_004886 exon2 c.C207T p.G69G CAGATCGCCTGGC . PASS Atlas-SNP CEP192 55125 hgsc.bcm.edu 37 18 13040858 13040858 + Silent SNP A A G rs145309087 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 171.0 90.0 169.0 0.0 0.526316 0 A|0.987;G|0.013 0.013 strong . CEP192 340 . NM_032142 exon14 c.A1839G p.P613P ATCACCAGAGAAG . PASS Atlas-SNP RNF17 56163 hgsc.bcm.edu 37 13 25374636 25374636 + Silent SNP A A G rs35957316 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 87.0 46.0 80.0 0.0 0.528736 0 A|0.952;G|0.048 0.048 strong . RNF17 259 . NM_001184993 exon13 c.A1722G p.Q574Q AGCACAACCATGC . PASS Atlas-SNP FBL 2091 hgsc.bcm.edu 37 19 40329747 40329747 + Silent SNP C C T rs150137200 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 183.0 81.0 180.0 0.0 0.442623 0 C|0.996;T|0.004 0.004 strong . FBL 37 . NM_001436 exon5 c.G477A p.P159P AGCCCCCGGTTTG . PASS Atlas-SNP CDX1 1044 hgsc.bcm.edu 37 5 149562398 149562398 + Missense_Mutation SNP G G T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 160.0 71.0 124.0 0.0 0.44375 0 . . none . CDX1 11 . NM_001804 exon2 c.G513T p.K171N GGAGAAGGAGTTT . PASS Atlas-SNP DIAPH2 1730 hgsc.bcm.edu 37 X 96354707 96354707 + Silent SNP T T C rs20387 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 142.0 75.0 124.0 0.0 0.528169 0 T|0.993;C|0.007 0.007 strong . DIAPH2 148 . NM_007309 exon20 c.T2262C p.H754H GAAACATCTTCCT . PASS Atlas-SNP C1orf177 163747 hgsc.bcm.edu 37 1 55277553 55277553 + Silent SNP C C T rs61691036 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 214.0 112.0 142.0 0.0 0.523364 0 C|0.979;T|0.021 0.021 strong . C1orf177 36 . NM_001110533 exon5 c.C567T p.S189S TCATTCCGAGGGC . PASS Atlas-SNP RYR2 6262 hgsc.bcm.edu 37 1 237620034 237620034 + Silent SNP G G A rs78281932 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 107.0 54.0 105.0 0.0 0.504673 0 G|0.960;A|0.040 0.040 strong . RYR2 1273 . NM_001035 exon16 c.G1611A p.L537L GTTGCTGGGTAAG . PASS Atlas-SNP SARS2 54938 hgsc.bcm.edu 37 19 39410465 39410465 + Silent SNP G G A rs35389151 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 153.0 80.0 124.0 0.0 0.522876 0 G|0.997;A|0.003 0.003 strong . SARS2 33 . NM_001145901 exon8 c.C702T p.R234R AGCCCCGCGCAGG . PASS Atlas-SNP SGSM1 129049 hgsc.bcm.edu 37 22 25294155 25294155 + Missense_Mutation SNP A A C rs6004350 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 118.0 66.0 104.0 0.0 0.559322 0 A|0.872;C|0.128 0.128 strong SGSM1_ENST00000400359,NS,carcinoma,-1,2 SGSM1 150 2 NM_001039948 exon20 c.A2404C p.T802P ACCCCCACGGTGC . PASS Atlas-SNP USP35 57558 hgsc.bcm.edu 37 11 77921013 77921013 + Silent SNP A A G rs78142936 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 77.0 41.0 50.0 0.0 0.532468 0 A|0.935;G|0.065 0.065 strong . USP35 179 . NM_020798 exon10 c.A2112G p.G704G GGAAGGAGAGAGG . PASS Atlas-SNP ADAM18 8749 hgsc.bcm.edu 37 8 39581395 39581395 + Missense_Mutation SNP T T A rs79109719 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 70.0 70.0 79.0 0.0 1 0 T|0.968;A|0.032 0.032 strong . ADAM18 169 . NM_014237 exon19 c.T2146A p.S716T AGTAAATCATGTA . PASS Atlas-SNP DEGS2 123099 hgsc.bcm.edu 37 14 100615707 100615707 + Silent SNP G G A rs113575369 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 119.0 67.0 73.0 0.0 0.563025 0 G|0.991;A|0.009 0.009 strong . DEGS2 25 . NM_206918 exon2 c.C423T p.D141D GTCCACGTCCAGC . PASS Atlas-SNP DSCR6 53820 hgsc.bcm.edu 37 21 38390419 38390419 + Missense_Mutation SNP G G A rs61735126 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 55.0 26.0 35.0 0.0 0.472727 0 G|0.989;A|0.011 0.011 strong . DSCR6 16 . NM_018962 exon4 c.G485A p.R162Q GGCAGCGATCCTC . PASS Atlas-SNP PARP15 165631 hgsc.bcm.edu 37 3 122351055 122351055 + Missense_Mutation SNP G G A rs34383355 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 23.0 15.0 47.0 0.0 0.652174 0 G|0.981;A|0.019 0.019 strong PARP15_ENST00000464300,NS,carcinoma,0,2 PARP15 115 2 NM_001113523 exon10 c.G1561A p.A521T TCCTACGCAATAG . PASS Atlas-SNP KIF21A 55605 hgsc.bcm.edu 37 12 39734066 39734066 + Silent SNP T T G rs150241656 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 269.0 136.0 270.0 0.0 0.505576 0 T|0.998;G|0.002 0.002 strong . KIF21A 238 . NM_001173464 exon16 c.A2211C p.A737A TTGAGCTGCTTGA . PASS Atlas-SNP CCT8 10694 hgsc.bcm.edu 37 21 30433876 30433876 + Missense_Mutation SNP C C T rs8129954 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 35.0 67.0 0.0 0.460526 0 C|0.973;T|0.027 0.027 strong . CCT8 38 . NM_006585 exon12 c.G1225A p.V409I CGGGTACAAGACG . PASS Atlas-SNP FBXL4 26235 hgsc.bcm.edu 37 6 99374436 99374436 + Silent SNP T T C rs17058965 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 157.0 78.0 152.0 0.0 0.496815 0 T|0.996;C|0.004 0.004 strong . FBXL4 54 . NM_012160 exon3 c.A429G p.L143L GGTTTCTAGAACA . PASS Atlas-SNP LCE3C 353144 hgsc.bcm.edu 37 1 152573464 152573464 + Missense_Mutation SNP G G A rs148755167 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 161.0 79.0 62.0 0.0 0.490683 0 G|0.988;A|0.012 0.012 strong . LCE3C 3 . NM_178434 exon1 c.G257A p.R86H CCTGCCGTGGCCA . PASS Atlas-SNP OR4X1 390113 hgsc.bcm.edu 37 11 48285424 48285424 + Silent SNP A A G rs713323 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 167.0 82.0 160.0 0.0 0.491018 0 A|0.982;G|0.018 0.018 strong . OR4X1 75 . NM_001004726 exon1 c.A12G p.T4T TGCTACAAACAAT . PASS Atlas-SNP INADL 10207 hgsc.bcm.edu 37 1 62455982 62455982 + Silent SNP G G A rs6681983 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 73.0 34.0 94.0 0.0 0.465753 0 G|0.985;A|0.015 0.015 strong . INADL 179 . NM_176877 exon28 c.G3813A p.P1271P TAACCCGGAAGGA . PASS Atlas-SNP MST1L 11223 hgsc.bcm.edu 37 1 17083839 17083839 + Missense_Mutation SNP A A T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 500.0 151.0 420.0 0.0 0.302 0 . . none Q13209_HUMAN,NS,carcinoma,+1,1 . . 1 NM_001271733 exon15 c.T1958A p.L653Q CCTTTCAGGACCC . PASS Atlas-SNP STRIP2 57464 hgsc.bcm.edu 37 7 129098602 129098602 + Missense_Mutation SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 112.0 45.0 141.0 0.0 0.401786 0 . . none FAM40B,lymph_node,lymphoid_neoplasm,0,1 . . 1 NM_020704 exon11 c.G1324A p.G442R TTCATCGGATTCA . PASS Atlas-SNP ANKRD53 79998 hgsc.bcm.edu 37 2 71212380 71212380 + Silent SNP C C A rs61732288 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 135.0 56.0 134.0 0.0 0.414815 0 C|0.968;A|0.032 0.032 strong . ANKRD53 55 . NM_001115116 exon6 c.C1543A p.R515R GCTGTGCGATCTC . PASS Atlas-SNP TCF12 6938 hgsc.bcm.edu 37 15 57384061 57384061 + Silent SNP A A G rs34560099 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 91.0 33.0 90.0 0.0 0.362637 0 A|0.959;G|0.041 0.041 strong . TCF12 242 . NM_207036 exon5 c.A297G p.P99P GTCCCCAACACCT . PASS Atlas-SNP PEX1 5189 hgsc.bcm.edu 37 7 92118654 92118654 + Silent SNP G G A rs34825053 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 140.0 61.0 122.0 0.0 0.435714 0 G|0.992;A|0.008 0.008 strong . PEX1 102 . NM_000466 exon23 c.C3720T p.H1240H TCTTGTGTGACCA . PASS Atlas-SNP CBLC 23624 hgsc.bcm.edu 37 19 45284495 45284495 + Missense_Mutation SNP C C T rs114569424 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 97.0 48.0 91.0 0.0 0.494845 0 C|0.994;T|0.006 0.006 strong . CBLC 41 . NM_001130852 exon3 c.C532T p.L178F GAGTCCCTCCTGG . PASS Atlas-SNP PCDHB14 56122 hgsc.bcm.edu 37 5 140604419 140604419 + Missense_Mutation SNP G G A rs61731253 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 200.0 108.0 161.0 0.0 0.54 0 G|0.979;A|0.021 0.021 strong . PCDHB14 132 . NM_018934 exon1 c.G1342A p.A448T GACAACGCCCCCA . PASS Atlas-SNP ALG11 440138 hgsc.bcm.edu 37 13 52598668 52598668 + Missense_Mutation SNP C C A rs148434423 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 216.0 100.0 223.0 0.0 0.462963 0 C|0.999;A|0.001 0.001 strong . ALG11 39 . NM_001004127 exon3 c.C802A p.L268I CTCTCACTATGGA . PASS Atlas-SNP DDX3X 1654 hgsc.bcm.edu 37 X 41204446 41204446 + Missense_Mutation SNP G G C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 131.0 25.0 129.0 0.0 0.19084 0 . . none . DDX3X 138 . NM_001193416 exon11 c.G1039C p.D347H GTGTTAGATGAAG . PASS Atlas-SNP ITLN1 55600 hgsc.bcm.edu 37 1 160853312 160853312 + Silent SNP C C T rs79969862 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 149.0 61.0 154.0 0.0 0.409396 0 C|0.984;T|0.016 0.016 strong . ITLN1 45 . NM_017625 exon3 c.G63A p.E21E ATTAGCCTCATCT . PASS Atlas-SNP F10 2159 hgsc.bcm.edu 37 13 113798236 113798236 + Missense_Mutation SNP G G A rs3211783 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 59.0 29.0 47.0 0.0 0.491525 0 G|0.973;A|0.027 0.027 strong . F10 53 . NM_000504 exon6 c.G574A p.G192R AGCAGCGGGGAGG . PASS Atlas-SNP PBK 55872 hgsc.bcm.edu 37 8 27668587 27668587 + Missense_Mutation SNP C C G rs17057901 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 139.0 67.0 176.0 0.0 0.482014 0 C|0.978;G|0.022 0.022 strong . PBK 29 . NM_018492 exon7 c.G660C p.E220D ACCATTCTCCTCC . PASS Atlas-SNP NTSR2 23620 hgsc.bcm.edu 37 2 11800180 11800180 + Silent SNP G G A rs35653499 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 105.0 55.0 93.0 0.0 0.52381 0 G|0.982;A|0.018 0.018 strong . NTSR2 36 . NM_012344 exon3 c.C978T p.D326D CCACGCGTCATCA . PASS Atlas-SNP PER3 8863 hgsc.bcm.edu 37 1 7887499 7887499 + Missense_Mutation SNP T T G rs35899625 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 207.0 116.0 144.0 0.0 0.560386 0 T|0.995;G|0.005 0.005 strong . PER3 95 . NM_016831 exon17 c.T2486G p.L829W TGCCCTTGTCCGA . PASS Atlas-SNP DSP 1832 hgsc.bcm.edu 37 6 7576569 7576569 + Silent SNP T T C rs146407262 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 85.0 38.0 89.0 0.0 0.447059 0 T|0.991;C|0.009 0.009 strong . DSP 306 . NM_004415 exon19 c.T2673C p.Y891Y GAATTATCGTGAT . PASS Atlas-SNP DHTKD1 55526 hgsc.bcm.edu 37 10 12160868 12160868 + Silent SNP C C T rs12769375 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 78.0 35.0 83.0 0.0 0.448718 0 C|0.985;T|0.015 0.015 strong . DHTKD1 104 . NM_018706 exon15 c.C2523T p.F841F CCCCTTCCCGTTG . PASS Atlas-SNP ZP4 57829 hgsc.bcm.edu 37 1 238053226 238053226 + Missense_Mutation SNP G G A rs34370253 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 172.0 84.0 210.0 1.0 0.488372 0.0047619 G|0.972;A|0.028 0.028 strong ZP4,caecum,carcinoma,0,1 ZP4 161 1 NM_021186 exon3 c.C341T p.A114V TCAGCCGCGCCTG . PASS Atlas-SNP PSG8 440533 hgsc.bcm.edu 37 19 43268242 43268242 + Missense_Mutation SNP C C T rs76352186 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 233.0 98.0 247.0 1.0 0.420601 0.00404858 C|0.936;T|0.064 0.064 strong . PSG8 101 . NM_001130167 exon2 c.G256A p.G86S TTTGACCGTCTAC . PASS Atlas-SNP WDR11 55717 hgsc.bcm.edu 37 10 122649481 122649481 + Missense_Mutation SNP C C T rs150399543 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 58.0 26.0 65.0 0.0 0.448276 0 C|0.997;T|0.003 0.003 strong WDR11,NS,carcinoma,-1,1 WDR11 95 1 NM_018117 exon18 c.C2303T p.A768V TAATAGCAATGTA . PASS Atlas-SNP BAZ2B 29994 hgsc.bcm.edu 37 2 160287443 160287443 + Missense_Mutation SNP A A C rs200904019 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 162.0 70.0 172.0 0.0 0.432099 0 A|0.998;C|0.002 0.002 strong . BAZ2B 196 . NM_013450 exon10 c.T2125G p.C709G CAGAACATAAGGC . PASS Atlas-SNP ADAMTS7 11173 hgsc.bcm.edu 37 15 79065509 79065509 + Missense_Mutation SNP T T C rs146076001 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 783.0 340.0 461.0 1.0 0.434227 0.0021692 T|1.000;C|0.000 0.000 weak . ADAMTS7 142 . NM_014272 exon14 c.A2047G p.M683V CCTCCATAGCACC . PASS Atlas-SNP ACSS1 84532 hgsc.bcm.edu 37 20 25038484 25038484 + Silent SNP G G A rs66817095 bycluster;byfrequency;by1000genomes;alternate_allele TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 135.0 66.0 141.0 0.0 0.488889 0 G|0.845;T|0.155 . alt . ACSS1 46 . NM_001252677 exon1 c.C255T p.T85T GTAGGGGGTGTCC . PASS Atlas-SNP ADCY2 108 hgsc.bcm.edu 37 5 7690872 7690872 + Silent SNP G G A rs10079813 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 119.0 53.0 107.0 0.0 0.445378 0 G|0.976;A|0.024 0.024 strong . ADCY2 337 . NM_020546 exon5 c.G789A p.R263R CCAGAGGCTGCAG . PASS Atlas-SNP RIMS2 9699 hgsc.bcm.edu 37 8 104897606 104897606 + Missense_Mutation SNP C C G rs146399863 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 84.0 45.0 75.0 0.0 0.535714 0 C|0.999;G|0.001 0.001 strong . RIMS2 1357 . NM_001100117 exon4 c.C779G p.A260G AGTATGCTACTTC . PASS Atlas-SNP TANK 10010 hgsc.bcm.edu 37 2 162088034 162088034 + Missense_Mutation SNP C C T rs2229759 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 24.0 12.0 39.0 0.0 0.5 0 C|0.977;T|0.023 0.023 strong TANK,NS,carcinoma,-1,1 TANK 35 1 NM_004180 exon7 c.C1073T p.P358L ATTCCCCGGGAAA . PASS Atlas-SNP XAB2 56949 hgsc.bcm.edu 37 19 7684502 7684502 + Silent SNP G G A rs4134869 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 161.0 78.0 142.0 0.0 0.484472 0 G|0.944;A|0.056 0.056 strong . XAB2 69 . NM_020196 exon19 c.C2538T p.A846A CACTGCGGCTGGC . PASS Atlas-SNP BMPER 168667 hgsc.bcm.edu 37 7 33946464 33946464 + Silent SNP C C T rs112068976 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 95.0 51.0 107.0 0.0 0.536842 0 C|0.999;T|0.001 0.001 strong BMPER,NS,carcinoma,+1,1 BMPER 131 1 NM_133468 exon3 c.C168T p.V56V TGAAGTCCTCCAG . PASS Atlas-SNP FCGBP 8857 hgsc.bcm.edu 37 19 40364397 40364397 + Missense_Mutation SNP C C T rs148917660 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 77.0 41.0 60.0 0.0 0.532468 0 C|0.997;T|0.003 0.003 strong . FCGBP 416 . NM_003890 exon31 c.G14245A p.G4749S AGTCACCGCAGAG . PASS Atlas-SNP PTPRN2 5799 hgsc.bcm.edu 37 7 157959794 157959794 + Missense_Mutation SNP T T C rs73745196 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 64.0 35.0 87.0 0.0 0.546875 0 T|0.974;C|0.026 0.026 strong . PTPRN2 243 . NM_130843 exon6 c.A739G p.S247G AGGCACTGAGGGC . PASS Atlas-SNP TCHH 7062 hgsc.bcm.edu 37 1 152082320 152082320 + Missense_Mutation SNP T T C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 292.0 12.0 219.0 1.0 0.0410959 0.00456621 . . none TCHH,NS,carcinoma,0,5 TCHH 275 5 NM_007113 exon3 c.A3373G p.R1125G CCTCTCTCAGCAG . scavenged Atlas-SNP TNFRSF13B 23495 hgsc.bcm.edu 37 17 16843708 16843708 + Missense_Mutation SNP T T A rs74811083 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 94.0 58.0 74.0 0.0 0.617021 0 T|0.985;A|0.015 0.015 strong . TNFRSF13B 34 . NM_012452 exon4 c.A563T p.K188M CCCCTCTTCTTGA . PASS Atlas-SNP BPIFA3 128861 hgsc.bcm.edu 37 20 31812206 31812206 + Missense_Mutation SNP A A G rs112731808 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 190.0 94.0 168.0 0.0 0.494737 0 A|0.983;G|0.017 0.017 strong . . . . NM_178466 exon3 c.A324G p.I108M CCAGATATCATTC . PASS Atlas-SNP KRTAP4-5 85289 hgsc.bcm.edu 37 17 39306004 39306004 + Missense_Mutation SNP A A G rs238829 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 346.0 153.0 307.0 0.0 0.442197 0 A|0.962;G|0.038 0.038 strong . KRTAP4-5 34 . NM_033188 exon1 c.T16C p.C6R AGCCACAACAGGA . PASS Atlas-SNP OR1L1 26737 hgsc.bcm.edu 37 9 125424277 125424277 + Missense_Mutation SNP A A G rs70157 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 180.0 114.0 169.0 0.0 0.633333 0 A|0.860;G|0.140 0.140 strong . OR1L1 54 . NM_001005236 exon1 c.A283G p.S95G TCTTACAGTGAGT . PASS Atlas-SNP LHX3 8022 hgsc.bcm.edu 37 9 139096782 139096782 + Missense_Mutation SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 36.0 12.0 39.0 0.0 0.333333 0 . . none . LHX3 23 . NM_178138 exon1 c.G77A p.R26Q TTACCCCGAGTCC . PASS Atlas-SNP POM121L2 94026 hgsc.bcm.edu 37 6 27277716 27277716 + Missense_Mutation SNP A A T rs61736082 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 161.0 79.0 173.0 0.0 0.490683 0 A|0.952;T|0.048 0.048 strong . POM121L2 61 . NM_033482 exon1 c.T2234A p.I745N TTGGAGATGCTGG . PASS Atlas-SNP ARSG 22901 hgsc.bcm.edu 37 17 66397521 66397521 + Silent SNP C C T rs62638719 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 173.0 105.0 124.0 0.0 0.606936 0 C|0.996;T|0.004 0.004 strong ARSG,NS,carcinoma,+1,1 ARSG 55 1 NM_001267727 exon11 c.C1233T p.S411S CAACAGCGGGGCA . PASS Atlas-SNP NR5A1 2516 hgsc.bcm.edu 37 9 127262864 127262864 + Silent SNP C C T rs1110062 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 53.0 53.0 36.0 0.0 1 0 C|0.948;T|0.052 0.052 strong . NR5A1 32 . NM_004959 exon4 c.G375A p.P125P CCCCATCGGGGGC . PASS Atlas-SNP SFXN2 118980 hgsc.bcm.edu 37 10 104486489 104486489 + Silent SNP C C T rs35153373 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 156.0 77.0 139.0 0.0 0.49359 0 C|0.980;T|0.020 0.020 strong . SFXN2 40 . NM_178858 exon2 c.C96T p.D32D CACGGACCCCCGC . PASS Atlas-SNP IMMT 10989 hgsc.bcm.edu 37 2 86385812 86385812 + Silent SNP T T C rs2228352 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 117.0 50.0 109.0 0.0 0.42735 0 T|0.968;C|0.032 0.032 strong . IMMT 65 . NM_006839 exon10 c.A1065G p.V355V CTGAGATACAACC . PASS Atlas-SNP LAMC2 3918 hgsc.bcm.edu 37 1 183184650 183184650 + Missense_Mutation SNP G G C rs12065473 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 173.0 77.0 150.0 0.0 0.445087 0 G|0.963;C|0.037 0.037 strong . LAMC2 113 . NM_005562 exon3 c.G331C p.A111P ACAGGAGCCAGAT . PASS Atlas-SNP MST1L 11223 hgsc.bcm.edu 37 1 17086976 17086976 + Silent SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 491.0 53.0 396.0 0.0 0.107943 0 . . none Q13209_HUMAN,NS,carcinoma,-2,2 . . 2 NM_001271733 exon4 c.C348T p.P116P GAGCGTGGGCATG . PASS Atlas-SNP PADI4 23569 hgsc.bcm.edu 37 1 17668508 17668508 + Silent SNP C C T rs16825565 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 122.0 54.0 143.0 0.0 0.442623 0 C|0.984;T|0.016 0.016 strong . PADI4 70 . NM_012387 exon7 c.C723T p.P241P GGTCCCCGGTGGA . PASS Atlas-SNP ADH1B 125 hgsc.bcm.edu 37 4 100237169 100237169 + Silent SNP C C T rs139645116 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 286.0 137.0 317.0 1.0 0.479021 0.00315457 C|0.998;T|0.002 0.002 strong . ADH1B 68 . NM_000668 exon5 c.G453A p.T151T CACCACCGTGTAC . PASS Atlas-SNP LRP11 84918 hgsc.bcm.edu 37 6 150158486 150158486 + Missense_Mutation SNP A A G rs375299752 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 107.0 41.0 120.0 0.0 0.383178 0 . . weak . LRP11 27 . NM_032832 exon4 c.T1027C p.F343L GGCAGAAGTCTTC . PASS Atlas-SNP BET3L 100128327 hgsc.bcm.edu 37 6 116818225 116818225 + Silent SNP C C T rs114678052 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 79.0 79.0 87.0 0.0 1 0 C|0.968;T|0.032 0.032 strong . BET3L 18 . NM_001139444 exon5 c.G438A p.A146A ATCAGCCGCCAAA . PASS Atlas-SNP WDR59 79726 hgsc.bcm.edu 37 16 74943471 74943471 + Missense_Mutation SNP T T C rs61734551 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 44.0 21.0 43.0 0.0 0.477273 0 T|0.988;C|0.012 0.012 strong . WDR59 66 . NM_030581 exon16 c.A1570G p.T524A AAGCCGTGGTCAC . PASS Atlas-SNP OR6P1 128366 hgsc.bcm.edu 37 1 158532605 158532605 + Missense_Mutation SNP C C A rs115786820 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 175.0 87.0 140.0 0.0 0.497143 0 C|0.987;A|0.013 0.013 strong . OR6P1 47 . NM_001160325 exon1 c.G790T p.A264S ACATGGCCCGGGG . PASS Atlas-SNP CYP4F12 66002 hgsc.bcm.edu 37 19 15794425 15794425 + Missense_Mutation SNP A A G rs116788636 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 184.0 49.0 124.0 0.0 0.266304 0 A|0.990;G|0.010 0.010 strong . CYP4F12 89 . NM_023944 exon7 c.A770G p.H257R GCTTCCACAGGGC . PASS Atlas-SNP FAM129C 199786 hgsc.bcm.edu 37 19 17638141 17638141 + Missense_Mutation SNP G G A rs73504235 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 221.0 221.0 238.0 0.0 1 0 G|0.990;A|0.010 0.010 strong . FAM129C 110 . NM_001098524 exon2 c.G85A p.D29N GGAGACGACAGCA . PASS Atlas-SNP FOXC1 2296 hgsc.bcm.edu 37 6 1611085 1611085 + Silent SNP C C T rs2230096 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 295.0 130.0 270.0 0.0 0.440678 0 C|0.970;T|0.030 0.030 strong . FOXC1 19 . NM_001453 exon1 c.C405T p.C135C CGAGTGCTTCGTC . PASS Atlas-SNP ZNF107 51427 hgsc.bcm.edu 37 7 64168641 64168641 + Silent SNP A A G rs73363327 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 25.0 9.0 44.0 0.0 0.36 0 A|0.985;G|0.015 0.015 strong . ZNF107 107 . NM_016220 exon7 c.A1959G p.R653R TAATAGACATAAG . PASS Atlas-SNP PPFIBP2 8495 hgsc.bcm.edu 37 11 7673029 7673029 + Missense_Mutation SNP T T C rs77873429 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 59.0 17.0 67.0 0.0 0.288136 0 T|0.914;C|0.086 0.086 strong . PPFIBP2 87 . NM_003621 exon23 c.T2390C p.M797T AGAAAATGGCCTC . PASS Atlas-SNP VWA5A 4013 hgsc.bcm.edu 37 11 123989383 123989383 + Missense_Mutation SNP G G A rs35215239 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 78.0 28.0 91.0 0.0 0.358974 0 G|0.978;A|0.022 0.022 strong VWA5A,larynx,carcinoma,0,1 VWA5A 102 1 NM_014622 exon5 c.G613A p.E205K CCTACCGAGTACC . PASS Atlas-SNP KRTAP10-6 386674 hgsc.bcm.edu 37 21 46011526 46011526 + Silent SNP T T A rs371768583 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 300.0 34.0 245.0 2.0 0.113333 0.00816326 . . weak KRTAP10-6,NS,carcinoma,0,2 KRTAP10-6 57 2 NM_198688 exon1 c.A840T p.T280T GCATGATGTGGAA . scavenged Atlas-SNP GLCE 26035 hgsc.bcm.edu 37 15 69561181 69561181 + Silent SNP T T C rs56045514 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 62.0 35.0 60.0 0.0 0.564516 0 T|0.951;C|0.049 0.049 strong . GLCE 48 . NM_015554 exon5 c.T1452C p.H484H GCAGCATGGAGTT . PASS Atlas-SNP RELN 5649 hgsc.bcm.edu 37 7 103124265 103124265 + Missense_Mutation SNP A A G rs150638029 byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 92.0 50.0 91.0 0.0 0.543478 0 A|1.000;G|0.000 0.000 strong . RELN 593 . NM_173054 exon62 c.T10016C p.M3339T TGCGACATGCTCC . PASS Atlas-SNP SLC28A1 9154 hgsc.bcm.edu 37 15 85448796 85448796 + Silent SNP A A T rs8187755 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 198.0 74.0 182.0 1.0 0.373737 0.00549451 A|0.973;T|0.027 0.027 strong SLC28A1_ENST00000537624,NS,carcinoma,+1,2 SLC28A1 118 2 NM_004213 exon8 c.A630T p.G210G TTGGGGACTTGGA . scavenged Atlas-SNP SLC28A1 9154 hgsc.bcm.edu 37 15 85478573 85478573 + Silent SNP C C A rs8187779 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 142.0 77.0 174.0 1.0 0.542253 0.00574713 C|0.995;A|0.005 0.005 strong SLC28A1,colon,carcinoma,-1,1 SLC28A1 118 1 NM_004213 exon15 c.C1405A p.R469R ATCCTGCGGCCTG . scavenged Atlas-SNP SCO1 6341 hgsc.bcm.edu 37 17 10600653 10600653 + Missense_Mutation SNP G G A rs1802083 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 43.0 21.0 29.0 0.0 0.488372 0 G|0.948;A|0.052 0.052 strong . SCO1 24 . NM_004589 exon1 c.C172T p.P58S AGCCAGGGCGCCC . PASS Atlas-SNP LCE1C 353133 hgsc.bcm.edu 37 1 152777877 152777877 + Silent SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 409.0 29.0 279.0 0.0 0.0709046 0 . . none . LCE1C 40 . NM_178351 exon2 c.C78T p.T26T CTTTGGGGTGGGG . PASS Atlas-SNP NLRC3 197358 hgsc.bcm.edu 37 16 3613690 3613690 + Silent SNP G G A rs144685315 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 46.0 91.0 0.0 0.494624 0 G|0.999;A|0.001 0.001 strong . NLRC3 103 . NM_178844 exon5 c.C1248T p.Y416Y TTGCTCGTAAAAC . PASS Atlas-SNP PLA2G4C 8605 hgsc.bcm.edu 37 19 48602933 48602933 + Missense_Mutation SNP T T C rs2307282 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 84.0 38.0 113.0 0.0 0.452381 0 T|0.956;C|0.044 0.044 strong PLA2G4C,middle_lobe,carcinoma,+1,1 PLA2G4C 76 1 NM_001159322 exon5 c.A472G p.R158G CTTCTCTGGTTTG . PASS Atlas-SNP BIRC6 57448 hgsc.bcm.edu 37 2 32673884 32673884 + Silent SNP A A G rs150651833 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 136.0 57.0 155.0 0.0 0.419118 0 A|0.998;G|0.002 0.002 strong . BIRC6 838 . NM_016252 exon22 c.A4506G p.P1502P CTCACCATTTGAT . PASS Atlas-SNP PTGES 9536 hgsc.bcm.edu 37 9 132510960 132510960 + Silent SNP G G A rs3205181 bycluster;byfrequency;bysubmitter;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 71.0 48.0 49.0 0.0 0.676056 0 G|0.969;A|0.031 0.031 strong . PTGES 7 . NM_004878 exon2 c.C183T p.S61S GGGGTCGCTCCTG . PASS Atlas-SNP TOM1 10043 hgsc.bcm.edu 37 22 35713931 35713931 + Silent SNP C C T rs57755951 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 197.0 94.0 181.0 0.0 0.477157 0 C|0.982;T|0.018 0.018 strong . TOM1 43 . NM_001135732 exon2 c.C114T p.D38D CTGCGACATCATC . PASS Atlas-SNP PDGFRL 5157 hgsc.bcm.edu 37 8 17434813 17434813 + Missense_Mutation SNP G G A rs114432448 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 140.0 68.0 152.0 0.0 0.485714 0 G|0.987;A|0.013 0.013 strong . PDGFRL 27 . NM_006207 exon2 c.G52A p.D18N CTGGAGGATGGTG . PASS Atlas-SNP HKDC1 80201 hgsc.bcm.edu 37 10 70980243 70980243 + Missense_Mutation SNP C C A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 70.0 37.0 54.0 0.0 0.528571 0 . . none . HKDC1 98 . NM_025130 exon1 c.C52A p.Q18K GAGGACCAGATCA . PASS Atlas-SNP PODNL1 79883 hgsc.bcm.edu 37 19 14043843 14043843 + Missense_Mutation SNP C C T rs80103045 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 4.0 4.0 4.0 0.0 1 0 C|0.980;T|0.020 0.020 strong . PODNL1 27 . NM_024825 exon8 c.G1214A p.R405H AACCGGCGGAAGG . PASS Atlas-SNP SLC5A5 6528 hgsc.bcm.edu 37 19 17988794 17988794 + Silent SNP C C T rs35209536 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 84.0 41.0 65.0 0.0 0.488095 0 C|0.982;T|0.018 0.018 strong . SLC5A5 67 . NM_000453 exon7 c.C861T p.V287V CCAGGTCGGCCTG . PASS Atlas-SNP SMG6 23293 hgsc.bcm.edu 37 17 2203462 2203462 + Silent SNP T T C rs140746531 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 97.0 49.0 73.0 0.0 0.505155 0 T|1.000;C|0.000 0.000 strong . SMG6 97 . NM_017575 exon2 c.A585G p.P195P CCTGTCTGGTTTA . PASS Atlas-SNP POU5F1B 5462 hgsc.bcm.edu 37 8 128428592 128428592 + Missense_Mutation SNP G G A rs140000439 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 161.0 81.0 155.0 0.0 0.503106 0 G|0.985;A|0.015 0.015 strong . POU5F1B 32 . NM_001159542 exon1 c.G481A p.G161R ACCCTGGGATATA . PASS Atlas-SNP SYCP2 10388 hgsc.bcm.edu 37 20 58441612 58441612 + Silent SNP C C T rs58905758 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 47.0 29.0 63.0 0.0 0.617021 0 C|0.983;T|0.017 0.017 strong . SYCP2 204 . NM_014258 exon39 c.G4158A p.T1386T AGACTGCGTAGTA . PASS Atlas-SNP KRTAP10-10 353333 hgsc.bcm.edu 37 21 46057952 46057952 + Silent SNP C C A rs74701761 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 473.0 113.0 294.0 0.0 0.238901 0 C|0.982;A|0.018 0.018 strong . KRTAP10-10 37 . NM_181688 exon1 c.C618A p.V206V GCCCGTCCCCTCC . PASS Atlas-SNP NKX2-5 1482 hgsc.bcm.edu 37 5 172662014 172662014 + Missense_Mutation SNP G G A rs28936670 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 157.0 77.0 181.0 0.0 0.490446 0 G|0.993;A|0.007 0.007 strong . NKX2-5 42 . NM_004387 exon1 c.C73T p.R25C GGCTGCGCTGCTG . PASS Atlas-SNP ATAD3A 55210 hgsc.bcm.edu 37 1 1458915 1458915 + Missense_Mutation SNP C C T rs113107431 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 181.0 102.0 131.0 0.0 0.563536 0 C|0.972;T|0.028 0.028 strong . ATAD3A 35 . NM_018188 exon9 c.C1075T p.P359S AGTCGACCCCAGG . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195509113 195509113 + Missense_Mutation SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 313.0 60.0 177.0 0.0 0.191693 0 . . none . MUC4 1505 . NM_018406 exon2 c.C9338T p.A3113V GTGGATGCTGAGG . PASS Atlas-SNP PRDM16 63976 hgsc.bcm.edu 37 1 3322139 3322139 + Silent SNP C C T rs61745281 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 66.0 36.0 56.0 0.0 0.545455 0 C|0.984;T|0.016 0.016 strong . PRDM16 147 . NM_022114 exon8 c.C1113T p.C371C CGACTGCGGGAAG . PASS Atlas-SNP SPATA9 83890 hgsc.bcm.edu 37 5 95011166 95011166 + Missense_Mutation SNP G G A rs140676515 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 137.0 63.0 120.0 1.0 0.459854 0.00833333 G|0.998;A|0.002 0.002 strong SPATA9,NS,carcinoma,+1,1 SPATA9 17 1 NM_031952 exon3 c.C328T p.R110C GCAGACGACCAGA . scavenged Atlas-SNP OR8K5 219453 hgsc.bcm.edu 37 11 55927591 55927591 + Missense_Mutation SNP A A G rs2512938 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 138.0 68.0 126.0 0.0 0.492754 0 A|0.974;G|0.026 0.026 strong . OR8K5 82 . NM_001004058 exon1 c.T203C p.F68S TCAACAAAAGCCA . PASS Atlas-SNP GSTO2 119391 hgsc.bcm.edu 37 10 106058940 106058940 + Silent SNP C C T rs157078 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 130.0 61.0 126.0 0.0 0.469231 0 C|0.952;T|0.048 0.048 strong . GSTO2 23 . NM_183239 exon7 c.C630T p.D210D GTGGGACCCCACA . PASS Atlas-SNP PRR21 643905 hgsc.bcm.edu 37 2 240982200 240982200 + Missense_Mutation SNP C C T rs114958540 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 170.0 10.0 147.0 2.0 0.0588235 0.0136054 C|0.980;T|0.019 0.019 strong PRR21,NS,carcinoma,+1,2 PRR21 53 2 NM_001080835 exon1 c.G200A p.C67Y AAGGGACATGGGT . scavenged Atlas-SNP CYP4F12 66002 hgsc.bcm.edu 37 19 15794470 15794470 + Missense_Mutation SNP G G A rs150943202 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 155.0 36.0 101.0 0.0 0.232258 0 G|0.989;A|0.011 0.011 strong CYP4F12,NS,haematopoietic_neoplasm,+1,1 CYP4F12 89 1 NM_023944 exon7 c.G815A p.R272Q TCATCCGGGAGCG . PASS Atlas-SNP ENTPD5 957 hgsc.bcm.edu 37 14 74454675 74454675 + Missense_Mutation SNP C C G rs60372237 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 95.0 47.0 104.0 0.0 0.494737 0 C|0.997;G|0.003 0.003 strong . ENTPD5 26 . NM_001249 exon4 c.G131C p.S44T CTGGCGCTGACAT . PASS Atlas-SNP DLG1 1739 hgsc.bcm.edu 37 3 196842831 196842831 + Silent SNP A A G rs79212676 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 195.0 88.0 170.0 0.0 0.451282 0 A|0.990;G|0.010 0.010 strong . DLG1 120 . NM_001098424 exon14 c.T1509C p.S503S CTCTCCACTTAGA . PASS Atlas-SNP C1orf95 375057 hgsc.bcm.edu 37 1 226785102 226785102 + Splice_Site SNP A A G rs73098850 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 205.0 101.0 171.0 0.0 0.492683 0 A|0.961;G|0.039 0.039 strong . C1orf95 16 . NM_001003665 exon3 c.383-2A>G . CCCTGTATTTTCC . PASS Atlas-SNP AGPAT1 10554 hgsc.bcm.edu 37 6 32139186 32139186 + Missense_Mutation SNP G G A rs11964847 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 133.0 65.0 136.0 0.0 0.488722 0 G|0.995;A|0.005 0.005 strong AGPAT1,NS,carcinoma,+1,1 AGPAT1 22 1 NM_006411 exon2 c.C88T p.P30S CACTGGGGCTGCA . PASS Atlas-SNP VPS13A 23230 hgsc.bcm.edu 37 9 79929004 79929004 + Missense_Mutation SNP C C T rs140993797 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 94.0 62.0 77.0 0.0 0.659574 0 C|1.000;T|0.000 0.000 strong . VPS13A 735 . NM_001018038 exon36 c.C4211T p.T1404I ATCTCACCATGGT . PASS Atlas-SNP XDH 7498 hgsc.bcm.edu 37 2 31598339 31598339 + Silent SNP G G C rs45612839 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 118.0 55.0 130.0 0.0 0.466102 0 G|0.936;C|0.064 0.064 strong . XDH 191 . NM_000379 exon15 c.C1509G p.G503G CACCATGCCACCA . PASS Atlas-SNP PTGFRN 5738 hgsc.bcm.edu 37 1 117527444 117527444 + Silent SNP C C T rs17036676 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 193.0 94.0 149.0 0.0 0.487047 0 C|0.994;T|0.006 0.006 strong PTGFRN,NS,chondrosarcoma,+1,1 PTGFRN 91 1 NM_020440 exon8 c.C2310T p.R770R GGAGCGCGTGAGT . PASS Atlas-SNP TCOF1 6949 hgsc.bcm.edu 37 5 149755845 149755845 + Silent SNP A A G rs34796297 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 54.0 23.0 42.0 0.0 0.425926 0 A|0.984;G|0.016 0.016 strong . TCOF1 154 . NM_001135243 exon13 c.A2094G p.E698E TGAGGAATCAGAT . PASS Atlas-SNP LCE3D 84648 hgsc.bcm.edu 37 1 152552311 152552311 + Silent SNP G G A rs149516289 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 263.0 137.0 271.0 0.0 0.520913 0 G|0.992;A|0.008 0.008 strong . LCE3D 28 . NM_032563 exon2 c.C102T p.S34S GCCAGAGGAAGCT . PASS Atlas-SNP MSMP 692094 hgsc.bcm.edu 37 9 35754052 35754052 + Missense_Mutation SNP C C T rs189235807 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 139.0 63.0 161.0 0.0 0.453237 0 C|1.000;T|0.000 0.000 strong . MSMP 15 . NM_001044264 exon1 c.G75A p.M25I TAGAGACATCACC . PASS Atlas-SNP KCNAB1 7881 hgsc.bcm.edu 37 3 155838488 155838488 + Missense_Mutation SNP G G C rs67167156 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 99.0 61.0 110.0 0.0 0.616162 0 G|0.981;C|0.019 0.019 strong . KCNAB1 176 . NM_172160 exon1 c.G88C p.G30R GTAGCAGGGAAAG . PASS Atlas-SNP NOTCH1 4851 hgsc.bcm.edu 37 9 139391636 139391636 + Silent SNP G G A rs2229974 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 133.0 77.0 121.0 0.0 0.578947 0 G|0.341;A|0.659 0.659 strong . NOTCH1 1980 . NM_017617 exon34 c.C6555T p.D2185D CTTGCCGTCCTGG . PASS Atlas-SNP HECW2 57520 hgsc.bcm.edu 37 2 197087061 197087061 + Silent SNP T T C rs16847486 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 55.0 79.0 0.0 0.591398 0 T|0.965;C|0.035 0.035 strong . HECW2 239 . NM_020760 exon24 c.A4020G p.L1340L GTCACATAGACTA . PASS Atlas-SNP RYR1 6261 hgsc.bcm.edu 37 19 38964275 38964275 + Missense_Mutation SNP A A G rs34694816 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 24.0 10.0 11.0 0.0 0.416667 0 A|0.949;G|0.051 0.051 strong . RYR1 708 . NM_001042723 exon28 c.A4024G p.S1342G GGCTGGAGCGAGG . PASS Atlas-SNP MYO18B 84700 hgsc.bcm.edu 37 22 26422993 26422993 + Silent SNP C C T rs7290069 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 41.0 19.0 45.0 0.0 0.463415 0 C|0.968;T|0.032 0.032 strong MYO18B,NS,carcinoma,+2,1 MYO18B 322 1 NM_032608 exon43 c.C7053T p.C2351C TTCCTGCGAGTCC . PASS Atlas-SNP S100A2 6273 hgsc.bcm.edu 37 1 153534027 153534027 + Missense_Mutation SNP C C T rs1047325 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 250.0 248.0 253.0 0.0 0.992 0 C|0.841;T|0.159 0.159 strong . S100A2 14 . NM_005978 exon3 c.G182A p.S61N TCCAGGCTGCCCA . PASS Atlas-SNP PLXNB2 23654 hgsc.bcm.edu 37 22 50716068 50716068 + Silent SNP C C T rs11547732 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 188.0 95.0 153.0 0.0 0.505319 0 T|0.048;G|0.000;C|0.952;A|0.000 0.048 strong . PLXNB2 172 . NM_012401 exon33 c.G5148A p.A1716A GGTCTGCGCGATG . PASS Atlas-SNP EPPIN-WFDC6 100526773 hgsc.bcm.edu 37 20 44174306 44174306 + Silent SNP G G A rs374858005 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 278.0 132.0 256.0 1.0 0.47482 0.00390625 . . weak . . . . NM_001198986 exon2 c.C195T p.C65C TTTTCCGCAGCTG . PASS Atlas-SNP AP3D1 8943 hgsc.bcm.edu 37 19 2116616 2116616 + Silent SNP T T C rs73512353 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 59.0 27.0 67.0 0.0 0.457627 0 T|0.992;C|0.008 0.008 strong . AP3D1 81 . NM_001261826 exon17 c.A1989G p.E663E CAGCTCTTCCTCG . PASS Atlas-SNP EEF1D 1936 hgsc.bcm.edu 37 8 144671489 144671489 + Missense_Mutation SNP G G C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 64.0 25.0 59.0 0.0 0.390625 0 . . none . EEF1D 48 . NM_001130053 exon3 c.C763G p.P255A CTGGGGGATGGCC . PASS Atlas-SNP CDC27 996 hgsc.bcm.edu 37 17 45214661 45214661 + Silent SNP G G A rs111322439 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 23.0 5.0 27.0 0.0 0.217391 0 G|0.500;A|0.500 0.500 weak CDC27_ENST00000531206,rectum,carcinoma,0,4 CDC27 337 4 NM_001114091 exon14 c.C1788T p.F596F TCTCTGGAAGAAT . scavenged Atlas-SNP COL6A3 1293 hgsc.bcm.edu 37 2 238289842 238289842 + Missense_Mutation SNP G G A rs34741387 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 58.0 33.0 50.0 0.0 0.568965 0 G|0.991;A|0.009 0.009 strong . COL6A3 608 . NM_004369 exon5 c.C1613T p.T538M GAACTCGTGAATA . PASS Atlas-SNP MRM1 79922 hgsc.bcm.edu 37 17 34958531 34958531 + Missense_Mutation SNP C C T rs60978234 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 21.0 8.0 21.0 0.0 0.380952 0 C|0.993;T|0.007 0.007 strong MRM1,NS,haematopoietic_neoplasm,-2,1 MRM1 19 1 NM_024864 exon1 c.C292T p.P98S GACATTCCAGTTC . PASS Atlas-SNP ZSCAN18 65982 hgsc.bcm.edu 37 19 58597611 58597611 + Missense_Mutation SNP G G C rs147947490 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 106.0 48.0 90.0 0.0 0.45283 0 G|0.993;C|0.007 0.007 strong . ZSCAN18 104 . NM_001145542 exon6 c.C936G p.D312E GGCAGCGTCAGGC . PASS Atlas-SNP GEN1 348654 hgsc.bcm.edu 37 2 17962117 17962117 + Silent SNP T T A rs61762986 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 116.0 57.0 109.0 0.0 0.491379 0 T|0.987;A|0.013 0.013 strong . GEN1 79 . NM_182625 exon14 c.T1638A p.S546S CATGTCTTCTCTA . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195506462 195506462 + Missense_Mutation SNP G G C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 85.0 39.0 113.0 0.0 0.458824 0 . . none MUC4_ENST00000463781,NS,carcinoma,+2,2 MUC4 1505 2 NM_018406 exon2 c.C11989G p.H3997D TGGCGTGACCTGT . PASS Atlas-SNP SDK1 221935 hgsc.bcm.edu 37 7 4116697 4116697 + Silent SNP G G A rs61735695 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 129.0 56.0 134.0 0.0 0.434109 0 G|0.990;A|0.010 0.010 strong SDK1,NS,carcinoma,+1,2 SDK1 361 2 NM_152744 exon21 c.G3078A p.T1026T CAGCACGACGCAC . PASS Atlas-SNP DAAM1 23002 hgsc.bcm.edu 37 14 59821936 59821936 + Silent SNP C C T rs61755340 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 280.0 126.0 275.0 0.0 0.45 0 C|0.993;T|0.007 0.007 strong . DAAM1 95 . NM_014992 exon20 c.C2440T p.L814L CAGTTGCTGGAGG . PASS Atlas-SNP FLT4 2324 hgsc.bcm.edu 37 5 180043439 180043439 + Silent SNP G G A rs56127961 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 193.0 94.0 154.0 0.0 0.487047 0 G|0.982;A|0.018 0.018 strong . FLT4 356 . NM_182925 exon23 c.C3147T p.D1049D CACCACGTCGCTT . PASS Atlas-SNP ADAM12 8038 hgsc.bcm.edu 37 10 127824167 127824167 + Silent SNP C C T rs12098586 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 125.0 61.0 143.0 0.0 0.488 0 C|0.960;T|0.040 0.040 strong . ADAM12 388 . NM_021641 exon5 c.G411A p.T137T AGAACACGTGCTG . PASS Atlas-SNP SIK2 23235 hgsc.bcm.edu 37 11 111594520 111594520 + Silent SNP G G A rs75997369 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 57.0 36.0 82.0 0.0 0.631579 0 G|0.997;A|0.003 0.003 strong . SIK2 89 . NM_015191 exon15 c.G2448A p.T816T GCCCACGCAGCTA . PASS Atlas-SNP DYSF 8291 hgsc.bcm.edu 37 2 71838661 71838661 + Missense_Mutation SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 66.0 31.0 79.0 0.0 0.469697 0 . . none DYSF_ENST00000410020,NS,carcinoma,0,2 DYSF 536 2 NM_001130982 exon39 c.G4168A p.V1390M AGCCTCGTGGTAG . PASS Atlas-SNP TNRC6A 27327 hgsc.bcm.edu 37 16 24802204 24802204 + Silent SNP C C T rs113288384 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 52.0 26.0 49.0 0.0 0.5 0 C|0.999;T|0.001 0.001 strong . TNRC6A 171 . NM_014494 exon6 c.C2241T p.D747D GACTGACAATGGG . PASS Atlas-SNP ZNF474 133923 hgsc.bcm.edu 37 5 121487954 121487954 + Missense_Mutation SNP G G A rs116158782 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 128.0 56.0 131.0 0.0 0.4375 0 G|0.988;A|0.012 0.012 strong . ZNF474 43 . NM_207317 exon2 c.G269A p.R90H CGGCCCGCAGGCC . PASS Atlas-SNP LILRB3 11025 hgsc.bcm.edu 37 19 54721272 54721272 + Missense_Mutation SNP C C T rs114189491 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 418.0 208.0 602.0 0.0 0.497608 0 C|0.961;T|0.039 0.039 strong . LILRB3 67 . NM_001081450 exon12 c.G1668A p.M556I AGAGGCCATTTCT . PASS Atlas-SNP ASPSCR1 79058 hgsc.bcm.edu 37 17 79943475 79943475 + Silent SNP A A G rs4796860 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 178.0 82.0 177.0 0.0 0.460674 0 A|0.983;G|0.017 0.017 strong . ASPSCR1 27 . NM_001251888 exon4 c.A366G p.P122P TTTTCCACAGATC . PASS Atlas-SNP CELSR1 9620 hgsc.bcm.edu 37 22 46760037 46760037 + Missense_Mutation SNP G G A rs6008777 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 159.0 85.0 122.0 0.0 0.534591 0 G|0.971;A|0.029 0.029 strong CELSR1,colon,carcinoma,+1,1 CELSR1 242 1 NM_014246 exon34 c.C8891T p.S2964L GTGCGCGAGGATG . PASS Atlas-SNP CLCA4 22802 hgsc.bcm.edu 37 1 87012929 87012929 + Missense_Mutation SNP C C T rs2231580 bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 94.0 50.0 95.0 0.0 0.531915 0 C|0.971;T|0.029 0.029 strong . CLCA4 131 . NM_012128 exon1 c.C127T p.P43S AGTGTGCCAGAAG . PASS Atlas-SNP DNAH10 196385 hgsc.bcm.edu 37 12 124409630 124409630 + Missense_Mutation SNP G G T rs74845458 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 282.0 136.0 258.0 0.0 0.482269 0 G|0.958;T|0.042 0.042 strong DNAH10_same_name,NS,carcinoma,0,2 DNAH10 888 2 NM_207437 exon67 c.G11446T p.V3816F TTTCCCGTCCCCT . PASS Atlas-SNP SACS 26278 hgsc.bcm.edu 37 13 23929189 23929189 + Missense_Mutation SNP C C G rs190617851 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 44.0 86.0 0.0 0.473118 0 C|1.000;G|0.000 0.000 strong . SACS 871 . NM_014363 exon8 c.G1562C p.S521T TCAGAGCTCTTTT . PASS Atlas-SNP CCDC88C 440193 hgsc.bcm.edu 37 14 91744348 91744348 + Missense_Mutation SNP C C T rs114849211 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 103.0 57.0 77.0 0.0 0.553398 0 C|0.994;T|0.006 0.006 strong KIAA1509,caecum,carcinoma,-1,6 CCDC88C 192 6 NM_001080414 exon29 c.G4976A p.R1659Q CAGGGCCGCACTC . PASS Atlas-SNP WNT4 54361 hgsc.bcm.edu 37 1 22446768 22446768 + Silent SNP G G A rs34228276 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 204.0 103.0 179.0 0.0 0.504902 0 G|0.968;A|0.032 0.032 strong . WNT4 33 . NM_030761 exon5 c.C831T p.P277P GAAGTCGGGGCTA . PASS Atlas-SNP ZNF469 84627 hgsc.bcm.edu 37 16 88504483 88504483 + Silent SNP C C G rs375672779 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 81.0 50.0 77.0 0.0 0.617284 0 . . weak . ZNF469 121 . NM_001127464 exon2 c.C10521G p.T3507T CGTGACCCACCCG . PASS Atlas-SNP RP1L1 94137 hgsc.bcm.edu 37 8 10464465 10464465 + Silent SNP G G A rs112520779 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 65.0 43.0 52.0 0.0 0.661538 0 A|0.002;G|0.998;T|0.000 0.002 strong RP1L1,NS,carcinoma,-2,1 RP1L1 453 1 NM_178857 exon4 c.C7143T p.L2381L GGGGGCGAGACTT . PASS Atlas-SNP ND4 0 hgsc.bcm.edu 37 MT 11959 11959 + Silent SNP A A G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 9.0 8.0 8.0 0.0 0.888889 0 . . none . . . . ENST00000361381 exon1 c.A1200G p.M400M CAACATACTAGTC . PASS Atlas-SNP ROBO1 6091 hgsc.bcm.edu 37 3 79174619 79174619 + Silent SNP C C T rs139237706 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 195.0 94.0 192.0 0.0 0.482051 0 C|0.998;T|0.002 0.002 strong . ROBO1 833 . NM_002941 exon3 c.G159A p.S53S GCCCAGCGAATTG . PASS Atlas-SNP TGM6 343641 hgsc.bcm.edu 37 20 2411118 2411118 + Missense_Mutation SNP T T A rs142406714 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 70.0 41.0 57.0 0.0 0.585714 0 T|1.000;A|0.000 0.000 weak . TGM6 126 . NM_198994 exon11 c.T1705A p.Y569N ATATCTTACTCTA . PASS Atlas-SNP UBR4 23352 hgsc.bcm.edu 37 1 19500830 19500830 + Missense_Mutation SNP T T G rs143098074 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 68.0 34.0 49.0 0.0 0.5 0 T|0.999;G|0.001 0.001 strong . UBR4 415 . NM_020765 exon22 c.A2965C p.K989Q CATTCTTGTTTTC . PASS Atlas-SNP EIF2AK2 5610 hgsc.bcm.edu 37 2 37353464 37353464 + Silent SNP A A G rs2307478 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 152.0 79.0 196.0 0.0 0.519737 0 A|0.985;G|0.015 0.015 strong . EIF2AK2 54 . NM_001135651 exon11 c.T876C p.T292T AACGTAAGTCTTT . PASS Atlas-SNP FTSJD2 23070 hgsc.bcm.edu 37 6 37426429 37426429 + Silent SNP T T C rs35608753 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 156.0 67.0 99.0 0.0 0.429487 0 T|0.986;C|0.014 0.014 strong . FTSJD2 64 . NM_015050 exon9 c.T819C p.F273F GTACTTTGCTGAT . PASS Atlas-SNP ANKRD40 91369 hgsc.bcm.edu 37 17 48774319 48774319 + Silent SNP G G A rs3815378 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 115.0 44.0 123.0 0.0 0.382609 0 G|0.963;A|0.037 0.037 strong . ANKRD40 35 . NM_052855 exon4 c.C942T p.P314P AGTATTGGGTAAC . PASS Atlas-SNP FUCA1 2517 hgsc.bcm.edu 37 1 24189740 24189740 + Silent SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 74.0 36.0 63.0 0.0 0.486486 0 . . none . FUCA1 24 . NM_000147 exon3 c.C546T p.Y182Y TGAGTGGTATAGT . PASS Atlas-SNP PCDHB11 56125 hgsc.bcm.edu 37 5 140580958 140580958 + Silent SNP C C A rs74949746 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 433.0 213.0 284.0 0.0 0.491917 0 C|0.991;A|0.009 0.009 strong PCDHB11,right_upper_lobe,carcinoma,+2,2 PCDHB11 162 2 NM_018931 exon1 c.C1611A p.G537G CCGCGGCTCCCCG . PASS Atlas-SNP RREB1 6239 hgsc.bcm.edu 37 6 7231280 7231280 + Missense_Mutation SNP T T C rs115093903 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 74.0 36.0 85.0 0.0 0.486486 0 T|0.989;C|0.011 0.011 strong . RREB1 242 . NM_001003700 exon10 c.T2948C p.L983S TAACTTTGGGGCC . PASS Atlas-SNP ARMC12 221481 hgsc.bcm.edu 37 6 35705059 35705059 + Silent SNP G G A rs56183341 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 116.0 56.0 116.0 0.0 0.482759 0 G|0.992;A|0.008 0.008 strong . . . . NM_145028 exon1 c.G174A p.P58P GTGTCCGGGCCCT . PASS Atlas-SNP GRIN3B 116444 hgsc.bcm.edu 37 19 1008704 1008704 + Missense_Mutation SNP G G A rs61744375 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 38.0 26.0 21.0 0.0 0.684211 0 G|0.965;A|0.035 0.035 strong . GRIN3B 46 . NM_138690 exon7 c.G2554A p.E852K CTGGGCGAGCACG . PASS Atlas-SNP C2CD4D 100191040 hgsc.bcm.edu 37 1 151810486 151810486 + Missense_Mutation SNP G G A rs188475396 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 114.0 53.0 97.0 0.0 0.464912 0 G|0.994;A|0.006 0.006 strong . C2CD4D 3 . NM_001136003 exon2 c.C980T p.T327M AGGGGCGTCTCGC . PASS Atlas-SNP RBM15 64783 hgsc.bcm.edu 37 1 110884493 110884493 + Silent SNP T T C rs61745292 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 140.0 60.0 120.0 0.0 0.428571 0 T|0.974;C|0.026 0.026 strong . RBM15 93 . NM_022768 exon1 c.T2466C p.T822T TTCAACTGGAGGC . PASS Atlas-SNP C20orf26 26074 hgsc.bcm.edu 37 20 20340872 20340872 + Missense_Mutation SNP A A G rs75487354 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 62.0 29.0 63.0 0.0 0.467742 0 A|0.984;G|0.016 0.016 strong . C20orf26 188 . NM_015585 exon27 c.A3532G p.I1178V CCTTCCATAGAGC . PASS Atlas-SNP ABCC5 10057 hgsc.bcm.edu 37 3 183696387 183696387 + Silent SNP G G A rs1053386 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 49.0 49.0 46.0 0.0 1 0 G|0.913;A|0.087 0.087 strong . ABCC5 142 . NM_005688 exon9 c.C1200T p.S400S AGTGATGCTCTGG . PASS Atlas-SNP FCGBP 8857 hgsc.bcm.edu 37 19 40399508 40399508 + Missense_Mutation SNP C C T rs6508919 bycluster;by2hit2allele TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 138.0 28.0 141.0 0.0 0.202899 0 . . weak FCGBP,NS,carcinoma,0,1 FCGBP 416 1 NM_003890 exon13 c.G6187A p.G2063S GGCAGCCGTGCTG . scavenged Atlas-SNP PTGFRN 5738 hgsc.bcm.edu 37 1 117484581 117484581 + Silent SNP C C T rs77895792 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 199.0 100.0 205.0 0.0 0.502513 0 C|0.995;T|0.005 0.005 strong . PTGFRN 91 . NM_020440 exon2 c.C294T p.A98A GACTGCCAACGAC . PASS Atlas-SNP SLC12A9 56996 hgsc.bcm.edu 37 7 100456506 100456506 + Silent SNP C C T rs78261122 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 196.0 90.0 148.0 0.0 0.459184 0 C|0.994;T|0.006 0.006 strong . SLC12A9 81 . NM_001267812 exon6 c.C807T p.S269S TGCCAGCGTCTTT . PASS Atlas-SNP ECE2 9718 hgsc.bcm.edu 37 3 184005719 184005719 + Missense_Mutation SNP G G A rs35875049 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 64.0 30.0 65.0 1.0 0.46875 0.0153846 G|0.967;A|0.033 0.033 strong ECE2_ENST00000402825,colon,carcinoma,0,3 ECE2 303 3 NM_014693 exon11 c.G1712A p.R571Q TTGACCGGCAAAG . scavenged Atlas-SNP ANKRD13B 124930 hgsc.bcm.edu 37 17 27939427 27939427 + Silent SNP G G C rs147156385 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 213.0 104.0 249.0 1.0 0.488263 0.00401606 G|0.998;C|0.002 0.002 strong ANKRD13B,NS,carcinoma,0,1 ANKRD13B 39 1 NM_152345 exon12 c.G1266C p.P422P AATCCCGATCTTC . PASS Atlas-SNP ND4 0 hgsc.bcm.edu 37 MT 11887 11887 + Silent SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 12.0 12.0 6.0 0.0 1 0 . . none . . . . ENST00000361381 exon1 c.G1128A p.L376L CCTACTGGGAGAA . PASS Atlas-SNP PCDHA7 56141 hgsc.bcm.edu 37 5 140216125 140216125 + Silent SNP G G A rs61730621 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 338.0 183.0 302.0 1.0 0.54142 0.00331126 G|0.982;A|0.018 0.018 strong . PCDHA7 367 . NM_031852 exon1 c.G2157A p.T719T GTACACGGCGTTG . PASS Atlas-SNP NOD2 64127 hgsc.bcm.edu 37 16 50746191 50746191 + Missense_Mutation SNP G G A rs5743279 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 125.0 67.0 102.0 0.0 0.536 0 G|0.989;A|0.011 0.011 strong NOD2,colon,carcinoma,+1,2 NOD2 118 2 NM_022162 exon4 c.G2369A p.R790Q ACCTCCGGCGGCC . PASS Atlas-SNP SLC37A3 84255 hgsc.bcm.edu 37 7 140048445 140048445 + Silent SNP G G A rs73472776 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 56.0 29.0 57.0 0.0 0.517857 0 G|0.961;A|0.039 0.039 strong . SLC37A3 80 . NM_207113 exon10 c.C1005T p.Y335Y AACGTCGTACCAA . PASS Atlas-SNP TBC1D24 57465 hgsc.bcm.edu 37 16 2546356 2546356 + Silent SNP T T C rs13339237 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 105.0 105.0 116.0 1.0 1 0.00862069 T|0.941;C|0.059 0.059 strong . TBC1D24 35 . NM_001199107 exon2 c.T207C p.P69P CACGCCTGACGCC . PASS Atlas-SNP ABL1 25 hgsc.bcm.edu 37 9 133759546 133759546 + Silent SNP G G A rs34717358 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 80.0 63.0 52.0 0.0 0.7875 0 G|0.971;A|0.029 0.029 strong . ABL1 1632 . NM_007313 exon11 c.G1926A p.E642E CCGGGAGATGGAC . PASS Atlas-SNP CCDC107 203260 hgsc.bcm.edu 37 9 35661088 35661088 + Silent SNP G G A rs10441686 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 134.0 64.0 133.0 0.0 0.477612 0 G|0.925;A|0.075 0.075 strong . CCDC107 12 . NM_174923 exon5 c.G756A p.R252R GAGAAGGTGCAGC . PASS Atlas-SNP GPR179 440435 hgsc.bcm.edu 37 17 36487060 36487060 + Missense_Mutation SNP C C T rs78470373 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 46.0 26.0 47.0 0.0 0.565217 0 C|0.995;T|0.005 0.005 strong . GPR179 170 . NM_001004334 exon11 c.G2392A p.A798T GAGAGGCCTTCTT . PASS Atlas-SNP CLDND2 125875 hgsc.bcm.edu 37 19 51871157 51871157 + Missense_Mutation SNP G G A rs74538792 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 80.0 41.0 61.0 0.0 0.5125 0 G|0.968;A|0.032 0.032 strong . CLDND2 11 . NM_152353 exon2 c.C293T p.A98V AGGAAGGCGCTCG . PASS Atlas-SNP SPRTN 83932 hgsc.bcm.edu 37 1 231487133 231487133 + Silent SNP G G A rs73116379 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 104.0 48.0 95.0 0.0 0.461538 0 G|0.983;A|0.017 0.017 strong . . . . NM_032018 exon4 c.G534A p.P178P GCCACCGTATTAC . PASS Atlas-SNP DICER1 23405 hgsc.bcm.edu 37 14 95572111 95572111 + Silent SNP A A C rs12018992 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 115.0 47.0 127.0 0.0 0.408696 0 A|0.977;C|0.023 0.023 strong . DICER1 181 . NM_030621 exon20 c.T2997G p.L999L TGTCAAAAGATTA . PASS Atlas-SNP C1orf106 55765 hgsc.bcm.edu 37 1 200860731 200860731 + Silent SNP G G A rs141245080 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 188.0 106.0 182.0 0.0 0.56383 0 A|0.008;C|0.001;G|0.991 0.008 strong . C1orf106 59 . NM_018265 exon1 c.G105A p.R35R GGCTCGGGGGGAG . PASS Atlas-SNP PCDHGA2 56113 hgsc.bcm.edu 37 5 140719294 140719294 + Silent SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 48.0 26.0 64.0 0.0 0.541667 0 . . none . PCDHGA2 205 . NM_018915 exon1 c.G756A p.P252P CATTCCGGAGAAT . PASS Atlas-SNP PREPL 9581 hgsc.bcm.edu 37 2 44550528 44550528 + Missense_Mutation SNP T T C rs75128515 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 136.0 68.0 89.0 0.0 0.5 0 T|0.987;C|0.013 0.013 strong . PREPL 69 . NM_001171603 exon12 c.A1769G p.N590S ATGGTGTTGAGAA . PASS Atlas-SNP CYP4B1 1580 hgsc.bcm.edu 37 1 47283814 47283814 + Silent SNP T T C rs74072926 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 187.0 95.0 202.0 0.0 0.508021 0 T|0.995;C|0.005 0.005 strong CYP4B1,bladder,carcinoma,+1,2 CYP4B1 81 2 NM_001099772 exon11 c.T1284C p.S428S TGACTCTCTGCGC . PASS Atlas-SNP RTL1 388015 hgsc.bcm.edu 37 14 101347090 101347090 + Missense_Mutation SNP C C T rs73349352 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 173.0 86.0 153.0 0.0 0.49711 0 C|0.966;T|0.034 0.034 strong . RTL1 120 . NM_001134888 exon1 c.G4036A p.E1346K GCTCTTCTAGCCT . PASS Atlas-SNP PCDH11X 27328 hgsc.bcm.edu 37 X 91090533 91090533 + Silent SNP C C T rs56704613 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 479.0 477.0 517.0 0.0 0.995825 0 C|0.922;T|0.078 0.078 strong . PCDH11X 714 . NM_001168363 exon1 c.C30T p.F10F CATTTTCGCGGTC . PASS Atlas-SNP CD1E 913 hgsc.bcm.edu 37 1 158326645 158326645 + Missense_Mutation SNP G G A rs61734680 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 99.0 48.0 97.0 0.0 0.484848 0 G|0.978;A|0.022 0.022 strong . CD1E 129 . NM_030893 exon6 c.G1126A p.V376I AACAGAGTATTGA . PASS Atlas-SNP NPY2R 4887 hgsc.bcm.edu 37 4 156135250 156135250 + Silent SNP C C T rs2342674 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 272.0 133.0 262.0 0.0 0.488971 0 C|0.967;T|0.033 0.033 strong . NPY2R 87 . NM_000910 exon2 c.C159T p.L53L TGTTCTCATATTG . PASS Atlas-SNP HLA-DRB1 3123 hgsc.bcm.edu 37 6 32548534 32548534 + Missense_Mutation SNP C C T rs71547382 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 439.0 28.0 191.0 0.0 0.0637813 0 C|1.000;|0.000 . weak . HLA-DRB1 41 . NM_002124 exon4 c.G752A p.R251K TGATTCCTGAAGT . PASS Atlas-SNP SLC35G3 146861 hgsc.bcm.edu 37 17 33520904 33520904 + Silent SNP G G A rs61753879 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 211.0 104.0 195.0 0.0 0.492891 0 G|0.977;A|0.023 0.023 strong . . . . NM_152462 exon1 c.C423T p.C141C GGCGGAGCAGACG . PASS Atlas-SNP OR4F6 390648 hgsc.bcm.edu 37 15 102346030 102346030 + Silent SNP G G A rs401632 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 279.0 135.0 267.0 1.0 0.483871 0.00374532 G|0.944;A|0.056 0.056 strong . OR4F6 45 . NM_001005326 exon1 c.G108A p.V36V CTATGTGTCAAGC . PASS Atlas-SNP SPDYA 245711 hgsc.bcm.edu 37 2 29063342 29063342 + Missense_Mutation SNP T T C rs6747208 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 109.0 56.0 110.0 0.0 0.513761 0 T|0.993;C|0.007 0.007 strong . SPDYA 41 . NM_001008779 exon5 c.T857C p.I286T GTATGATTTAGTA . PASS Atlas-SNP GPRC6A 222545 hgsc.bcm.edu 37 6 117130561 117130561 + Silent SNP T T G rs76688215 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 135.0 63.0 113.0 0.0 0.466667 0 T|0.984;G|0.016 0.016 strong . GPRC6A 152 . NM_148963 exon2 c.A414C p.P138P AACTCTTGGCATG . PASS Atlas-SNP MYO10 4651 hgsc.bcm.edu 37 5 16673800 16673800 + Silent SNP G G A rs3188408 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 135.0 65.0 125.0 0.0 0.481481 0 G|0.980;A|0.020 0.020 strong . MYO10 198 . NM_012334 exon36 c.C5163T p.T1721T CCCAGCGGTGGTG . PASS Atlas-SNP FAM9A 171482 hgsc.bcm.edu 37 X 8764370 8764370 + Missense_Mutation SNP C C T rs148031370 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 140.0 65.0 148.0 0.0 0.464286 0 C|0.996;T|0.004 0.004 strong . FAM9A 57 . NM_174951 exon6 c.G427A p.A143T AAGCTGCTTTATC . PASS Atlas-SNP ANK3 288 hgsc.bcm.edu 37 10 61830256 61830256 + Silent SNP T T C rs61732400 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 120.0 62.0 114.0 0.0 0.516667 0 T|0.970;C|0.030 0.030 strong . ANK3 703 . NM_020987 exon37 c.A10383G p.Q3461Q TTTACTTTGGCTA . PASS Atlas-SNP TOX3 27324 hgsc.bcm.edu 37 16 52484317 52484317 + Missense_Mutation SNP C C T rs114182621 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 140.0 70.0 118.0 0.0 0.5 0 C|0.992;T|0.008 0.008 strong . TOX3 121 . NM_001080430 exon4 c.G550A p.A184T ACTGGGCGCTGAG . PASS Atlas-SNP ZNF800 168850 hgsc.bcm.edu 37 7 127026184 127026184 + Silent SNP A A C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 83.0 42.0 72.0 0.0 0.506024 0 . . none . ZNF800 78 . NM_176814 exon3 c.T87G p.P29P CAAAGGAGGATCT . PASS Atlas-SNP PLIN4 729359 hgsc.bcm.edu 37 19 4512534 4512534 + Missense_Mutation SNP C C T rs61730732 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 227.0 100.0 182.0 0.0 0.440529 0 C|0.991;T|0.009 0.009 strong . PLIN4 191 . NM_001080400 exon3 c.G1396A p.A466T CTTTGGCCACATT . PASS Atlas-SNP KRTAP5-9 3846 hgsc.bcm.edu 37 11 71259818 71259818 + Missense_Mutation SNP G G A rs146869772 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 324.0 145.0 293.0 0.0 0.447531 0 G|0.999;A|0.001 0.001 strong KRTAP5-9,caecum,carcinoma,0,1 KRTAP5-9 19 1 NM_005553 exon1 c.G115A p.V39I GCACCCGTCTACT . PASS Atlas-SNP FAM149A 25854 hgsc.bcm.edu 37 4 187088170 187088170 + Missense_Mutation SNP G G A rs141044925 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 129.0 51.0 119.0 0.0 0.395349 0 G|0.995;A|0.005 0.005 strong . FAM149A 52 . NM_001006655 exon11 c.G1213A p.G405S CCTGACGGTACAG . PASS Atlas-SNP TEKT2 27285 hgsc.bcm.edu 37 1 36551495 36551495 + Missense_Mutation SNP T T C rs419653 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 160.0 65.0 143.0 0.0 0.40625 0 T|0.990;C|0.010 0.010 strong . TEKT2 32 . NM_014466 exon4 c.T341C p.I114T TGGCCATTGAGTG . PASS Atlas-SNP GATA4 2626 hgsc.bcm.edu 37 8 11614559 11614559 + Silent SNP A A G rs112435835 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 259.0 132.0 301.0 0.0 0.509652 0 A|0.993;G|0.007 0.007 strong . GATA4 29 . NM_002052 exon6 c.A1113G p.S371S CCTGTCATCTCAC . PASS Atlas-SNP DLC1 10395 hgsc.bcm.edu 37 8 13357331 13357331 + Missense_Mutation SNP C C T rs35173269 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 65.0 34.0 63.0 0.0 0.523077 0 C|0.981;T|0.019 0.019 strong . DLC1 411 . NM_182643 exon2 c.G250A p.D84N CCACATCCTTTGA . PASS Atlas-SNP IFNA6 3443 hgsc.bcm.edu 37 9 21350487 21350487 + Silent SNP G G A rs61736258 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 361.0 179.0 371.0 0.0 0.495845 0 G|0.971;A|0.029 0.029 strong . IFNA6 27 . NM_021002 exon1 c.C400T p.L134L TCATCAGGGGAGT . PASS Atlas-SNP MIA2 117153 hgsc.bcm.edu 37 14 39717002 39717002 + Silent SNP A A G rs17109049 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 46.0 46.0 41.0 0.0 1 0 A|0.921;G|0.079 0.079 strong . MIA2 82 . NM_054024 exon4 c.A1224G p.A408A TGGGGCAGATGAA . PASS Atlas-SNP EHHADH 1962 hgsc.bcm.edu 37 3 184922267 184922267 + Missense_Mutation SNP T T C rs115754857 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 56.0 21.0 61.0 0.0 0.375 0 T|0.986;C|0.014 0.014 strong . EHHADH 73 . NM_001966 exon6 c.A847G p.T283A AGGGAGTTGACCA . PASS Atlas-SNP URGCP-MRPS24 0 hgsc.bcm.edu 37 7 43908661 43908661 + Missense_Mutation SNP G G T rs17854882 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 151.0 73.0 83.0 0.0 0.483444 0 G|0.971;T|0.029 0.029 strong . . . . NM_001204871 exon6 c.C257A p.P86Q GTACTCGGGCCGC . PASS Atlas-SNP CCDC102B 79839 hgsc.bcm.edu 37 18 66678182 66678182 + Missense_Mutation SNP C C A rs17080065 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 88.0 50.0 97.0 0.0 0.568182 0 C|0.972;A|0.028 0.028 strong . CCDC102B 92 . NM_001093729 exon9 c.C1275A p.N425K ACTGAACCTTCAA . PASS Atlas-SNP CXCR7 57007 hgsc.bcm.edu 37 2 237489796 237489796 + Missense_Mutation SNP G G A rs35095494 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 172.0 90.0 136.0 0.0 0.523256 0 G|0.984;A|0.016 0.016 strong . CXCR7 72 . NM_020311 exon2 c.G688A p.V230I ATCGCTGTCTTCT . PASS Atlas-SNP GPR148 344561 hgsc.bcm.edu 37 2 131487691 131487691 + Missense_Mutation SNP C C T rs143265147 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 114.0 58.0 78.0 0.0 0.508772 0 C|0.996;T|0.004 0.004 strong GPR148,NS,carcinoma,0,1 GPR148 54 1 NM_207364 exon1 c.C967T p.R323C CTGCTCCGCTACC . PASS Atlas-SNP ADAMDEC1 27299 hgsc.bcm.edu 37 8 24251659 24251659 + Missense_Mutation SNP T T C rs7007084 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 65.0 32.0 76.0 0.0 0.492308 0 T|0.967;C|0.033 0.033 strong . ADAMDEC1 69 . NM_014479 exon4 c.T362C p.M121T AGAACATGGTAGG . PASS Atlas-SNP CCT8L2 150160 hgsc.bcm.edu 37 22 17072347 17072347 + Nonsense_Mutation SNP C C T rs139948519 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 53.0 29.0 69.0 0.0 0.54717 0 C|0.982;T|0.018 0.018 strong . CCT8L2 150 . NM_014406 exon1 c.G1094A p.W365X CATTCCCATTCAA . PASS Atlas-SNP TTC24 164118 hgsc.bcm.edu 37 1 156555577 156555577 + Missense_Mutation SNP C C T rs147693801 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 155.0 65.0 123.0 0.0 0.419355 0 C|0.994;T|0.006 0.006 strong TTC24,right_upper_lobe,carcinoma,-1,1 TTC24 46 1 NM_001105669 exon9 c.C1529T p.T510M AGCACACGCCCTG . PASS Atlas-SNP U2SURP 23350 hgsc.bcm.edu 37 3 142747230 142747230 + Silent SNP G G A rs80238215 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 184.0 85.0 232.0 0.0 0.461957 0 G|0.991;A|0.009 0.009 strong . U2SURP 66 . NM_001080415 exon15 c.G1428A p.K476K GTGGAAGCTTTAT . PASS Atlas-SNP HTR3E 285242 hgsc.bcm.edu 37 3 183824398 183824398 + Missense_Mutation SNP G G A rs13324468 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 283.0 146.0 328.0 0.0 0.515901 0 G|0.941;A|0.059 0.059 strong . HTR3E 65 . NM_001256614 exon7 c.G1366A p.A456T AGCCACGCGATGG . PASS Atlas-SNP CBL 867 hgsc.bcm.edu 37 11 119170480 119170480 + Missense_Mutation SNP G G A rs17122769 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 69.0 30.0 72.0 0.0 0.434783 0 G|0.993;A|0.007 0.007 strong . CBL 408 . NM_005188 exon16 c.G2710A p.V904I GCCCATGTAGCTA . PASS Atlas-SNP ZYG11A 440590 hgsc.bcm.edu 37 1 53326421 53326421 + Missense_Mutation SNP A A G rs61744306 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 246.0 103.0 255.0 0.0 0.418699 0 A|0.983;G|0.017 0.017 strong . ZYG11A 46 . NM_001004339 exon4 c.A1027G p.M343V GCCAGTATGAGTC . PASS Atlas-SNP EIF3K 27335 hgsc.bcm.edu 37 19 39125677 39125677 + Missense_Mutation SNP G G A rs138580388 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 106.0 46.0 70.0 0.0 0.433962 0 G|0.998;A|0.002 0.002 strong . EIF3K 22 . NM_013234 exon7 c.G544A p.D182N AGTGCCGACGAGT . PASS Atlas-SNP LRWD1 222229 hgsc.bcm.edu 37 7 102106459 102106459 + Silent SNP G G A rs146433593 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 108.0 56.0 96.0 0.0 0.518519 0 G|0.995;A|0.005 0.005 strong . LRWD1 41 . NM_152892 exon2 c.G276A p.K92K CCCCAAGCTCGAG . PASS Atlas-SNP ZNF611 81856 hgsc.bcm.edu 37 19 53219140 53219140 + Missense_Mutation SNP C C T rs146379839 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 37.0 13.0 54.0 0.0 0.351351 0 C|0.999;T|0.001 0.001 strong . ZNF611 72 . NM_030972 exon5 c.G8A p.R3H TCCTCACGTAACA . PASS Atlas-SNP CHTF18 63922 hgsc.bcm.edu 37 16 842972 842972 + Missense_Mutation SNP C C G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 102.0 50.0 63.0 0.0 0.490196 0 . . none . CHTF18 52 . NM_022092 exon13 c.C1579G p.L527V GTCTCCCTGCGGC . PASS Atlas-SNP ZC3H18 124245 hgsc.bcm.edu 37 16 88643806 88643806 + Missense_Mutation SNP C C G rs114866066 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 31.0 18.0 43.0 0.0 0.580645 0 C|0.999;G|0.001 0.001 strong . ZC3H18 90 . NM_144604 exon2 c.C275G p.P92R GGGGCCCGACCAG . PASS Atlas-SNP ETV7 51513 hgsc.bcm.edu 37 6 36339176 36339176 + Missense_Mutation SNP C C T rs34306145 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 49.0 20.0 58.0 0.0 0.408163 0 C|0.987;T|0.013 0.013 strong . ETV7 31 . NM_001207035 exon5 c.G595A p.G199S TGCAGCCGAGCTC . PASS Atlas-SNP ZNF658 26149 hgsc.bcm.edu 37 9 40774091 40774091 + Missense_Mutation SNP C C T rs79262629 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 543.0 183.0 532.0 2.0 0.337017 0.0037594 C|0.990;T|0.010 0.010 strong ZNF658,lower_third,carcinoma,-1,1 ZNF658 100 1 NM_033160 exon5 c.G1184A p.R395Q GCTTTCCGGTAAA . scavenged Atlas-SNP MTA1 9112 hgsc.bcm.edu 37 14 105931109 105931109 + Silent SNP C C T rs36015555 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 60.0 39.0 42.0 0.0 0.65 0 C|0.947;T|0.053 0.053 strong . MTA1 61 . NM_004689 exon15 c.C1443T p.I481I GCGGATCGCCCGG . PASS Atlas-SNP TRIP11 9321 hgsc.bcm.edu 37 14 92474136 92474136 + Missense_Mutation SNP C C T rs372171033 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 83.0 35.0 127.0 0.0 0.421687 0 . . weak . TRIP11 184 . NM_004239 exon10 c.G1375A p.A459T TTGTAGCTGTACT . PASS Atlas-SNP FLG 2312 hgsc.bcm.edu 37 1 152284457 152284457 + Missense_Mutation SNP T T A rs3120652 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 538.0 214.0 446.0 0.0 0.39777 0 T|0.942;A|0.058 0.058 strong . FLG 900 . NM_002016 exon3 c.A2905T p.N969Y GATGGTTTCTGGA . PASS Atlas-SNP SPG7 6687 hgsc.bcm.edu 37 16 89623301 89623301 + Missense_Mutation SNP A A G rs35749032 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 45.0 91.0 0.0 0.483871 0 A|0.982;G|0.018 0.018 strong . SPG7 75 . NM_003119 exon17 c.A2188G p.N730D CTGGCAAACGCCC . PASS Atlas-SNP RPAP1 26015 hgsc.bcm.edu 37 15 41815063 41815063 + Missense_Mutation SNP C C T rs61748721 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 51.0 29.0 44.0 0.0 0.568627 0 C|0.958;T|0.042 0.042 strong . RPAP1 111 . NM_015540 exon19 c.G2642A p.R881H CTGAGACGGGGGC . PASS Atlas-SNP PKD1L2 114780 hgsc.bcm.edu 37 16 81208473 81208473 + Missense_Mutation SNP G G T rs115666278 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 90.0 43.0 84.0 0.0 0.477778 0 G|0.963;T|0.037 0.037 strong . PKD1L2 361 . NM_001076780 exon16 c.C2630A p.A877D GACACGGCAGCCT . PASS Atlas-SNP NLRP6 171389 hgsc.bcm.edu 37 11 284299 284299 + Silent SNP A A G rs7108261 bycluster;byfrequency;by2hit2allele;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 94.0 42.0 67.0 1.0 0.446809 0.0149254 A|0.837;G|0.163 0.163 strong NALP6,NS,carcinoma,+1,1 NLRP6 4 1 NM_138329 exon6 c.A2271G p.A757A CCCCGCACTGACG . scavenged Atlas-SNP COPG1 22820 hgsc.bcm.edu 37 3 128984409 128984409 + Silent SNP G G A rs78889622 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 140.0 63.0 126.0 0.0 0.45 0 G|0.973;A|0.027 0.027 strong . . . . NM_016128 exon14 c.G1242A p.K414K GTATAAGCGCGCT . PASS Atlas-SNP MIS18BP1 55320 hgsc.bcm.edu 37 14 45693648 45693648 + Silent SNP G G A rs35223850 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 85.0 42.0 115.0 0.0 0.494118 0 G|0.954;A|0.046 0.046 strong . MIS18BP1 92 . NM_018353 exon11 c.C2142T p.C714C TTCATCGCAATCT . PASS Atlas-SNP KIAA1731 85459 hgsc.bcm.edu 37 11 93460264 93460264 + Missense_Mutation SNP C C G rs61740994 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 160.0 83.0 185.0 0.0 0.51875 0 C|0.989;G|0.011 0.011 strong . KIAA1731 173 . NM_033395 exon24 c.C6622G p.Q2208E AAAAATCAGAACT . PASS Atlas-SNP TP53BP2 7159 hgsc.bcm.edu 37 1 223984072 223984072 + Silent SNP G G A rs141654811 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 247.0 112.0 283.0 0.0 0.453441 0 G|1.000;A|0.000 0.000 strong . TP53BP2 144 . NM_001031685 exon13 c.C2169T p.D723D TTCTAGGTCAGCA . PASS Atlas-SNP LRPPRC 10128 hgsc.bcm.edu 37 2 44175293 44175293 + Silent SNP G G A rs35881858 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 53.0 19.0 32.0 0.0 0.358491 0 G|0.983;A|0.017 0.017 strong . LRPPRC 105 . NM_133259 exon18 c.C1888T p.L630L TTTCCAGGAGATT . PASS Atlas-SNP TJP1 7082 hgsc.bcm.edu 37 15 30012209 30012209 + Silent SNP A A C rs376115263 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 86.0 41.0 80.0 0.0 0.476744 0 . . weak . TJP1 140 . NM_003257 exon20 c.T2775G p.A925A AGATGAAGCTTCT . PASS Atlas-SNP FUT7 2529 hgsc.bcm.edu 37 9 139925459 139925459 + Silent SNP G G A rs11145973 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 98.0 71.0 76.0 0.0 0.72449 0 G|0.993;A|0.007 0.007 strong . FUT7 24 . NM_004479 exon2 c.C732T p.N244N CAGTGCGTTGCGC . PASS Atlas-SNP CLEC2L 154790 hgsc.bcm.edu 37 7 139225215 139225215 + Silent SNP T T C rs112553913 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 126.0 67.0 139.0 0.0 0.531746 0 T|0.972;C|0.028 0.028 strong . CLEC2L 14 . NM_001080511 exon3 c.T414C p.I138I TGTGATTCAGAGC . PASS Atlas-SNP CYTH2 9266 hgsc.bcm.edu 37 19 48977189 48977189 + Silent SNP C C T rs28582663 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 74.0 74.0 89.0 0.0 1 0 C|0.982;T|0.018 0.018 strong . CYTH2 33 . NM_017457 exon6 c.C462T p.P154P CCTACCCGGAGAG . PASS Atlas-SNP ADORA3 140 hgsc.bcm.edu 37 1 112045709 112045709 + Missense_Mutation SNP G G C rs77883500 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 291.0 135.0 262.0 0.0 0.463918 0 G|0.985;C|0.015 0.015 strong . ADORA3 104 . NM_020683 exon1 c.C268G p.L90V TAAGCAGTAGGCA . PASS Atlas-SNP CYTB 0 hgsc.bcm.edu 37 MT 15139 15139 + Silent SNP T T C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 17.0 17.0 15.0 0.0 1 0 . . none . . . . ENST00000361789 exon1 c.T393C p.Y131Y AGGCTATGTCCTC . PASS Atlas-SNP CBLC 23624 hgsc.bcm.edu 37 19 45281375 45281375 + Missense_Mutation SNP C C T rs115775900 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 10.0 8.0 6.0 0.0 0.8 0 C|0.983;T|0.017 0.017 strong . CBLC 41 . NM_001130852 exon1 c.C187T p.R63W TCTCGGCGGGCGG . PASS Atlas-SNP ETNK2 55224 hgsc.bcm.edu 37 1 204109238 204109238 + Missense_Mutation SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 111.0 53.0 100.0 0.0 0.477477 0 . . none ETNK2_ENST00000367202,NS,carcinoma,0,2 ETNK2 48 2 NM_018208 exon5 c.C793T p.R265W TGAACCGCACGTG . PASS Atlas-SNP COL1A2 1278 hgsc.bcm.edu 37 7 94028386 94028386 + Missense_Mutation SNP G G A rs139528613 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 44.0 81.0 0.0 0.578947 0 G|0.996;A|0.004 0.004 strong . COL1A2 240 . NM_000089 exon4 c.G122A p.R41H GACCACGTGGAGA . PASS Atlas-SNP RETSAT 54884 hgsc.bcm.edu 37 2 85570440 85570440 + Silent SNP G G A rs150706527 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 328.0 73.0 299.0 0.0 0.222561 0 G|0.996;A|0.004 0.004 strong RETSAT,NS,carcinoma,-2,1 RETSAT 56 1 NM_017750 exon11 c.C1758T p.A586A CAGGATGGCGCTG . PASS Atlas-SNP DHX9 1660 hgsc.bcm.edu 37 1 182827297 182827297 + Silent SNP G G A rs73063095 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 173.0 76.0 178.0 0.0 0.439306 0 G|0.986;A|0.014 0.014 strong . DHX9 114 . NM_001357 exon8 c.G732A p.L244L TGCCCTGTCACTT . PASS Atlas-SNP GALNT9 50614 hgsc.bcm.edu 37 12 132681664 132681664 + Silent SNP G G A rs111344752 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 129.0 64.0 134.0 0.0 0.496124 0 G|0.990;A|0.010 0.010 strong . GALNT9 74 . NM_001122636 exon11 c.C1800T p.H600H CCGTGCGTGTTTG . PASS Atlas-SNP EPB41 2035 hgsc.bcm.edu 37 1 29391505 29391505 + Silent SNP G G A rs79677225 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 62.0 25.0 79.0 0.0 0.403226 0 G|0.991;A|0.009 0.009 strong . EPB41 118 . NM_001166005 exon16 c.G2019A p.K673K AGACAAGAGTCAA . PASS Atlas-SNP PPP6R3 55291 hgsc.bcm.edu 37 11 68341661 68341661 + Silent SNP C C A rs114505709 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 68.0 23.0 54.0 0.0 0.338235 0 C|0.991;A|0.009 0.009 strong . PPP6R3 159 . NM_001164162 exon13 c.C1428A p.P476P GGGCCCCAACAGT . PASS Atlas-SNP FLG 2312 hgsc.bcm.edu 37 1 152284382 152284382 + Missense_Mutation SNP C C T rs149595328 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 674.0 50.0 581.0 0.0 0.074184 0 C|0.995;T|0.005 0.005 strong FLG,NS,carcinoma,+1,2 FLG 900 2 NM_002016 exon3 c.G2980A p.G994S CGTGACCGGCTCT . PASS Atlas-SNP SYNE2 23224 hgsc.bcm.edu 37 14 64604634 64604634 + Silent SNP T T C rs8007874 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 95.0 51.0 107.0 0.0 0.536842 0 T|0.941;C|0.059 0.059 strong . SYNE2 577 . NM_182914 exon79 c.T14776C p.L4926L CAGTGGTTGTCCC . PASS Atlas-SNP TMPRSS9 360200 hgsc.bcm.edu 37 19 2389813 2389813 + Silent SNP C C T rs8100380 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 86.0 45.0 81.0 0.0 0.523256 0 C|0.948;T|0.052 0.052 strong . TMPRSS9 79 . NM_182973 exon1 c.C30T p.L10L ACACCTCGTGCCC . PASS Atlas-SNP PCDH12 51294 hgsc.bcm.edu 37 5 141329059 141329059 + Missense_Mutation SNP T T G rs61737141 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 94.0 52.0 93.0 0.0 0.553191 0 T|0.989;G|0.011 0.011 strong . PCDH12 133 . NM_016580 exon3 c.A3068C p.E1023A AGGTCCTCTTCAG . PASS Atlas-SNP ZNF257 113835 hgsc.bcm.edu 37 19 22256358 22256358 + Missense_Mutation SNP A A G rs73930397 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 57.0 27.0 57.0 0.0 0.473684 0 A|0.967;G|0.033 0.033 strong . ZNF257 156 . NM_033468 exon3 c.A218G p.K73R TAGCCAAACCCCC . PASS Atlas-SNP IMPA2 3613 hgsc.bcm.edu 37 18 12009913 12009913 + Missense_Mutation SNP G G A rs16976948 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 111.0 55.0 98.0 0.0 0.495495 0 G|0.979;A|0.021 0.021 strong . IMPA2 27 . NM_014214 exon3 c.G262A p.A88T TCTGGGGCCAAGT . PASS Atlas-SNP KRTAP4-3 85290 hgsc.bcm.edu 37 17 39324410 39324410 + Silent SNP G G A rs73985507 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 211.0 211.0 148.0 0.0 1 0 G|0.944;A|0.056 0.056 strong . KRTAP4-3 40 . NM_033187 exon1 c.C15T p.C5C GCCACAGCAGGAG . PASS Atlas-SNP CCL4L1 9560 hgsc.bcm.edu 37 17 34641448 34641448 + Splice_Site SNP A A G rs4796195 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 334.0 28.0 871.0 0.0 0.0838323 0 G|1.000;|0.000 1.000 weak CCL4L2,NS,carcinoma,0,1 . . 1 NM_001001435 exon3 c.192-2A>G . TTCTACAGATTCC . scavenged Atlas-SNP ALOX5AP 241 hgsc.bcm.edu 37 13 31309719 31309719 + Missense_Mutation SNP C C T rs17245407 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 127.0 75.0 77.0 0.0 0.590551 0 C|0.968;T|0.032 0.032 strong . ALOX5AP 12 . NM_001204406 exon2 c.C148T p.L50F GCAGTCCTCTCTG . PASS Atlas-SNP ACAD8 27034 hgsc.bcm.edu 37 11 134131033 134131033 + Silent SNP C C T rs36115758 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 118.0 57.0 132.0 0.0 0.483051 0 C|0.993;T|0.007 0.007 strong . ACAD8 33 . NM_014384 exon7 c.C801T p.L267L CTTCCTCATTGCC . PASS Atlas-SNP RTN4RL1 146760 hgsc.bcm.edu 37 17 1840079 1840079 + Missense_Mutation SNP C C T rs143202933 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 158.0 71.0 129.0 0.0 0.449367 0 C|0.997;T|0.003 0.003 strong . RTN4RL1 21 . NM_178568 exon2 c.G1037A p.R346Q CCGGGCCGGGGGC . PASS Atlas-SNP SLC4A4 8671 hgsc.bcm.edu 37 4 72338467 72338467 + Silent SNP C C T rs35169468 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 124.0 52.0 117.0 0.0 0.419355 0 C|0.988;T|0.012 0.012 strong . SLC4A4 269 . NM_001098484 exon14 c.C1683T p.S561S GTGGTCCGCCTTC . PASS Atlas-SNP LUZP1 7798 hgsc.bcm.edu 37 1 23419806 23419806 + Missense_Mutation SNP A A C rs12091554 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 169.0 79.0 216.0 0.0 0.467456 0 A|0.952;C|0.048 0.048 strong . LUZP1 83 . NM_033631 exon4 c.T949G p.S317A TTTTGGACTTCAT . PASS Atlas-SNP DYX1C1 161582 hgsc.bcm.edu 37 15 55790414 55790414 + Missense_Mutation SNP G G T rs16976354 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 132.0 53.0 110.0 0.0 0.401515 0 G|0.928;T|0.072 0.072 strong . DYX1C1 54 . NM_001033560 exon2 c.C114A p.N38K CAGATAGTTTTCC . PASS Atlas-SNP NPR3 4883 hgsc.bcm.edu 37 5 32712119 32712119 + Silent SNP T T C rs6859964 bycluster;byfrequency;by2hit2allele;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 124.0 61.0 99.0 0.0 0.491935 0 T|0.956;C|0.044 0.044 strong . NPR3 65 . NM_000908 exon1 c.T237C p.A79A GTATGCTCTGCGC . PASS Atlas-SNP WDR96 80217 hgsc.bcm.edu 37 10 105906077 105906077 + Missense_Mutation SNP T T C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 167.0 85.0 127.0 0.0 0.508982 0 . . none WDR96,NS,carcinoma,+1,1 WDR96 183 1 NM_025145 exon30 c.A3799G p.R1267G CTTCTCTAGATTT . PASS Atlas-SNP CCNI 10983 hgsc.bcm.edu 37 4 77976374 77976374 + Missense_Mutation SNP C C T rs4252903 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 220.0 102.0 171.0 0.0 0.463636 0 C|0.992;T|0.008 0.008 strong . CCNI 22 . NM_006835 exon6 c.G619A p.V207I GACTAACCATGGC . PASS Atlas-SNP TTN 7273 hgsc.bcm.edu 37 2 179416659 179416659 + Missense_Mutation SNP C C T rs11887722 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 109.0 56.0 84.0 0.0 0.513761 0 C|0.949;T|0.051 0.051 strong . TTN 18412 . NM_001267550 exon335 c.G90968A p.R30323K GGAATCCTGAACT . PASS Atlas-SNP MST1L 11223 hgsc.bcm.edu 37 1 17083797 17083797 + Missense_Mutation SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 339.0 162.0 221.0 0.0 0.477876 0 . . none . . . . NM_001271733 exon15 c.G2000A p.R667H GGCCAGCGCGACC . PASS Atlas-SNP TENM1 10178 hgsc.bcm.edu 37 X 123838882 123838882 + Silent SNP C C T rs138596900 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 128.0 40.0 131.0 0.0 0.3125 0 C|0.979;T|0.021 0.021 strong . . . . NM_001163278 exon5 c.G996A p.L332L TAGTAACAAGGCC . PASS Atlas-SNP PGAM2 5224 hgsc.bcm.edu 37 7 44104913 44104913 + Silent SNP G G A rs111656877 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 121.0 57.0 109.0 0.0 0.471074 0 G|0.984;A|0.016 0.016 strong . PGAM2 20 . NM_000290 exon1 c.C216T p.D72D CGTGCCGTCCAGG . PASS Atlas-SNP RAP1GAP2 23108 hgsc.bcm.edu 37 17 2911352 2911352 + Silent SNP C C T rs36016465 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 128.0 72.0 74.0 0.0 0.5625 0 C|0.988;T|0.012 0.012 strong . RAP1GAP2 90 . NM_015085 exon17 c.C1407T p.H469H GCTCCACGCCCAC . PASS Atlas-SNP CUL9 23113 hgsc.bcm.edu 37 6 43152366 43152366 + Silent SNP C C A rs41274928 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 184.0 95.0 156.0 0.0 0.516304 0 C|0.948;A|0.052 0.052 strong . CUL9 248 . NM_015089 exon2 c.C318A p.G106G AGGAGGCCTGGAT . PASS Atlas-SNP HMGXB3 22993 hgsc.bcm.edu 37 5 149404213 149404213 + Missense_Mutation SNP G G T rs115942845 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 60.0 34.0 57.0 0.0 0.566667 0 G|0.995;T|0.005 0.005 strong . HMGXB3 31 . NM_014983 exon7 c.G1430T p.S477I CCTCCAGTCCACT . PASS Atlas-SNP NLRP7 199713 hgsc.bcm.edu 37 19 55451083 55451083 + Silent SNP A A G rs1654636 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 94.0 18.0 199.0 0.0 0.191489 0 A|0.949;G|0.051 0.051 strong NLRP7_ENST00000328092,NS,carcinoma,-2,2 NLRP7 411 2 NM_001127255 exon4 c.T1104C p.I368I GCACACAATCCAG . scavenged Atlas-SNP KRTAP13-2 337959 hgsc.bcm.edu 37 21 31744456 31744456 + Missense_Mutation SNP G G A rs16986753 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 247.0 116.0 273.0 0.0 0.469636 0 G|0.989;A|0.011 0.011 strong . KRTAP13-2 29 . NM_181621 exon1 c.C76T p.R26C AGCCACGTGAGGA . PASS Atlas-SNP OC90 729330 hgsc.bcm.edu 37 8 133053909 133053909 + Silent SNP G G C rs115883855 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 139.0 70.0 121.0 0.0 0.503597 0 G|0.989;C|0.011 0.011 strong OC90_ENST00000262283,caecum,carcinoma,0,2 OC90 163 2 NM_001080399 exon5 c.C207G p.V69V GGTGAAGACAGCC . PASS Atlas-SNP TAF2 6873 hgsc.bcm.edu 37 8 120793332 120793332 + Silent SNP T T C rs28619538 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 62.0 36.0 75.0 0.0 0.580645 0 T|0.977;C|0.023 0.023 strong . TAF2 204 . NM_003184 exon17 c.A2214G p.T738T GTTGTTTGTTTTC . PASS Atlas-SNP PDZD2 23037 hgsc.bcm.edu 37 5 32093079 32093079 + Silent SNP A A G rs16889443 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 194.0 100.0 144.0 0.0 0.515464 0 A|0.932;G|0.068 0.068 strong . PDZD2 306 . NM_178140 exon20 c.A7794G p.G2598G AGTGGGATCGAAA . PASS Atlas-SNP JRK 8629 hgsc.bcm.edu 37 8 143746722 143746722 + Silent SNP G G A rs60195180 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 107.0 43.0 99.0 0.0 0.401869 0 G|0.992;A|0.008 0.008 strong . . . . NM_003724 exon2 c.C756T p.V252V ATAGGCGACGGGC . PASS Atlas-SNP ADRBK1 156 hgsc.bcm.edu 37 11 67052322 67052322 + Silent SNP C C T rs115867067 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 25.0 52.0 0.0 0.328947 0 C|0.987;T|0.013 0.013 strong . ADRBK1 51 . NM_001619 exon19 c.C1659T p.Y553Y AGACTACGCCCTG . PASS Atlas-SNP JARID2 3720 hgsc.bcm.edu 37 6 15517415 15517415 + Silent SNP C C T rs11970076 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 136.0 74.0 78.0 0.0 0.544118 0 C|0.983;T|0.017 0.017 strong . JARID2 135 . NM_004973 exon17 c.C3474T p.V1158V AAACGTCGTGTTC . PASS Atlas-SNP ZNF582 147948 hgsc.bcm.edu 37 19 56901457 56901457 + Missense_Mutation SNP C C T rs61743722 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 44.0 83.0 0.0 0.473118 0 C|0.972;T|0.028 0.028 strong . ZNF582 56 . NM_144690 exon4 c.G145A p.V49I TGGAAACGGCAAG . PASS Atlas-SNP TTC8 123016 hgsc.bcm.edu 37 14 89343670 89343670 + Silent SNP G G C rs142073418 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 120.0 54.0 119.0 0.0 0.45 0 G|0.997;C|0.003 0.003 strong TTC8,NS,carcinoma,+2,1 TTC8 42 1 NM_144596 exon15 c.G1464C p.A488A TGCTGCGCAGAAG . PASS Atlas-SNP POLM 27434 hgsc.bcm.edu 37 7 44116207 44116207 + Missense_Mutation SNP C C A rs28382653 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 42.0 69.0 0.0 0.451613 0 C|0.983;A|0.017 0.017 strong . POLM 50 . NM_013284 exon6 c.G736T p.V246F CACCGACCCCGAA . PASS Atlas-SNP FYCO1 79443 hgsc.bcm.edu 37 3 46009620 46009620 + Silent SNP C C T rs34147726 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 139.0 59.0 149.0 0.0 0.42446 0 C|0.907;T|0.093 0.093 strong . FYCO1 115 . NM_024513 exon8 c.G1206A p.E402E CCCTAGCTCCTGC . PASS Atlas-SNP KIAA1804 0 hgsc.bcm.edu 37 1 233489682 233489682 + Silent SNP G G A rs56268427 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 212.0 107.0 200.0 0.0 0.504717 0 G|0.951;A|0.049 0.049 strong . KIAA1804 129 . NM_032435 exon3 c.G1116A p.P372P TGAGCCGTTTGCC . PASS Atlas-SNP ZSWIM1 90204 hgsc.bcm.edu 37 20 44512013 44512013 + Missense_Mutation SNP C C G rs115926000 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 203.0 106.0 172.0 0.0 0.522168 0 C|0.998;G|0.002 0.002 strong . ZSWIM1 35 . NM_080603 exon2 c.C782G p.T261S AGGTCACCACCCA . PASS Atlas-SNP NEIL2 252969 hgsc.bcm.edu 37 8 11643731 11643731 + Silent SNP G G A rs113110839 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 235.0 126.0 199.0 0.0 0.53617 0 G|0.996;A|0.004 0.004 strong . NEIL2 14 . NM_001135746 exon5 c.G948A p.P316P GTGCCCGCAGTGC . PASS Atlas-SNP OR10Z1 128368 hgsc.bcm.edu 37 1 158576394 158576394 + Missense_Mutation SNP C C A rs116792162 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 368.0 182.0 316.0 0.0 0.494565 0 C|0.992;A|0.008 0.008 strong OR10Z1,right_upper_lobe,carcinoma,-1,1 OR10Z1 99 1 NM_001004478 exon1 c.C166A p.H56N CATCTGCACACCC . PASS Atlas-SNP NCKAP5 344148 hgsc.bcm.edu 37 2 133887676 133887676 + Missense_Mutation SNP T T C rs35356262 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 81.0 37.0 99.0 0.0 0.45679 0 T|0.999;C|0.001 0.001 strong . NCKAP5 322 . NM_207481 exon6 c.A215G p.K72R ATCAGCTTCTCAT . PASS Atlas-SNP MAGEA8 4107 hgsc.bcm.edu 37 X 149013963 149013963 + Missense_Mutation SNP C C T rs12010332 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 293.0 293.0 284.0 0.0 1 0 C|0.947;T|0.053 0.053 strong . MAGEA8 40 . NM_005364 exon3 c.C917T p.S306F ACCCATCCCTGCA . PASS Atlas-SNP ZNF500 26048 hgsc.bcm.edu 37 16 4810583 4810583 + Missense_Mutation SNP C C T rs151148153 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 108.0 45.0 103.0 0.0 0.416667 0 C|0.995;T|0.005 0.005 strong . ZNF500 45 . NM_021646 exon5 c.G670A p.V224M AGTTCACGGGCAC . PASS Atlas-SNP ZNF594 84622 hgsc.bcm.edu 37 17 5085758 5085758 + Silent SNP G G A rs144567321 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 92.0 16.0 138.0 0.0 0.173913 0 G|0.994;A|0.006 0.006 strong ZNF594,colon,carcinoma,-2,3 ZNF594 89 3 NM_032530 exon2 c.C1794T p.C598C TTCTTTGCATTCA . PASS Atlas-SNP COMMD8 54951 hgsc.bcm.edu 37 4 47462210 47462210 + Missense_Mutation SNP A A C rs114141818 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 108.0 108.0 119.0 0.0 1 0 A|0.985;C|0.015 0.015 strong . COMMD8 15 . NM_017845 exon2 c.T173G p.I58S TTGGCAATATCTT . PASS Atlas-SNP FJX1 24147 hgsc.bcm.edu 37 11 35641428 35641428 + Missense_Mutation SNP G G A rs12286850 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 47.0 27.0 57.0 0.0 0.574468 0 G|0.908;A|0.092 0.092 strong . FJX1 32 . NM_014344 exon1 c.G1244A p.R415H TACAGCGCCGCCT . PASS Atlas-SNP SP110 3431 hgsc.bcm.edu 37 2 231065630 231065630 + Missense_Mutation SNP G G A rs59573011 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 196.0 86.0 167.0 0.0 0.438776 0 G|0.980;A|0.020 0.020 strong . SP110 105 . NM_001185015 exon11 c.C1118T p.T373M CTAGGCGTCTTCT . PASS Atlas-SNP LHFP 10186 hgsc.bcm.edu 37 13 40175311 40175311 + Silent SNP G G A rs34616166 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 123.0 70.0 89.0 0.0 0.569106 0 G|0.941;A|0.059 0.059 strong . LHFP 31 . NM_005780 exon2 c.C43T p.L15L AAGACAGCAAAGC . PASS Atlas-SNP URB2 9816 hgsc.bcm.edu 37 1 229787055 229787055 + Missense_Mutation SNP G G A rs41310553 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 115.0 63.0 121.0 0.0 0.547826 0 G|0.986;A|0.014 0.014 strong . URB2 152 . NM_014777 exon8 c.G4223A p.R1408Q AAGGGCGGCAGAA . PASS Atlas-SNP PCDHA13 56136 hgsc.bcm.edu 37 5 140264091 140264091 + Silent SNP G G C rs10076265 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 159.0 83.0 153.0 0.0 0.522013 0 G|0.982;C|0.018 0.018 strong PCDHA13,colon,carcinoma,+2,1 PCDHA13 213 1 NM_031865 exon1 c.G2238C p.G746G GGCAGGGAGTTGG . PASS Atlas-SNP ZNF578 147660 hgsc.bcm.edu 37 19 53014492 53014492 + Silent SNP T T A rs145508251 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 153.0 68.0 106.0 0.0 0.444444 0 T|0.993;A|0.007 0.007 strong . . . . NM_001099694 exon6 c.T858A p.P286P GAAACCTTACAAG . PASS Atlas-SNP PCDHGA4 56111 hgsc.bcm.edu 37 5 140736328 140736328 + Missense_Mutation SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 142.0 73.0 129.0 0.0 0.514085 0 . . none . PCDHGA4 150 . NM_018917 exon1 c.G1561A p.D521N TCCTTCGACTATG . PASS Atlas-SNP SAMD4B 55095 hgsc.bcm.edu 37 19 39873877 39873877 + Missense_Mutation SNP A A G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 160.0 76.0 169.0 0.0 0.475 0 . . none SAMD4B,NS,carcinoma,0,2 SAMD4B 48 2 NM_018028 exon15 c.A2002G p.I668V CTGGAGATCAATC . PASS Atlas-SNP ND5 0 hgsc.bcm.edu 37 MT 13650 13650 + Silent SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 9.0 9.0 8.0 0.0 1 0 . . none . . . . ENST00000361567 exon1 c.C1314T p.P438P CTTCCCCACCCTT . PASS Atlas-SNP GAD1 2571 hgsc.bcm.edu 37 2 171713564 171713564 + Silent SNP C C T rs769392 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 73.0 27.0 65.0 0.0 0.369863 0 C|0.959;T|0.041 0.041 strong . GAD1 79 . NM_000817 exon15 c.C1450T p.L484L AAATGCCTGGAAC . PASS Atlas-SNP ERO1LB 56605 hgsc.bcm.edu 37 1 236381833 236381833 + Silent SNP A A G rs11811758 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 216.0 121.0 244.0 0.0 0.560185 0 A|0.961;G|0.039 0.039 strong . ERO1LB 48 . NM_019891 exon16 c.T1387C p.L463L GTTGTAATAAGAC . PASS Atlas-SNP GXYLT2 727936 hgsc.bcm.edu 37 3 72971414 72971414 + Silent SNP A A G rs61741329 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 131.0 60.0 148.0 0.0 0.458015 0 A|0.976;G|0.024 0.024 strong . GXYLT2 43 . NM_001080393 exon3 c.A528G p.T176T CATCACATTTTCT . PASS Atlas-SNP TTC39B 158219 hgsc.bcm.edu 37 9 15191209 15191209 + Silent SNP A A G rs74818741 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 98.0 49.0 110.0 0.0 0.5 0 A|0.969;G|0.031 0.031 strong . TTC39B 83 . NM_001168340 exon10 c.T975C p.F325F TCCAATAAATTCT . PASS Atlas-SNP FAM208A 23272 hgsc.bcm.edu 37 3 56667213 56667213 + Silent SNP T T C rs34828128 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 156.0 68.0 179.0 0.0 0.435897 0 T|0.987;C|0.013 0.013 strong . FAM208A 113 . NM_001112736 exon18 c.A3606G p.Q1202Q AGCTGGTTGAGCA . PASS Atlas-SNP CACNA1S 779 hgsc.bcm.edu 37 1 201058428 201058428 + Silent SNP G G A rs61734621 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 261.0 125.0 220.0 1.0 0.478927 0.00454545 G|0.984;A|0.016 0.016 strong . CACNA1S 249 . NM_000069 exon6 c.C858T p.Y286Y GCACTGGTACACG . PASS Atlas-SNP SNAPC2 6618 hgsc.bcm.edu 37 19 7987428 7987428 + Missense_Mutation SNP C C T rs116635738 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 68.0 34.0 55.0 0.0 0.5 0 C|0.991;T|0.009 0.009 strong SNAPC2,colon,carcinoma,0,1 SNAPC2 20 1 NM_003083 exon5 c.C784T p.R262C TACCTACGCCTGA . PASS Atlas-SNP CFI 3426 hgsc.bcm.edu 37 4 110681527 110681527 + Missense_Mutation SNP C C T rs112534524 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 134.0 49.0 157.0 0.0 0.365672 0 C|0.998;G|0.000;T|0.002 0.002 strong . CFI 59 . NM_000204 exon6 c.G782A p.G261D CCTTTGCCTTGGC . PASS Atlas-SNP TMPRSS11F 389208 hgsc.bcm.edu 37 4 68938185 68938185 + Missense_Mutation SNP C C T rs1438391 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 58.0 28.0 54.0 0.0 0.482759 0 C|0.960;T|0.040 0.040 strong . TMPRSS11F 79 . NM_207407 exon5 c.G370A p.D124N GAATATCCACACC . PASS Atlas-SNP RASA3 22821 hgsc.bcm.edu 37 13 114773022 114773022 + Missense_Mutation SNP C C T rs74116414 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 48.0 20.0 47.0 0.0 0.416667 0 C|0.976;T|0.024 0.024 strong . RASA3 83 . NM_007368 exon18 c.G1729A p.V577M TAAGCACGATGGG . PASS Atlas-SNP DSP 1832 hgsc.bcm.edu 37 6 7585795 7585795 + Missense_Mutation SNP C C A rs34884895 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 90.0 49.0 90.0 0.0 0.544444 0 C|0.991;A|0.009 0.009 strong . DSP 306 . NM_004415 exon24 c.C8300A p.T2767N AAGACACCAGCAG . PASS Atlas-SNP AKT1 207 hgsc.bcm.edu 37 14 105238783 105238783 + Silent SNP G G A rs11555434 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 130.0 60.0 103.0 0.0 0.461538 0 G|0.992;A|0.008 0.008 strong . AKT1 379 . NM_005163 exon12 c.C1179T p.G393G GCCCCCGCCAAGC . PASS Atlas-SNP PDCD2 5134 hgsc.bcm.edu 37 6 170892759 170892759 + Silent SNP T T A rs73258640 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 95.0 43.0 90.0 0.0 0.452632 0 T|0.985;A|0.015 0.015 strong . PDCD2 13 . NM_002598 exon2 c.A360T p.T120T TTCTCCTGTTTCT . PASS Atlas-SNP CAMSAP3 57662 hgsc.bcm.edu 37 19 7682862 7682862 + Silent SNP C C G rs4134883 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 96.0 42.0 126.0 0.0 0.4375 0 C|0.969;G|0.031 0.031 strong . CAMSAP3 131 . NM_001080429 exon19 c.C3750G p.V1250V GAGCGTCGATGCC . PASS Atlas-SNP MMP11 4320 hgsc.bcm.edu 37 22 24124471 24124471 + Silent SNP C C A rs28382569 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 84.0 46.0 87.0 0.0 0.547619 0 A|0.014;C|0.986 0.014 strong . MMP11 53 . NM_005940 exon7 c.C1134A p.T378T CCTCACCGAGCTG . PASS Atlas-SNP SRP68 6730 hgsc.bcm.edu 37 17 74036544 74036544 + Missense_Mutation SNP C C T rs75353721 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 246.0 127.0 225.0 2.0 0.51626 0.00888889 C|0.993;T|0.007 0.007 strong SRP68,colon,carcinoma,+2,1 SRP68 61 1 NM_014230 exon15 c.G1612A p.A538T GATGAGCGTCGTT . scavenged Atlas-SNP VWF 7450 hgsc.bcm.edu 37 12 6138575 6138575 + Missense_Mutation SNP C C T rs141087261 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 131.0 74.0 90.0 0.0 0.564885 0 C|0.992;T|0.008 0.008 strong . VWF 338 . NM_000552 exon22 c.G2900A p.G967D GCTTTGCCCAGCA . PASS Atlas-SNP HSD17B4 3295 hgsc.bcm.edu 37 5 118877660 118877660 + Missense_Mutation SNP A A G rs28943594 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 172.0 87.0 222.0 0.0 0.505814 0 A|0.967;G|0.033 0.033 strong . HSD17B4 63 . NM_001199291 exon25 c.A2257G p.M753V CTTCAGATGATTC . PASS Atlas-SNP NUGGC 389643 hgsc.bcm.edu 37 8 27925220 27925220 + Silent SNP A A G rs114951850 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 247.0 130.0 212.0 0.0 0.526316 0 A|0.985;G|0.015 0.015 strong . . . . NM_001010906 exon6 c.T522C p.H174H CGTCCTATGCAGG . PASS Atlas-SNP SYNE3 161176 hgsc.bcm.edu 37 14 95923644 95923644 + Missense_Mutation SNP C C T rs74082143 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 86.0 38.0 77.0 0.0 0.44186 0 C|0.989;T|0.011 0.011 strong . SYNE3 130 . NM_152592 exon4 c.G659A p.R220Q TGCTCCCGGGCCA . PASS Atlas-SNP PIP4K2A 5305 hgsc.bcm.edu 37 10 22830842 22830842 + Silent SNP C C T rs61731109 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 98.0 41.0 109.0 0.0 0.418367 0 C|0.976;T|0.024 0.024 strong . PIP4K2A 59 . NM_005028 exon8 c.G927A p.P309P TCCCACCGGGTGG . PASS Atlas-SNP MDC1 9656 hgsc.bcm.edu 37 6 30668374 30668374 + Silent SNP G G A rs9468812 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 102.0 50.0 107.0 0.0 0.490196 0 G|0.958;A|0.042 0.042 strong . MDC1 218 . NM_014641 exon15 c.C6138T p.F2046F ATGAGGGAAGTCC . PASS Atlas-SNP SMPDL3B 27293 hgsc.bcm.edu 37 1 28285123 28285123 + Missense_Mutation SNP G G A rs34560878 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 173.0 86.0 146.0 0.0 0.49711 0 G|0.986;A|0.014 0.014 strong . SMPDL3B 54 . NM_014474 exon8 c.G1142A p.R381H TGGACCGCATCGC . PASS Atlas-SNP BPIFB1 92747 hgsc.bcm.edu 37 20 31877770 31877770 + Missense_Mutation SNP C C T rs114635109 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 112.0 63.0 115.0 0.0 0.5625 0 C|0.988;T|0.012 0.012 strong . . . . NM_033197 exon4 c.C337T p.P113S AAGATCCCCCTGG . PASS Atlas-SNP NOS2 4843 hgsc.bcm.edu 37 17 26107840 26107840 + Silent SNP G G A rs34719207 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 128.0 70.0 123.0 0.0 0.546875 0 G|0.996;A|0.004 0.004 strong . NOS2 113 . NM_000625 exon9 c.C957T p.F319F GATTTCGAAGAGC . PASS Atlas-SNP DCDC2B 149069 hgsc.bcm.edu 37 1 32677370 32677370 + Silent SNP C C T rs182464428 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 36.0 85.0 0.0 0.473684 0 C|0.998;T|0.002 0.002 strong . DCDC2B 24 . NM_001099434 exon3 c.C327T p.P109P TCCTCCCGTGACT . PASS Atlas-SNP CBL 867 hgsc.bcm.edu 37 11 119170362 119170362 + Silent SNP C C T rs1893177 bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 79.0 47.0 113.0 0.0 0.594937 0 C|0.948;T|0.052 0.052 strong . CBL 408 . NM_005188 exon16 c.C2592T p.L864L GAACCTCATGAGT . PASS Atlas-SNP GGT5 2687 hgsc.bcm.edu 37 22 24622124 24622124 + Silent SNP G G A rs73879043 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 101.0 54.0 122.0 0.0 0.534653 0 G|0.981;A|0.019 0.019 strong . GGT5 61 . NM_001099781 exon8 c.C1149T p.G383G CCCGTGGCCCCAG . PASS Atlas-SNP ESPL1 9700 hgsc.bcm.edu 37 12 53680135 53680135 + Silent SNP C C T rs61741367 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 73.0 32.0 48.0 0.0 0.438356 0 C|0.957;T|0.043 0.043 strong . ESPL1 158 . NM_012291 exon18 c.C3615T p.S1205S AGCTTCCCTGAAT . PASS Atlas-SNP VTI1B 10490 hgsc.bcm.edu 37 14 68141105 68141105 + Silent SNP C C T rs2234510 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 63.0 32.0 24.0 0.0 0.507937 0 C|0.973;T|0.027 0.027 strong . VTI1B 15 . NM_006370 exon1 c.G102A p.G34G CGCCGTCCCCAGC . PASS Atlas-SNP ZBED4 9889 hgsc.bcm.edu 37 22 50278588 50278588 + Silent SNP C C T rs61731526 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 55.0 19.0 42.0 0.0 0.345455 0 C|0.996;T|0.004 0.004 strong . ZBED4 102 . NM_014838 exon2 c.C1278T p.S426S GGCGTCCTCTCCT . PASS Atlas-SNP ZNF264 9422 hgsc.bcm.edu 37 19 57723182 57723182 + Silent SNP C C T rs61730346 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 81.0 47.0 65.0 0.0 0.580247 0 C|0.990;T|0.010 0.010 strong . ZNF264 65 . NM_003417 exon4 c.C717T p.T239T GAAAACCTTTATT . PASS Atlas-SNP PIAS4 51588 hgsc.bcm.edu 37 19 4012971 4012971 + Silent SNP C C T rs61729790 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 163.0 163.0 198.0 0.0 1 0 C|0.910;T|0.090 0.090 strong . PIAS4 40 . NM_015897 exon2 c.C78T p.F26F GGGTTTCGTGGGC . PASS Atlas-SNP MXD3 83463 hgsc.bcm.edu 37 5 176734945 176734945 + Missense_Mutation SNP C C A rs35691394 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 39.0 22.0 23.0 0.0 0.564103 0 C|0.997;A|0.003 0.003 strong . MXD3 13 . NM_001142935 exon5 c.G342T p.Q114H GGCCCGCTGCTCC . PASS Atlas-SNP CDHR2 54825 hgsc.bcm.edu 37 5 176011968 176011968 + Missense_Mutation SNP G G A rs114527399 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 79.0 37.0 80.0 0.0 0.468354 0 G|0.996;A|0.004 0.004 strong . CDHR2 152 . NM_017675 exon19 c.G2686A p.A896T GTGCGGGCCTGTG . PASS Atlas-SNP EXOC4 60412 hgsc.bcm.edu 37 7 133682285 133682285 + Silent SNP C C T rs34608222 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 117.0 56.0 106.0 0.0 0.478632 0 C|0.986;T|0.014 0.014 strong . EXOC4 118 . NM_021807 exon15 c.C2247T p.L749L GGATCTCCCCCCA . PASS Atlas-SNP SPAG7 9552 hgsc.bcm.edu 37 17 4863540 4863540 + Missense_Mutation SNP T T C rs73343382 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 183.0 95.0 197.0 0.0 0.519126 0 T|0.978;C|0.022 0.022 strong . SPAG7 22 . NM_004890 exon4 c.A316G p.I106V TGAAGATCATGAC . PASS Atlas-SNP PKD1L1 168507 hgsc.bcm.edu 37 7 47924233 47924233 + Silent SNP G G A rs79566365 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 92.0 36.0 87.0 0.0 0.391304 0 G|0.951;A|0.049 0.049 strong . PKD1L1 328 . NM_138295 exon19 c.C3228T p.D1076D TTGAATGTCACTG . PASS Atlas-SNP ASB16 92591 hgsc.bcm.edu 37 17 42248205 42248205 + Silent SNP C C T rs56265171 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 190.0 103.0 180.0 0.0 0.542105 0 C|0.967;T|0.033 0.033 strong . ASB16 34 . NM_080863 exon1 c.C48T p.L16L CTCTCTCCGCCTG . PASS Atlas-SNP FREM1 158326 hgsc.bcm.edu 37 9 14824088 14824088 + Missense_Mutation SNP T T C rs7864984 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 92.0 44.0 91.0 0.0 0.478261 0 T|0.978;C|0.022 0.022 strong . FREM1 261 . NM_144966 exon13 c.A2104G p.M702V CCACCATAAATAA . PASS Atlas-SNP NLN 57486 hgsc.bcm.edu 37 5 65054587 65054587 + Missense_Mutation SNP G G A rs34339013 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 129.0 70.0 127.0 0.0 0.542636 0 G|0.973;A|0.027 0.027 strong . NLN 51 . NM_020726 exon2 c.G235A p.G79S ATGCTCGGTATTG . PASS Atlas-SNP UACA 55075 hgsc.bcm.edu 37 15 70957106 70957106 + Silent SNP A A G rs78551559 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 203.0 101.0 203.0 0.0 0.497537 0 A|0.983;G|0.017 0.017 strong . UACA 235 . NM_018003 exon17 c.T4008C p.N1336N AAGGCCATTGAGT . PASS Atlas-SNP C19orf21 126353 hgsc.bcm.edu 37 19 757483 757483 + Silent SNP G G A rs35484463 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 95.0 42.0 95.0 0.0 0.442105 0 G|0.982;A|0.018 0.018 strong . C19orf21 56 . NM_173481 exon2 c.G537A p.T179T GTCCACGCCCCTG . PASS Atlas-SNP SIGLEC9 27180 hgsc.bcm.edu 37 19 51630485 51630485 + Missense_Mutation SNP C C A rs273688 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 105.0 58.0 121.0 0.0 0.552381 0 C|0.895;A|0.105 0.105 strong SIGLEC9,NS,carcinoma,+1,1 SIGLEC9 85 1 NM_001198558 exon4 c.C947A p.A316D ATGCAGCTGAATT . PASS Atlas-SNP C2orf16 84226 hgsc.bcm.edu 37 2 27801739 27801739 + Missense_Mutation SNP T T C rs13416968 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 219.0 104.0 156.0 0.0 0.474886 0 T|0.986;C|0.014 0.014 strong . C2orf16 357 . NM_032266 exon1 c.T2300C p.I767T TGGATATAAAAAA . PASS Atlas-SNP EVL 51466 hgsc.bcm.edu 37 14 100563868 100563868 + Silent SNP G G A rs35006525 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 51.0 77.0 0.0 0.548387 0 G|0.986;A|0.014 0.014 strong . EVL 42 . NM_016337 exon3 c.G231A p.T77T GGCCACGCCAACC . PASS Atlas-SNP CAMK2N2 94032 hgsc.bcm.edu 37 3 183978936 183978936 + Silent SNP G G A rs75699255 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 50.0 31.0 42.0 0.0 0.62 0 G|0.962;A|0.038 0.038 strong . CAMK2N2 2 . NM_033259 exon1 c.C138T p.P46P CAGCTTGGGGGGT . PASS Atlas-SNP ND4 0 hgsc.bcm.edu 37 MT 10793 10793 + Silent SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 9.0 9.0 6.0 0.0 1 0 . . none . . . . ENST00000361381 exon1 c.C34T p.L12L ATATTACTACCAC . PASS Atlas-SNP BCR 613 hgsc.bcm.edu 37 22 23651650 23651650 + Missense_Mutation SNP A A G rs71316760 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 294.0 108.0 330.0 0.0 0.367347 0 A|0.500;G|0.500 0.500 weak BCR,NS,carcinoma,0,1 BCR 74 1 NM_004327 exon17 c.A3052G p.T1018A CAGCGCACCGTCA . scavenged Atlas-SNP ARAP1 116985 hgsc.bcm.edu 37 11 72403832 72403832 + Splice_Site SNP T T C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 64.0 29.0 48.0 0.0 0.453125 0 . . none . ARAP1 168 . NM_015242 exon29 c.3220-2A>G . TGGCTCTGTTTGA . PASS Atlas-SNP GOLGA8B 440270 hgsc.bcm.edu 37 15 34825091 34825091 + Missense_Mutation SNP T T A rs200439797 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 1873.0 467.0 1385.0 0.0 0.249333 0 T|0.998;A|0.002 0.002 weak GOLGA8B_ENST00000267731,right_upper_lobe,carcinoma,+1,2 GOLGA8B 7 2 NM_001023567 exon3 c.A241T p.R81W TGGACCTCGAGTT . scavenged Atlas-SNP LRRK1 79705 hgsc.bcm.edu 37 15 101606084 101606084 + Silent SNP G G A rs116529941 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 136.0 75.0 111.0 0.0 0.551471 0 G|0.997;A|0.003 0.003 strong . LRRK1 310 . NM_024652 exon32 c.G5442A p.A1814A CATCGCGGACGTG . PASS Atlas-SNP ACSS2 55902 hgsc.bcm.edu 37 20 33513983 33513983 + Missense_Mutation SNP G G C rs45486997 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 182.0 95.0 185.0 0.0 0.521978 0 G|0.968;C|0.032 0.032 strong . ACSS2 75 . NM_001076552 exon17 c.G1841C p.G614A TGGTGGGCCACCC . PASS Atlas-SNP FAT1 2195 hgsc.bcm.edu 37 4 187557863 187557863 + Missense_Mutation SNP G G A rs60068521 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 300.0 155.0 306.0 0.0 0.516667 0 G|0.999;A|0.001 0.001 strong . FAT1 500 . NM_005245 exon5 c.C3848T p.P1283L GCATTGGGGCCCT . PASS Atlas-SNP ADAM7 8756 hgsc.bcm.edu 37 8 24349482 24349482 + Missense_Mutation SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 97.0 57.0 130.0 0.0 0.587629 0 . . none ADAM7,colon,carcinoma,-2,1 ADAM7 165 1 NM_003817 exon14 c.G1423A p.G475S TGCACTGGCCACT . PASS Atlas-SNP MUT 4594 hgsc.bcm.edu 37 6 49409599 49409599 + Missense_Mutation SNP G G A rs140727018 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 256.0 134.0 237.0 0.0 0.523438 0 G|0.999;A|0.001 0.001 strong . MUT 70 . NM_000255 exon10 c.C1762T p.R588C CCTGGCGATATGC . PASS Atlas-SNP OR2T12 127064 hgsc.bcm.edu 37 1 248458718 248458718 + Missense_Mutation SNP T T C rs79635253 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 530.0 345.0 491.0 1.0 0.650943 0.00203666 T|0.961;C|0.039 0.039 strong . OR2T12 113 . NM_001004692 exon1 c.A163G p.R55G TGGGCCTGTGGAG . PASS Atlas-SNP FAM151A 338094 hgsc.bcm.edu 37 1 55075334 55075334 + Silent SNP G G A rs201640566 by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 58.0 29.0 66.0 0.0 0.5 0 G|1.000;A|0.000 0.000 strong . FAM151A 58 . NM_176782 exon8 c.C1365T p.P455P ATGGCCGGGGACC . PASS Atlas-SNP OR2T27 403239 hgsc.bcm.edu 37 1 248813421 248813421 + Silent SNP G G A rs200410497 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 154.0 69.0 163.0 0.0 0.448052 0 G|0.969;A|0.031 0.031 strong . OR2T27 52 . NM_001001824 exon1 c.C765T p.A255A GTACATGGCAGCC . PASS Atlas-SNP SYNGAP1 8831 hgsc.bcm.edu 37 6 33393583 33393583 + Silent SNP C C T rs73402305 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 168.0 77.0 183.0 0.0 0.458333 0 C|0.937;T|0.063 0.063 strong SYNGAP1_ENST00000293748,NS,carcinoma,+2,2 SYNGAP1 202 2 NM_006772 exon3 c.C198T p.P66P ACACCCCCTACTG . PASS Atlas-SNP NBAS 51594 hgsc.bcm.edu 37 2 15358939 15358939 + Missense_Mutation SNP A A C rs114448506 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 238.0 127.0 221.0 0.0 0.533613 0 A|0.997;C|0.003 0.003 strong . NBAS 246 . NM_015909 exon48 c.T6390G p.F2130L AGTTCTAAAGAAC . PASS Atlas-SNP IFNAR1 3454 hgsc.bcm.edu 37 21 34713317 34713317 + Silent SNP T T C rs9981753 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 42.0 140.0 0.0 0.42 0 T|0.986;C|0.014 0.014 strong . IFNAR1 44 . NM_000629 exon3 c.T213C p.D71D GATGGATAATTGG . PASS Atlas-SNP TRPM1 4308 hgsc.bcm.edu 37 15 31294773 31294773 + Missense_Mutation SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 88.0 38.0 74.0 0.0 0.431818 0 . . none . TRPM1 183 . NM_001252020 exon27 c.G4181A p.G1394D TCTGGACCTAATT . PASS Atlas-SNP MCMBP 79892 hgsc.bcm.edu 37 10 121602830 121602830 + Silent SNP G G A rs34297798 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 214.0 111.0 190.0 0.0 0.518692 0 G|0.990;A|0.010 0.010 strong . MCMBP 49 . NM_024834 exon9 c.C936T p.A312A CTTCTGGGCTAAG . PASS Atlas-SNP SHPRH 257218 hgsc.bcm.edu 37 6 146276280 146276280 + Missense_Mutation SNP C C T rs182151362 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 115.0 52.0 86.0 0.0 0.452174 0 C|0.998;T|0.002 0.002 strong . SHPRH 169 . NM_173082 exon2 c.G179A p.S60N TTTAGACTATCAC . PASS Atlas-SNP CCDC88C 440193 hgsc.bcm.edu 37 14 91739873 91739873 + Missense_Mutation SNP A A G rs7145583 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 150.0 72.0 183.0 0.0 0.48 0 A|0.997;G|0.003 0.003 strong . CCDC88C 192 . NM_001080414 exon30 c.T5183C p.F1728S GCCACAAAGTTGG . PASS Atlas-SNP NPHP4 261734 hgsc.bcm.edu 37 1 5965824 5965824 + Missense_Mutation SNP G G C rs12093500 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 132.0 64.0 101.0 0.0 0.484848 0 G|0.980;C|0.020 0.020 strong . NPHP4 119 . NM_015102 exon14 c.C1631G p.A544G ATACCGGCCTCCA . PASS Atlas-SNP OR5I1 10798 hgsc.bcm.edu 37 11 55703523 55703523 + Silent SNP G G A rs11231594 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 96.0 44.0 86.0 0.0 0.458333 0 G|0.974;A|0.026 0.026 strong . OR5I1 110 . NM_006637 exon1 c.C354T p.A118A CATGGCGGCCAGG . PASS Atlas-SNP SCO1 6341 hgsc.bcm.edu 37 17 10595250 10595250 + Silent SNP T T C rs2271228 bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 143.0 59.0 124.0 1.0 0.412587 0.00806452 T|0.961;C|0.039 0.039 strong SCO1,NS,carcinoma,-1,1 SCO1 24 1 NM_004589 exon4 c.A594G p.P198P GAAAAGTGGAGTT . scavenged Atlas-SNP CCNB1 891 hgsc.bcm.edu 37 5 68471232 68471232 + Silent SNP C C T rs2069439 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 125.0 47.0 137.0 0.0 0.376 0 C|0.998;T|0.002 0.002 strong CCNB1,NS,carcinoma,+1,1 CCNB1 36 1 NM_031966 exon7 c.C951T p.V317V TGATGTCGAGCAA . PASS Atlas-SNP OR2H1 26716 hgsc.bcm.edu 37 6 29429733 29429733 + Missense_Mutation SNP G G A rs61732185 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 303.0 143.0 257.0 0.0 0.471947 0 G|0.964;A|0.036 0.036 strong . OR2H1 38 . NM_030883 exon3 c.G187A p.D63N CTCTCTGACCTCT . PASS Atlas-SNP DUSP13 51207 hgsc.bcm.edu 37 10 76854463 76854463 + Missense_Mutation SNP G G C rs16931996 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 56.0 35.0 81.0 0.0 0.625 0 G|0.956;C|0.044 0.044 strong . DUSP13 82 . NM_001007273 exon6 c.C847G p.R283G CCAGTCGGTTGTC . PASS Atlas-SNP KRTAP4-5 85289 hgsc.bcm.edu 37 17 39305774 39305774 + Missense_Mutation SNP C C G rs137947981 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 86.0 50.0 136.0 0.0 0.581395 0 . . weak KRTAP4-5,NS,carcinoma,0,1 KRTAP4-5 34 1 NM_033188 exon1 c.G246C p.Q82H GGTGGTCTGGCAG . PASS Atlas-SNP WDFY4 57705 hgsc.bcm.edu 37 10 49984879 49984879 + Missense_Mutation SNP C C T rs76547526 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 62.0 31.0 62.0 0.0 0.5 0 C|0.988;T|0.012 0.012 strong . WDFY4 205 . NM_020945 exon16 c.C2948T p.P983L AGGCCCCGCAGCC . PASS Atlas-SNP MYO18B 84700 hgsc.bcm.edu 37 22 26272270 26272270 + Missense_Mutation SNP A A G rs695633 bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 103.0 102.0 99.0 0.0 0.990291 0 A|0.967;G|0.033 0.033 strong . MYO18B 322 . NM_032608 exon24 c.A4195G p.I1399V GCCACCATTGGAA . PASS Atlas-SNP BBS12 166379 hgsc.bcm.edu 37 4 123664333 123664333 + Missense_Mutation SNP G G C rs7665271 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 105.0 43.0 78.0 0.0 0.409524 0 G|0.959;C|0.041 0.041 strong . BBS12 63 . NM_001178007 exon3 c.G1286C p.S429T TAAACAGTAAGCG . PASS Atlas-SNP DYRK2 8445 hgsc.bcm.edu 37 12 68052166 68052166 + Silent SNP C C T rs56178357 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 170.0 85.0 163.0 0.0 0.5 0 C|0.909;T|0.091 0.091 strong . DYRK2 63 . NM_006482 exon3 c.C1479T p.S493S GGAGAGCAGAGAG . PASS Atlas-SNP OR1J2 26740 hgsc.bcm.edu 37 9 125274015 125274015 + Missense_Mutation SNP C C T rs150890302 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 96.0 36.0 117.0 0.0 0.375 0 C|0.998;T|0.002 0.002 strong . OR1J2 64 . NM_054107 exon1 c.C935T p.S312F TTTTCTCTTGGTG . PASS Atlas-SNP DOCK2 1794 hgsc.bcm.edu 37 5 169116304 169116304 + Silent SNP T T A rs189140579 bycluster;by1000genomes;alternate_allele TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 155.0 70.0 132.0 0.0 0.451613 0 T|1.000;C|0.000 . alt DOCK2,caecum,carcinoma,+2,1 DOCK2 389 1 NM_004946 exon9 c.T810A p.I270I GGAGATTGAGATG . PASS Atlas-SNP USP49 25862 hgsc.bcm.edu 37 6 41774340 41774340 + Missense_Mutation SNP G G T rs111948785 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 37.0 37.0 33.0 0.0 1 0 A|0.000;G|0.986;T|0.014 0.014 strong . USP49 58 . NM_018561 exon4 c.C382A p.L128M GCGGCAGGACCAC . PASS Atlas-SNP CPAMD8 27151 hgsc.bcm.edu 37 19 17113083 17113083 + Missense_Mutation SNP G G A rs10426545 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 128.0 52.0 148.0 1.0 0.40625 0.00675676 G|0.982;A|0.018 0.018 strong CPAMD8,brain,primitive_neuroectodermal_tumour-medulloblastoma,+1,1 CPAMD8 192 1 NM_015692 exon9 c.C892T p.R298W TGGCCCGCACAGT . scavenged Atlas-SNP RPL6 6128 hgsc.bcm.edu 37 12 112843105 112843105 + Missense_Mutation SNP T T C rs141161168 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 80.0 34.0 90.0 0.0 0.425 0 T|1.000;C|0.000 0.000 strong . RPL6 20 . NM_001024662 exon7 c.A790G p.I264V GAGGAATAGCTTT . PASS Atlas-SNP MYBBP1A 10514 hgsc.bcm.edu 37 17 4448324 4448324 + Silent SNP C C T rs9910964 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 62.0 31.0 62.0 0.0 0.5 0 C|0.916;T|0.084 0.084 strong . MYBBP1A 69 . NM_014520 exon17 c.G2307A p.A769A CACCAGCGCCTTC . PASS Atlas-SNP GLTSCR1 29998 hgsc.bcm.edu 37 19 48182859 48182859 + Silent SNP G G A rs60219834 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 12.0 8.0 4.0 0.0 0.666667 0 G|0.943;A|0.057 0.057 strong . GLTSCR1 79 . NM_015711 exon6 c.G432A p.T144T CCCGACGGGCGCT . PASS Atlas-SNP ALMS1 7840 hgsc.bcm.edu 37 2 73676315 73676315 + Silent SNP A A G rs76266696 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 264.0 128.0 260.0 0.0 0.484848 0 A|0.994;G|0.006 0.006 strong . ALMS1 384 . NM_015120 exon8 c.A2658G p.V886V GAAAGTATCAATT . PASS Atlas-SNP ZNF536 9745 hgsc.bcm.edu 37 19 31039357 31039357 + Missense_Mutation SNP C C A rs61741995 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 30.0 18.0 27.0 0.0 0.6 0 C|0.982;A|0.018 0.018 strong . ZNF536 424 . NM_014717 exon4 c.C2831A p.P944H CTGACCCCCCTTC . PASS Atlas-SNP KIAA1967 57805 hgsc.bcm.edu 37 8 22476717 22476717 + Missense_Mutation SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 107.0 51.0 92.0 0.0 0.476636 0 . . none . KIAA1967 72 . NM_021174 exon20 c.C2576T p.A859V TGGCGGCAGAGAT . PASS Atlas-SNP ALKBH7 84266 hgsc.bcm.edu 37 19 6374229 6374229 + Silent SNP C C A rs116186903 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 67.0 43.0 57.0 0.0 0.641791 0 C|0.994;A|0.006 0.006 strong . ALKBH7 18 . NM_032306 exon2 c.C220A p.R74R GGCTTCCGAGAGA . PASS Atlas-SNP MAATS1 89876 hgsc.bcm.edu 37 3 119449165 119449165 + Missense_Mutation SNP C C G rs9819218 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 127.0 63.0 108.0 0.0 0.496063 0 C|0.982;G|0.018 0.018 strong . . . . NM_033364 exon8 c.C959G p.S320C GGTGGTCTAAACT . PASS Atlas-SNP NBPF7 343505 hgsc.bcm.edu 37 1 120378657 120378657 + Silent SNP G G A rs6684816 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 202.0 96.0 164.0 0.0 0.475248 0 A|0.016;G|0.984 0.016 strong . NBPF7 46 . NM_001047980 exon7 c.C1089T p.S363S GGAATTGGAGTGT . PASS Atlas-SNP OR1E2 8388 hgsc.bcm.edu 37 17 3336697 3336697 + Missense_Mutation SNP G G A rs77501388 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 230.0 98.0 221.0 0.0 0.426087 0 G|0.987;A|0.013 0.013 strong OR1E2,right_upper_lobe,carcinoma,+1,1 OR1E2 25 1 NM_003554 exon1 c.C439T p.P147S GCATGGGGCTCAT . PASS Atlas-SNP SALL1 6299 hgsc.bcm.edu 37 16 51173823 51173823 + Silent SNP G G A rs61740811 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 228.0 114.0 221.0 0.0 0.5 0 G|0.957;A|0.043 0.043 strong . SALL1 301 . NM_002968 exon2 c.C2310T p.I770I CTGGCAGATGGGG . PASS Atlas-SNP HCN4 10021 hgsc.bcm.edu 37 15 73617723 73617723 + Silent SNP G G T rs141966309 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 196.0 94.0 217.0 0.0 0.479592 0 G|0.998;T|0.002 0.002 strong . HCN4 150 . NM_005477 exon5 c.C1653A p.I551I GTCGTGGATGCGC . PASS Atlas-SNP ABTB2 25841 hgsc.bcm.edu 37 11 34176262 34176262 + Missense_Mutation SNP T T C rs2473928 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 122.0 69.0 106.0 0.0 0.565574 0 T|0.973;C|0.027 0.027 strong . ABTB2 101 . NM_145804 exon15 c.A2752G p.T918A TGTCAGTGGTGGG . PASS Atlas-SNP IL1RL1 9173 hgsc.bcm.edu 37 2 102957136 102957136 + Missense_Mutation SNP C C T rs114797672 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 268.0 128.0 301.0 0.0 0.477612 0 C|0.992;T|0.008 0.008 strong . IL1RL1 114 . NM_016232 exon5 c.C458T p.A153V GTCAGGCTCTTCA . PASS Atlas-SNP STRN3 29966 hgsc.bcm.edu 37 14 31364948 31364948 + Missense_Mutation SNP A A G rs114922597 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 134.0 54.0 112.0 0.0 0.402985 0 A|0.990;G|0.010 0.010 strong . STRN3 117 . NM_001083893 exon17 c.T2144C p.M715T TGGATCATTTTAC . PASS Atlas-SNP VNN1 8876 hgsc.bcm.edu 37 6 133004281 133004281 + Missense_Mutation SNP A A G rs61729583 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 87.0 36.0 71.0 0.0 0.413793 0 A|0.971;G|0.029 0.029 strong . VNN1 69 . NM_004666 exon7 c.T1540C p.X514Q TATTCTACCAACT . PASS Atlas-SNP NLRP4 147945 hgsc.bcm.edu 37 19 56369095 56369095 + Silent SNP C C T rs147356242 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 55.0 29.0 41.0 0.0 0.527273 0 C|0.994;T|0.006 0.006 strong . NLRP4 331 . NM_134444 exon3 c.C336T p.S112S ATGGTCCAGCAAG . PASS Atlas-SNP GIMAP6 474344 hgsc.bcm.edu 37 7 150324976 150324976 + Missense_Mutation SNP T T C rs11977216 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 290.0 128.0 324.0 0.0 0.441379 0 T|0.964;C|0.036 0.036 strong . GIMAP6 60 . NM_001244072 exon3 c.A920G p.Q307R GTATATTGGTAAG . PASS Atlas-SNP MUC6 4588 hgsc.bcm.edu 37 11 1017945 1017945 + Missense_Mutation SNP A A G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 1212.0 49.0 1032.0 0.0 0.040429 0 . . none . MUC6 408 . NM_005961 exon31 c.T4856C p.F1619S GTGGAGAAAGGTG . PASS Atlas-SNP AHNAK2 113146 hgsc.bcm.edu 37 14 105417503 105417503 + Missense_Mutation SNP G G T rs146582718 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 411.0 406.0 389.0 0.0 0.987835 0 G|0.962;T|0.038 0.038 strong . AHNAK2 719 . NM_138420 exon7 c.C4285A p.P1429T TTTCAGGGCCCTT . PASS Atlas-SNP SLC7A9 11136 hgsc.bcm.edu 37 19 33333179 33333179 + Silent SNP C C T rs111630604 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 35.0 72.0 0.0 0.460526 0 C|0.987;T|0.013 0.013 strong SLC7A9,NS,carcinoma,-1,3 SLC7A9 78 3 NM_001243036 exon11 c.G1119A p.S373S GACTAACGAGTTT . PASS Atlas-SNP TMEM223 79064 hgsc.bcm.edu 37 11 62559301 62559301 + Missense_Mutation SNP C C T rs2956139 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 128.0 58.0 125.0 0.0 0.453125 0 C|0.973;T|0.027 0.027 strong . TMEM223 22 . NM_001080501 exon1 c.G166A p.G56S AGACGCCCTGGCC . PASS Atlas-SNP CR1 1378 hgsc.bcm.edu 37 1 207782889 207782889 + Missense_Mutation SNP A A G rs17047661 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 152.0 77.0 131.0 0.0 0.506579 0 A|0.769;G|0.231 0.231 strong . CR1 354 . NM_000651 exon37 c.A6151G p.R2051G GCAATTAGAGTAC . PASS Atlas-SNP CAPN3 825 hgsc.bcm.edu 37 15 42680058 42680058 + Silent SNP T T C rs17593 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 163.0 163.0 159.0 1.0 1 0.00628931 T|0.944;C|0.056 0.056 strong . CAPN3 172 . NM_000070 exon4 c.T606C p.S202S CTGGAGTGCTCTG . PASS Atlas-SNP ZC4H2 55906 hgsc.bcm.edu 37 X 64139051 64139051 + Silent SNP T T C rs6524946 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 129.0 62.0 154.0 0.0 0.48062 0 T|0.894;C|0.106 0.106 strong . ZC4H2 64 . NM_018684 exon4 c.A432G p.T144T AGGTTCTGTCTGC . PASS Atlas-SNP MYOM2 9172 hgsc.bcm.edu 37 8 2088697 2088697 + Missense_Mutation SNP G G C rs34735757 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 35.0 68.0 0.0 0.460526 0 G|0.986;C|0.014 0.014 strong . MYOM2 251 . NM_003970 exon33 c.G3852C p.E1284D TGAAGAGATGGCT . PASS Atlas-SNP ND1 10625 hgsc.bcm.edu 37 MT 3594 3594 + Silent SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 9.0 9.0 5.0 0.0 1 0 . . none . . . . ENST00000361390 exon1 c.C288T p.V96V CCTGGTCAACCTC . PASS Atlas-SNP SLC38A8 146167 hgsc.bcm.edu 37 16 84056442 84056442 + Missense_Mutation SNP G G C rs11861325 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 79.0 37.0 71.0 0.0 0.468354 0 G|0.961;C|0.039 0.039 strong . SLC38A8 60 . NM_001080442 exon6 c.C743G p.S248C CAGTGGGAGAGGC . PASS Atlas-SNP ZFP42 132625 hgsc.bcm.edu 37 4 188924450 188924450 + Silent SNP A A G rs61731386 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 60.0 37.0 59.0 0.0 0.616667 0 A|0.972;G|0.028 0.028 strong . ZFP42 87 . NM_174900 exon4 c.A489G p.S163S CCTATCAGATCCT . PASS Atlas-SNP WNK4 65266 hgsc.bcm.edu 37 17 40946913 40946913 + Missense_Mutation SNP C C T rs56226218 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 279.0 145.0 235.0 1.0 0.519713 0.00425532 C|0.974;T|0.026 0.026 strong . WNK4 182 . NM_032387 exon14 c.C2474T p.P825L TTTCCCCAGGTCC . PASS Atlas-SNP HADHB 3032 hgsc.bcm.edu 37 2 26505745 26505745 + Silent SNP G G A rs7572240 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 53.0 26.0 71.0 0.0 0.490566 0 G|0.982;A|0.018 0.018 strong . HADHB 50 . NM_000183 exon11 c.G966A p.A322A CATGGCGGAGGAA . PASS Atlas-SNP GOLM1 51280 hgsc.bcm.edu 37 9 88650332 88650332 + Missense_Mutation SNP C C G rs61741197 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 104.0 71.0 93.0 0.0 0.682692 0 C|0.947;G|0.053 0.053 strong . GOLM1 36 . NM_016548 exon8 c.G966C p.Q322H GACAAGCTGGTCT . PASS Atlas-SNP HDAC4 9759 hgsc.bcm.edu 37 2 240003873 240003873 + Silent SNP G G A rs10168964 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 326.0 324.0 243.0 0.0 0.993865 0 G|0.924;A|0.076 0.076 strong . HDAC4 127 . NM_006037 exon21 c.C2562T p.D854D GCTGGGGTCGCTG . PASS Atlas-SNP KRTAP1-4 728255 hgsc.bcm.edu 37 17 39186254 39186254 + Missense_Mutation SNP T T G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 137.0 68.0 135.0 0.0 0.49635 0 . . none . KRTAP1-4 4 . NM_001257305 exon1 c.A77C p.Q26P CTTGGCTGGCAGC . PASS Atlas-SNP OR52H1 390067 hgsc.bcm.edu 37 11 5566460 5566460 + Silent SNP G G A rs115541630 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 117.0 58.0 104.0 0.0 0.495726 0 G|0.983;A|0.017 0.017 strong OR52H1,NS,carcinoma,0,1 OR52H1 46 1 NM_001005289 exon1 c.C294T p.R98R GATTTCGCGAGCC . PASS Atlas-SNP PCDHB14 56122 hgsc.bcm.edu 37 5 140604641 140604641 + Missense_Mutation SNP G G C rs142548755 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 281.0 137.0 246.0 0.0 0.487544 0 G|0.994;C|0.006 0.006 strong . PCDHB14 132 . NM_018934 exon1 c.G1564C p.E522Q GACTACGAGGCCC . PASS Atlas-SNP ACPL2 92370 hgsc.bcm.edu 37 3 141006162 141006162 + Silent SNP G G A rs34601454 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 97.0 41.0 115.0 0.0 0.42268 0 G|0.969;A|0.031 0.031 strong . ACPL2 50 . NM_152282 exon7 c.G372A p.P124P GAAACCGTATCAC . PASS Atlas-SNP PARVB 29780 hgsc.bcm.edu 37 22 44495953 44495953 + Missense_Mutation SNP A A G rs56194750 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 97.0 48.0 78.0 0.0 0.494845 0 A|0.997;G|0.003 0.003 strong . PARVB 44 . NM_001003828 exon4 c.A322G p.M108V CGCACGATGATTG . PASS Atlas-SNP DNAH3 55567 hgsc.bcm.edu 37 16 21042391 21042391 + Silent SNP G G A rs114086288 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 103.0 55.0 114.0 0.0 0.533981 0 G|0.989;A|0.011 0.011 strong . DNAH3 1142 . NM_017539 exon37 c.C5415T p.N1805N AACAGTGTTCATA . PASS Atlas-SNP APOBEC3A 200315 hgsc.bcm.edu 37 22 39357634 39357634 + Silent SNP A A G rs62230498 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 45.0 45.0 51.0 0.0 1 0 A|0.167;G|0.833 0.833 weak . APOBEC3A 20 . NM_145699 exon3 c.A417G p.A139A GGAGGCACTGCAA . PASS Atlas-SNP C2orf53 339779 hgsc.bcm.edu 37 2 27361049 27361049 + Missense_Mutation SNP G G C rs61739485 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 144.0 50.0 144.0 0.0 0.347222 0 G|0.972;C|0.028 0.028 strong . C2orf53 45 . NM_178553 exon3 c.C149G p.P50R GAGAACGGTGGTT . PASS Atlas-SNP PIEZO1 9780 hgsc.bcm.edu 37 16 88793156 88793156 + Silent SNP G G A rs376432833 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 56.0 22.0 51.0 0.0 0.392857 0 . . weak . PIEZO1 79 . NM_001142864 exon25 c.C3666T p.N1222N GGTGACGTTGTAC . PASS Atlas-SNP KCNH1 3756 hgsc.bcm.edu 37 1 210857145 210857145 + Silent SNP C C T rs112047226 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 74.0 32.0 56.0 0.0 0.432432 0 C|0.987;T|0.013 0.013 strong KCNH1,colon,carcinoma,-1,1 KCNH1 199 1 NM_172362 exon11 c.G2448A p.A816A CCCTGGCGCCTGT . PASS Atlas-SNP CFH 3075 hgsc.bcm.edu 37 1 196706659 196706659 + Missense_Mutation SNP C C A rs114743644 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 92.0 46.0 103.0 0.0 0.5 0 C|0.999;A|0.001 0.001 strong . CFH 251 . NM_000186 exon17 c.C2651A p.S884Y ATTCATCCAGGTC . PASS Atlas-SNP ZNF80 7634 hgsc.bcm.edu 37 3 113955890 113955890 + Missense_Mutation SNP C C T rs112412956 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 153.0 78.0 131.0 0.0 0.509804 0 C|0.987;T|0.013 0.013 strong . ZNF80 75 . NM_007136 exon1 c.G32A p.G11D CCATCACCTGTCC . PASS Atlas-SNP CSMD3 114788 hgsc.bcm.edu 37 8 113275878 113275878 + Silent SNP C C T rs16883323 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 70.0 36.0 65.0 0.0 0.514286 0 C|0.969;T|0.031 0.031 strong CSMD3_ENST00000343508,caecum,carcinoma,0,4 CSMD3 2325 4 NM_198123 exon61 c.G9852A p.P3284P GCACTGCGGTACT . PASS Atlas-SNP KIF9 64147 hgsc.bcm.edu 37 3 47286320 47286320 + Missense_Mutation SNP T T C rs115610071 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 175.0 84.0 216.0 0.0 0.48 0 T|0.992;C|0.008 0.008 strong . KIF9 59 . NM_182902 exon15 c.A1475G p.K492R GCTTTCTTCCCAG . PASS Atlas-SNP THAP4 51078 hgsc.bcm.edu 37 2 242572693 242572693 + Silent SNP C C T rs147500721 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 44.0 69.0 0.0 0.578947 0 C|0.985;T|0.015 0.015 strong . THAP4 27 . NM_015963 exon2 c.G879A p.P293P CTTCTGCGGTGTC . PASS Atlas-SNP SPPL2A 84888 hgsc.bcm.edu 37 15 51023216 51023216 + Silent SNP G G C rs76947817 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 214.0 104.0 220.0 0.0 0.485981 0 G|0.977;C|0.023 0.023 strong . SPPL2A 26 . NM_032802 exon10 c.C1035G p.G345G GAGAAGGCCTAGA . PASS Atlas-SNP SENP6 26054 hgsc.bcm.edu 37 6 76373002 76373002 + Silent SNP G G A rs16886792 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 114.0 57.0 88.0 0.0 0.5 0 G|0.985;A|0.015 0.015 strong . SENP6 189 . NM_015571 exon9 c.G762A p.T254T AAGAACGTCAATT . PASS Atlas-SNP ARL6IP4 51329 hgsc.bcm.edu 37 12 123466304 123466304 + Missense_Mutation SNP A A G rs74758272 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 75.0 36.0 72.0 0.0 0.48 0 A|0.880;G|0.120 0.120 strong . ARL6IP4 14 . NM_018694 exon3 c.A716G p.K239R AGAAGAAGAAGAG . PASS Atlas-SNP PREPL 9581 hgsc.bcm.edu 37 2 44571008 44571008 + Silent SNP A A T rs72875319 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 114.0 50.0 116.0 0.0 0.438596 0 A|0.966;T|0.034 0.034 strong . PREPL 69 . NM_001171603 exon5 c.T492A p.A164A ATCTGGAGCAACT . PASS Atlas-SNP DTX2 113878 hgsc.bcm.edu 37 7 76132805 76132805 + Silent SNP C C G rs73703182 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 173.0 95.0 183.0 0.0 0.549133 0 C|0.977;G|0.023 0.023 strong . DTX2 64 . NM_001102594 exon9 c.C1452G p.P484P CCAGCCCCAGGGA . PASS Atlas-SNP KANK2 25959 hgsc.bcm.edu 37 19 11289307 11289307 + Missense_Mutation SNP C C T rs149142528 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 69.0 29.0 66.0 0.0 0.42029 0 C|0.987;T|0.013 0.013 strong . KANK2 47 . NM_015493 exon3 c.G1339A p.V447M TGGGCACTCGGCC . PASS Atlas-SNP ZPBP2 124626 hgsc.bcm.edu 37 17 38027824 38027824 + Missense_Mutation SNP G G A rs35829084 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 154.0 85.0 186.0 0.0 0.551948 0 G|0.968;A|0.032 0.032 strong . ZPBP2 33 . NM_199321 exon4 c.G352A p.A118T GTTAAAGCAGAAA . PASS Atlas-SNP SLC27A5 10998 hgsc.bcm.edu 37 19 59023213 59023213 + Missense_Mutation SNP A A C rs146147877 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 74.0 37.0 58.0 0.0 0.5 0 A|0.995;C|0.005 0.005 strong . SLC27A5 58 . NM_012254 exon1 c.T110G p.L37R TCCCCCAGGAGCC . PASS Atlas-SNP C17orf64 124773 hgsc.bcm.edu 37 17 58506748 58506748 + Missense_Mutation SNP C C T rs57928695 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 147.0 75.0 108.0 0.0 0.510204 0 C|0.882;T|0.118 0.118 strong . C17orf64 19 . NM_181707 exon5 c.C455T p.P152L ATGCGCCGGAGAG . PASS Atlas-SNP ND5 0 hgsc.bcm.edu 37 MT 13260 13260 + Silent SNP T T C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 11.0 11.0 12.0 0.0 1 0 . . none . . . . ENST00000361567 exon1 c.T924C p.S308S TTCAAGTCAACTA . PASS Atlas-SNP MAST2 23139 hgsc.bcm.edu 37 1 46496368 46496368 + Silent SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 119.0 5.0 117.0 0.0 0.0420168 0 . . none . MAST2 136 . NM_015112 exon22 c.C2643T p.D881D GGAGGACCATTCA . PASS Atlas-SNP TCHH 7062 hgsc.bcm.edu 37 1 152082304 152082304 + Missense_Mutation SNP T T G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 289.0 13.0 215.0 2.0 0.0449827 0.00930233 . . none TCHH,NS,malignant_melanoma,0,1 TCHH 275 1 NM_007113 exon3 c.A3389C p.K1130T CTTCTCTTCTCCC . scavenged Atlas-SNP PLEKHG4B 153478 hgsc.bcm.edu 37 5 162929 162929 + Silent SNP G G C rs75342794 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 187.0 99.0 166.0 0.0 0.529412 0 G|0.941;C|0.059 0.059 strong PLEKHG4B_ENST00000283426,NS,carcinoma,+2,1 PLEKHG4B 167 1 NM_052909 exon11 c.G1674C p.S558S TACCTCGGTGGCT . PASS Atlas-SNP KIF7 374654 hgsc.bcm.edu 37 15 90196113 90196113 + Missense_Mutation SNP G G A rs141865394 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 54.0 90.0 0.0 0.54 0 G|0.994;A|0.006 0.006 strong . KIF7 130 . NM_198525 exon2 c.C49T p.R17W CAACCCGCACTGG . PASS Atlas-SNP CPN1 1369 hgsc.bcm.edu 37 10 101835764 101835764 + Silent SNP C C G rs61754515 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 88.0 46.0 91.0 0.0 0.522727 0 C|0.959;G|0.041 0.041 strong . CPN1 62 . NM_001308 exon2 c.G324C p.R108R CCTGTTCCGGAAC . PASS Atlas-SNP USP35 57558 hgsc.bcm.edu 37 11 77911224 77911224 + Missense_Mutation SNP T T C rs115848453 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 182.0 71.0 152.0 0.0 0.39011 0 T|0.995;C|0.005 0.005 strong . USP35 179 . NM_020798 exon5 c.T982C p.S328P GCCTTGTCTGTGC . PASS Atlas-SNP ATP10A 57194 hgsc.bcm.edu 37 15 25963484 25963484 + Missense_Mutation SNP C C T rs116055743 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 126.0 65.0 136.0 0.0 0.515873 0 C|0.994;T|0.006 0.006 strong . ATP10A 270 . NM_024490 exon8 c.G1426A p.G476S CCGAGCCCCCTCT . PASS Atlas-SNP DGKI 9162 hgsc.bcm.edu 37 7 137263067 137263067 + Silent SNP T T A rs61751966 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 123.0 63.0 98.0 0.0 0.512195 0 T|0.987;A|0.013 0.013 strong DGKI_ENST00000288490,NS,carcinoma,-2,2 DGKI 335 2 NM_004717 exon16 c.A1647T p.A549A TGGATTTGCTTCT . PASS Atlas-SNP TTN 7273 hgsc.bcm.edu 37 2 179613147 179613147 + Missense_Mutation SNP G G C rs75785339 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 317.0 147.0 282.0 0.0 0.463722 0 G|0.964;C|0.036 0.036 strong . TTN 18412 . NM_133379 exon46 c.C13980G p.H4660Q GATATTGTGTGTG . PASS Atlas-SNP CAGE1 285782 hgsc.bcm.edu 37 6 7379031 7379031 + Missense_Mutation SNP G G A rs10223538 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 149.0 72.0 169.0 0.0 0.483221 0 G|0.944;A|0.056 0.056 strong . CAGE1 165 . NM_001170693 exon4 c.C506T p.T169I ACACTAGTTTCCA . PASS Atlas-SNP TP53INP1 94241 hgsc.bcm.edu 37 8 95942773 95942773 + Silent SNP G G A rs77630257 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 201.0 82.0 195.0 0.0 0.40796 0 A|0.010;G|0.990 0.010 strong . TP53INP1 22 . NM_033285 exon4 c.C657T p.H219H CCGAGGGTGGCAA . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195509076 195509076 + Missense_Mutation SNP G G T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 282.0 24.0 161.0 0.0 0.0851064 0 . . none . MUC4 1505 . NM_018406 exon2 c.C9375A p.D3125E GGAAGTGTCGGTG . PASS Atlas-SNP DES 1674 hgsc.bcm.edu 37 2 220290674 220290674 + Missense_Mutation SNP G G A rs73991549 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 51.0 26.0 54.0 0.0 0.509804 0 G|0.989;A|0.011 0.011 strong DES,brain,glioma,0,2 DES 53 2 NM_001927 exon9 c.G1375A p.V459I CAGGTCGTCAGTG . PASS Atlas-SNP ABL1 25 hgsc.bcm.edu 37 9 133760592 133760592 + Missense_Mutation SNP C C T rs2229067 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 96.0 60.0 95.0 0.0 0.625 0 C|0.971;T|0.029 0.029 strong . ABL1 1632 . NM_007313 exon11 c.C2972T p.S991L AGCCGTCGGGGAC . PASS Atlas-SNP TPO 7173 hgsc.bcm.edu 37 2 1418188 1418188 + Missense_Mutation SNP C C T rs151268825 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 128.0 65.0 144.0 0.0 0.507812 0 C|0.999;T|0.001 0.001 strong TPO,NS,carcinoma,-1,1 TPO 224 1 NM_175719 exon2 c.C8T p.A3V TGAGAGCGCTCGC . PASS Atlas-SNP OGG1 4968 hgsc.bcm.edu 37 3 9796508 9796508 + Missense_Mutation SNP G G A rs1805373 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 146.0 59.0 137.0 0.0 0.40411 0 G|0.969;A|0.031 0.031 strong . OGG1 57 . NM_016819 exon4 c.G686A p.R229Q AGCTACGAGAGTC . PASS Atlas-SNP SFSWAP 6433 hgsc.bcm.edu 37 12 132237789 132237789 + Silent SNP C C T rs202066133 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 170.0 70.0 167.0 0.0 0.411765 0 C|1.000;T|0.000 0.000 strong . SFSWAP 69 . NM_001261411 exon8 c.C1203T p.T401T CGTGACCGTGTCT . PASS Atlas-SNP KIAA1199 57214 hgsc.bcm.edu 37 15 81217024 81217024 + Silent SNP G G A rs28566789 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 196.0 92.0 184.0 0.0 0.469388 0 G|0.973;A|0.027 0.027 strong . KIAA1199 118 . NM_018689 exon17 c.G2265A p.P755P GCGGCCGTTCCTC . PASS Atlas-SNP SORBS1 10580 hgsc.bcm.edu 37 10 97154762 97154762 + Silent SNP G G A rs17110703 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 214.0 108.0 228.0 0.0 0.504673 0 G|0.952;A|0.048 0.048 strong . SORBS1 185 . NM_001034955 exon12 c.C1293T p.S431S ACCTTCGGAAGTT . PASS Atlas-SNP PIK3C2G 5288 hgsc.bcm.edu 37 12 18715673 18715673 + Silent SNP A A G rs11044184 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 192.0 85.0 181.0 0.0 0.442708 0 A|0.941;G|0.059 0.059 strong . PIK3C2G 315 . NM_004570 exon26 c.A3504G p.K1168K TGTTAAATTGAAT . PASS Atlas-SNP CDC5L 988 hgsc.bcm.edu 37 6 44387305 44387305 + Silent SNP T T C rs11571982 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 126.0 61.0 144.0 0.0 0.484127 0 T|0.989;C|0.011 0.011 strong . CDC5L 86 . NM_001253 exon9 c.T1212C p.T404T ACAGACTCCAAAC . PASS Atlas-SNP CDC14A 8556 hgsc.bcm.edu 37 1 100928421 100928421 + Silent SNP C C T rs74667145 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 73.0 35.0 70.0 0.0 0.479452 0 C|0.999;T|0.001 0.001 strong . CDC14A 65 . NM_033313 exon9 c.C822T p.I274I GGCCATCGCCGTT . PASS Atlas-SNP PDE6A 5145 hgsc.bcm.edu 37 5 149324153 149324153 + Silent SNP G G A rs34230349 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 75.0 34.0 97.0 0.0 0.453333 0 G|0.984;A|0.016 0.016 strong . PDE6A 98 . NM_000440 exon1 c.C84T p.Y28Y GGCCCGGTAGTGG . PASS Atlas-SNP ABCC1 4363 hgsc.bcm.edu 37 16 16230427 16230427 + Silent SNP C C T rs34526519 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 118.0 54.0 88.0 0.0 0.457627 0 C|0.994;T|0.006 0.006 strong . ABCC1 156 . NM_004996 exon29 c.C4218T p.A1406A GCTGGCCCACCTG . PASS Atlas-SNP SCARB1 949 hgsc.bcm.edu 37 12 125263039 125263039 + Missense_Mutation SNP C C T rs701103 bycluster;byfrequency;by2hit2allele;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 51.0 29.0 28.0 0.0 0.568627 0 C|0.956;T|0.044 0.044 strong . SCARB1 40 . NM_001082959 exon12 c.G1495A p.G499R GCTGTCCGCTGGG . PASS Atlas-SNP KRT16 3868 hgsc.bcm.edu 37 17 39768756 39768756 + Missense_Mutation SNP C C T rs367990963 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 77.0 37.0 72.0 0.0 0.480519 0 . . weak . KRT16 45 . NM_005557 exon1 c.G185A p.C62Y AGCCCGCAGGCTC . PASS Atlas-SNP PARP14 54625 hgsc.bcm.edu 37 3 122419292 122419292 + Missense_Mutation SNP A A G rs7632072 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 87.0 42.0 65.0 0.0 0.482759 0 A|0.950;G|0.050 0.050 strong . PARP14 242 . NM_017554 exon6 c.A1891G p.T631A CCAAACACTGTAA . PASS Atlas-SNP C9orf50 375759 hgsc.bcm.edu 37 9 132377769 132377769 + Missense_Mutation SNP G G A rs117566704 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 63.0 35.0 62.0 0.0 0.555556 0 A|0.001;C|0.002;G|0.998 0.001 strong . C9orf50 25 . NM_199350 exon4 c.C874T p.R292C CTGAGCGTCTGCG . PASS Atlas-SNP SSTR3 6753 hgsc.bcm.edu 37 22 37602611 37602611 + Missense_Mutation SNP C C G rs229568 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 72.0 34.0 64.0 0.0 0.472222 0 C|0.934;G|0.066 0.066 strong . SSTR3 42 . NM_001051 exon2 c.G1232C p.S411T ATCGTGCTGGACT . PASS Atlas-SNP C10orf71 118461 hgsc.bcm.edu 37 10 50531520 50531520 + Silent SNP C C A rs73307889 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 72.0 34.0 78.0 1.0 0.472222 0.0128205 C|0.984;A|0.016 0.016 strong C10orf71_ENST00000374144,NS,carcinoma,+1,2 C10orf71 179 2 NM_001135196 exon3 c.C930A p.T310T CACGACCTTGCTA . scavenged Atlas-SNP ACOT12 134526 hgsc.bcm.edu 37 5 80655766 80655766 + Missense_Mutation SNP T T G rs147339997 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 152.0 79.0 165.0 0.0 0.519737 0 T|0.996;G|0.004 0.004 strong . ACOT12 57 . NM_130767 exon5 c.A452C p.E151A GTATCTTCATGTT . PASS Atlas-SNP ZNF577 84765 hgsc.bcm.edu 37 19 52375809 52375809 + Silent SNP A A G rs142094475 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 56.0 26.0 67.0 0.0 0.464286 0 A|0.998;G|0.002 0.002 strong . ZNF577 63 . NM_032679 exon7 c.T1434C p.Y478Y TGTAAGATACAAG . PASS Atlas-SNP C12orf68 387856 hgsc.bcm.edu 37 12 48577925 48577925 + Missense_Mutation SNP A A G rs140861476 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 47.0 22.0 49.0 0.0 0.468085 0 A|1.000;G|0.000 0.000 weak . C12orf68 11 . NM_001013635 exon1 c.A20G p.E7G TGCTGGAGATCAT . PASS Atlas-SNP PRR14L 253143 hgsc.bcm.edu 37 22 32109305 32109305 + Missense_Mutation SNP T T C rs112331962 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 50.0 101.0 0.0 0.5 0 T|0.975;C|0.025 0.025 strong . PRR14L 198 . NM_173566 exon4 c.A4520G p.H1507R GCACCATGTATTT . PASS Atlas-SNP FBXO10 26267 hgsc.bcm.edu 37 9 37537892 37537892 + Missense_Mutation SNP G G T rs7044561 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 149.0 75.0 137.0 0.0 0.503356 0 G|0.983;T|0.017 0.017 strong . FBXO10 75 . NM_012166 exon3 c.C634A p.H212N GGATGTGCCCGTT . PASS Atlas-SNP MBP 4155 hgsc.bcm.edu 37 18 74701936 74701936 + Silent SNP G G A rs76912958 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 148.0 72.0 153.0 0.0 0.486486 0 G|0.977;A|0.023 0.023 strong . MBP 45 . NM_001025101 exon5 c.C657T p.P219P GACTACGGGGTTT . PASS Atlas-SNP PWWP2B 170394 hgsc.bcm.edu 37 10 134219291 134219291 + Silent SNP C C T rs139452616 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 17.0 12.0 19.0 0.0 0.705882 0 C|0.986;T|0.014 0.014 strong . PWWP2B 33 . NM_001098637 exon2 c.C1287T p.D429D CCTGGACGAGGCC . PASS Atlas-SNP LTBP2 4053 hgsc.bcm.edu 37 14 74973926 74973926 + Missense_Mutation SNP C C A rs139481866 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 339.0 178.0 310.0 0.0 0.525074 0 C|0.998;A|0.002 0.002 strong . LTBP2 158 . NM_000428 exon26 c.G3863T p.G1288V TGGCAGCCCAGAA . PASS Atlas-SNP KIAA1551 55196 hgsc.bcm.edu 37 12 32134122 32134122 + Missense_Mutation SNP T T C rs75434030 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 168.0 91.0 124.0 0.0 0.541667 0 T|0.995;C|0.005 0.005 strong . . . . NM_018169 exon4 c.T233C p.M78T CTGATATGCATAA . PASS Atlas-SNP RFX7 64864 hgsc.bcm.edu 37 15 56387581 56387581 + Nonsense_Mutation SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 95.0 27.0 79.0 0.0 0.284211 0 . . none RFX7_ENST00000423270,NS,lymphoid_neoplasm,0,2 RFX7 170 2 NM_022841 exon9 c.G2345A p.W782X TGTTGCCATCCAT . PASS Atlas-SNP NUP35 129401 hgsc.bcm.edu 37 2 183993085 183993085 + Silent SNP A A G rs61743390 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 99.0 44.0 90.0 0.0 0.444444 0 A|0.989;G|0.011 0.011 strong . NUP35 28 . NM_138285 exon2 c.A111G p.G37G ACCTGGATTTTTA . PASS Atlas-SNP TMED7-TICAM2 100302736 hgsc.bcm.edu 37 5 114916351 114916351 + Silent SNP T T G rs7705473 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 172.0 97.0 179.0 0.0 0.563953 0 T|0.989;G|0.011 0.011 strong . . . . NM_001164468 exon4 c.A1110C p.G370G AGGAAATCCACGA . PASS Atlas-SNP COL6A5 256076 hgsc.bcm.edu 37 3 130150704 130150704 + Missense_Mutation SNP A A G rs61750883 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 68.0 33.0 68.0 0.0 0.485294 0 A|0.993;G|0.007 0.007 strong . COL6A5 205 . NM_153264 exon33 c.A5644G p.I1882V TCATCCATCATCA . PASS Atlas-SNP TTC3 7267 hgsc.bcm.edu 37 21 38538319 38538319 + Missense_Mutation SNP A A G rs61998236 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 184.0 88.0 194.0 0.0 0.478261 0 A|0.974;G|0.026 0.026 strong . TTC3 182 . NM_001001894 exon33 c.A3803G p.D1268G CTGAGGATGGGCA . PASS Atlas-SNP SLC12A3 6559 hgsc.bcm.edu 37 16 56919216 56919216 + Missense_Mutation SNP A A G rs61746763 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 50.0 20.0 70.0 0.0 0.4 0 A|0.981;G|0.019 0.019 strong . SLC12A3 99 . NM_001126108 exon15 c.A1865G p.N622S CCTACAACCTGGC . PASS Atlas-SNP BMP1 649 hgsc.bcm.edu 37 8 22059413 22059413 + Silent SNP C C G rs28710878 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 88.0 39.0 64.0 0.0 0.443182 0 C|0.970;G|0.030 0.030 strong . BMP1 131 . NM_006129 exon16 c.C2205G p.L735L CGTCCTCCATGAC . PASS Atlas-SNP LAMA1 284217 hgsc.bcm.edu 37 18 6966296 6966296 + Silent SNP G G A rs73390557 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 32.0 13.0 55.0 0.0 0.40625 0 G|0.950;A|0.050 0.050 strong . LAMA1 458 . NM_005559 exon49 c.C6900T p.S2300S CTGGGAGCTGCAA . PASS Atlas-SNP TRIM22 10346 hgsc.bcm.edu 37 11 5719649 5719649 + Silent SNP T T C rs78484876 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 239.0 116.0 217.0 1.0 0.485356 0.00460829 T|0.990;C|0.010 0.010 strong . TRIM22 66 . NM_006074 exon4 c.T624C p.G208G GGAAGGTGAGGTG . PASS Atlas-SNP AMER1 139285 hgsc.bcm.edu 37 X 63412690 63412690 + Missense_Mutation SNP A A C rs34677493 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 70.0 35.0 63.0 0.0 0.5 0 0|0.013;C|0.188 0.188 strong . . . . NM_152424 exon2 c.T477G p.F159L AGAGGGAAACTTC . PASS Atlas-SNP CLEC16A 23274 hgsc.bcm.edu 37 16 11114174 11114174 + Silent SNP A A G rs61741309 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 116.0 60.0 74.0 0.0 0.517241 0 A|0.962;G|0.038 0.038 strong . CLEC16A 101 . NM_015226 exon11 c.A1428G p.Q476Q CACGCAATGGAGC . PASS Atlas-SNP GEN1 348654 hgsc.bcm.edu 37 2 17961321 17961321 + Silent SNP A A G rs16983864 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 53.0 26.0 52.0 0.0 0.490566 0 A|0.963;G|0.037 0.037 strong . GEN1 79 . NM_182625 exon13 c.A1341G p.A447A TGAAGCAGCATAT . PASS Atlas-SNP LRRIQ3 127255 hgsc.bcm.edu 37 1 74649119 74649119 + Splice_Site SNP C C T rs143858191 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 119.0 55.0 131.0 0.0 0.462185 0 C|0.998;T|0.002 0.002 strong . LRRIQ3 146 . NM_001105659 exon3 c.249+1G>A . TGCTTACCTGATT . PASS Atlas-SNP TTLL2 83887 hgsc.bcm.edu 37 6 167755063 167755063 + Missense_Mutation SNP G G A rs34931196 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 166.0 67.0 177.0 0.0 0.403614 0 G|0.970;A|0.030 0.030 strong . TTLL2 82 . NM_031949 exon3 c.G1675A p.V559I GTTCTTGTTTTTC . PASS Atlas-SNP ZNF41 7592 hgsc.bcm.edu 37 X 47308509 47308509 + Missense_Mutation SNP A A C rs34301930 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 230.0 123.0 197.0 0.0 0.534783 0 A|0.966;C|0.034 0.034 strong . ZNF41 71 . NM_007130 exon5 c.T660G p.N220K GTTACCATTTCCA . PASS Atlas-SNP MGAM 8972 hgsc.bcm.edu 37 7 141750613 141750613 + Missense_Mutation SNP T T A rs145430437 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 259.0 112.0 261.0 0.0 0.432432 0 T|0.988;A|0.012 0.012 strong . MGAM 767 . NM_004668 exon24 c.T2754A p.N918K ACACAATGGTGTC . PASS Atlas-SNP APOBEC3B 9582 hgsc.bcm.edu 37 22 39380131 39380131 + Silent SNP C C T rs61730557 byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 244.0 96.0 243.0 0.0 0.393443 0 C|0.974;T|0.026 0.026 strong . APOBEC3B 32 . NM_004900 exon2 c.C69T p.N23N TGAAAACGAACCC . PASS Atlas-SNP EXPH5 23086 hgsc.bcm.edu 37 11 108380740 108380740 + Missense_Mutation SNP G G C rs36005552 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 89.0 56.0 115.0 0.0 0.629214 0 G|0.990;C|0.010 0.010 strong . EXPH5 193 . NM_015065 exon6 c.C5494G p.R1832G TCAGTCGACTCAG . PASS Atlas-SNP CROT 54677 hgsc.bcm.edu 37 7 86986863 86986863 + Silent SNP T T C rs75642989 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 72.0 37.0 59.0 0.0 0.513889 0 T|0.986;C|0.014 0.014 strong . CROT 81 . NM_001143935 exon4 c.T156C p.D52D TCCAGATGCTAAG . PASS Atlas-SNP SFXN2 118980 hgsc.bcm.edu 37 10 104486822 104486822 + Silent SNP C C T rs35094483 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 191.0 190.0 192.0 0.0 0.994764 0 C|0.969;T|0.031 0.031 strong . SFXN2 40 . NM_178858 exon3 c.C240T p.P80P CCACCCCGACACT . PASS Atlas-SNP FAAH 2166 hgsc.bcm.edu 37 1 46874246 46874246 + Missense_Mutation SNP C C T rs77101686 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 68.0 43.0 59.0 1.0 0.632353 0.0169492 C|0.998;T|0.002 0.002 strong FAAH,colon,carcinoma,-1,1 FAAH 36 1 NM_001441 exon8 c.C1067T p.A356V AGGCTGCGGGGCA . scavenged Atlas-SNP DCTN1 1639 hgsc.bcm.edu 37 2 74593482 74593482 + Silent SNP G G A rs140986485 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 138.0 64.0 140.0 0.0 0.463768 0 G|0.997;A|0.003 0.003 strong . DCTN1 110 . NM_004082 exon23 c.C2649T p.S883S GGGGCTGCTGGAG . PASS Atlas-SNP ZNF597 146434 hgsc.bcm.edu 37 16 3486736 3486736 + Silent SNP G G A rs34461484 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 50.0 24.0 43.0 0.0 0.48 0 G|0.985;A|0.015 0.015 strong . ZNF597 41 . NM_152457 exon4 c.C963T p.D321D TTCAGAGTCCTCG . PASS Atlas-SNP OR2T27 403239 hgsc.bcm.edu 37 1 248813473 248813473 + Missense_Mutation SNP A A C rs78776291 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 193.0 108.0 110.0 0.0 0.559586 0 A|0.941;C|0.059 0.059 strong . OR2T27 52 . NM_001001824 exon1 c.T713G p.V238G GTGGCCACAGCCT . PASS Atlas-SNP AARS2 57505 hgsc.bcm.edu 37 6 44279824 44279824 + Silent SNP C C T rs75506489 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 137.0 53.0 125.0 0.0 0.386861 0 C|0.980;T|0.020 0.020 strong . AARS2 77 . NM_020745 exon2 c.G420A p.G140G TTCACCCCCAAAG . PASS Atlas-SNP DDX58 23586 hgsc.bcm.edu 37 9 32492529 32492529 + Missense_Mutation SNP G G A rs55789327 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 203.0 108.0 208.0 0.0 0.53202 0 G|0.972;A|0.028 0.028 strong . DDX58 82 . NM_014314 exon4 c.C431T p.S144F TTAGTAGAGCAAA . PASS Atlas-SNP RFC1 5981 hgsc.bcm.edu 37 4 39306504 39306504 + Silent SNP C C G rs2066792 bycluster;byfrequency;bysubmitter;by2hit2allele;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 161.0 77.0 143.0 0.0 0.478261 0 C|0.922;G|0.078 0.078 strong . RFC1 114 . NM_001204747 exon15 c.G2043C p.R681R CTTACTCCGGGTG . PASS Atlas-SNP PCDHB14 56122 hgsc.bcm.edu 37 5 140603794 140603794 + Silent SNP C C T rs59600730 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 74.0 25.0 98.0 0.0 0.337838 0 C|0.977;T|0.023 0.023 strong . PCDHB14 132 . NM_018934 exon1 c.C717T p.A239A TAATGCCCCTGAG . PASS Atlas-SNP PLOD2 5352 hgsc.bcm.edu 37 3 145794607 145794607 + Missense_Mutation SNP A A G rs115199093 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 156.0 78.0 154.0 0.0 0.5 0 A|0.998;G|0.002 0.002 strong . PLOD2 81 . NM_182943 exon15 c.T1639C p.Y547H TGTTATAATGGGA . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195508385 195508385 + Missense_Mutation SNP C C G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 352.0 26.0 413.0 0.0 0.0738636 0 . . none MUC4_ENST00000463781,NS,carcinoma,0,1 MUC4 1505 1 NM_018406 exon2 c.G10066C p.G3356R CGTGACCTGTGGA . PASS Atlas-SNP FLG 2312 hgsc.bcm.edu 37 1 152285541 152285541 + Silent SNP T T C rs116417983 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 542.0 253.0 535.0 0.0 0.46679 0 T|0.986;C|0.014 0.014 strong . FLG 900 . NM_002016 exon3 c.A1821G p.Q607Q CGATGATTGTCCC . PASS Atlas-SNP CAPN6 827 hgsc.bcm.edu 37 X 110491865 110491865 + Silent SNP G G A rs17879776 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 141.0 50.0 150.0 0.0 0.35461 0 G|0.991;A|0.009 0.009 strong . CAPN6 120 . NM_014289 exon10 c.C1416T p.T472T GAACATGGTTGGG . PASS Atlas-SNP EIF4G1 1981 hgsc.bcm.edu 37 3 184039304 184039304 + Missense_Mutation SNP A A G rs16858632 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 137.0 64.0 157.0 0.0 0.467153 0 A|0.976;G|0.024 0.024 strong . EIF4G1 151 . NM_001194946 exon11 c.A953G p.Y318C AGCCATATCGCCT . PASS Atlas-SNP CLEC4C 170482 hgsc.bcm.edu 37 12 7890040 7890040 + Missense_Mutation SNP G G T rs77889141 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 54.0 27.0 67.0 0.0 0.5 0 G|0.981;T|0.019 0.019 strong . CLEC4C 44 . NM_130441 exon5 c.C366A p.N122K CCTGGTGTTGATC . PASS Atlas-SNP TDRD5 163589 hgsc.bcm.edu 37 1 179564885 179564885 + Missense_Mutation SNP A A G rs147268063 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 149.0 72.0 113.0 0.0 0.483221 0 A|0.997;G|0.003 0.003 strong . TDRD5 149 . NM_173533 exon4 c.A763G p.M255V ATGAGCATGGAAA . PASS Atlas-SNP TXNDC11 51061 hgsc.bcm.edu 37 16 11773261 11773261 + Silent SNP G G C rs8191350 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 119.0 53.0 101.0 0.0 0.445378 0 G|0.970;C|0.030 0.030 strong . TXNDC11 75 . NM_015914 exon12 c.C2667G p.T889T GTTCTCGGTAAGG . PASS Atlas-SNP DBN1 1627 hgsc.bcm.edu 37 5 176885145 176885145 + Missense_Mutation SNP A A C rs139935466 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 107.0 43.0 117.0 0.0 0.401869 0 A|0.995;C|0.005 0.005 strong . DBN1 122 . NM_080881 exon13 c.T1696G p.S566A GGGCTGAGGGCAG . PASS Atlas-SNP DNAH14 127602 hgsc.bcm.edu 37 1 225373101 225373101 + Missense_Mutation SNP G G T rs6679852 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 119.0 55.0 128.0 0.0 0.462185 0 G|0.994;T|0.006 0.006 strong . DNAH14 300 . NM_001373 exon36 c.G5578T p.V1860F TTATCAGTTGCAG . PASS Atlas-SNP NMT1 4836 hgsc.bcm.edu 37 17 43181223 43181223 + Silent SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 115.0 51.0 95.0 0.0 0.443478 0 . . none . NMT1 31 . NM_021079 exon10 c.C1311T p.D437D GAGCGACGCCCTT . PASS Atlas-SNP ZNF460 10794 hgsc.bcm.edu 37 19 57802782 57802782 + Silent SNP C C T rs80302225 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 63.0 27.0 76.0 0.0 0.428571 0 C|0.994;T|0.006 0.006 strong . ZNF460 59 . NM_006635 exon3 c.C873T p.Y291Y TACCTACCGCTCC . PASS Atlas-SNP PTPN13 5783 hgsc.bcm.edu 37 4 87653594 87653594 + Silent SNP A A G rs201078979 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 77.0 31.0 87.0 0.0 0.402597 0 A|0.999;G|0.001 0.001 strong . PTPN13 203 . NM_006264 exon11 c.A1650G p.P550P TGAACCATTTATA . PASS Atlas-SNP OR4D9 390199 hgsc.bcm.edu 37 11 59282838 59282838 + Silent SNP G G A rs75125922 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 144.0 72.0 102.0 0.0 0.5 0 G|0.966;A|0.034 0.034 strong . OR4D9 47 . NM_001004711 exon1 c.G453A p.G151G GGTGGGGGGCTTT . PASS Atlas-SNP HIST1H4C 8364 hgsc.bcm.edu 37 6 26104382 26104382 + Silent SNP C C T rs2229767 bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 171.0 81.0 97.0 0.0 0.473684 0 C|0.963;T|0.037 0.037 strong . HIST1H4C 14 . NM_003542 exon1 c.C207T p.D69D TCGAGACGCCGTC . PASS Atlas-SNP DNAH9 1770 hgsc.bcm.edu 37 17 11540079 11540079 + Silent SNP C C T rs8065057 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 36.0 77.0 0.0 0.387097 0 C|0.984;T|0.016 0.016 strong . DNAH9 695 . NM_001372 exon9 c.C1764T p.H588H TCAGCACGTCCAG . PASS Atlas-SNP KIAA1967 57805 hgsc.bcm.edu 37 8 22472473 22472473 + Silent SNP G G A rs112997942 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 107.0 52.0 86.0 0.0 0.485981 0 G|0.993;A|0.007 0.007 strong . KIAA1967 72 . NM_021174 exon11 c.G1164A p.A388A CTGTGCGCAGGCC . PASS Atlas-SNP REPIN1 29803 hgsc.bcm.edu 37 7 150068981 150068981 + Silent SNP G G A rs149624173 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 7.0 4.0 7.0 0.0 0.571429 0 G|0.994;A|0.006 0.006 strong . REPIN1 74 . NM_001099695 exon3 c.G822A p.R274R GCCCAGGGGCCGC . PASS Atlas-SNP GPR179 440435 hgsc.bcm.edu 37 17 36482372 36482372 + Silent SNP A A C rs58740367 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 59.0 59.0 72.0 0.0 1 0 A|0.955;C|0.045 0.045 strong . GPR179 170 . NM_001004334 exon11 c.T7080G p.T2360T ATAGACAGTGGGA . PASS Atlas-SNP SLFN13 146857 hgsc.bcm.edu 37 17 33769211 33769211 + Missense_Mutation SNP C C T rs77814846 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 155.0 76.0 158.0 0.0 0.490323 0 C|0.987;T|0.013 0.013 strong . SLFN13 79 . NM_144682 exon5 c.G1293A p.M431I AGGTCGCATTTGC . PASS Atlas-SNP PCDHB15 56121 hgsc.bcm.edu 37 5 140627184 140627184 + Missense_Mutation SNP C C G rs79326925 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 109.0 63.0 117.0 0.0 0.577982 0 C|0.979;G|0.021 0.021 strong . PCDHB15 138 . NM_018935 exon1 c.C2038G p.Q680E CCGGCCCAAGCCC . PASS Atlas-SNP NCLN 56926 hgsc.bcm.edu 37 19 3207398 3207398 + Silent SNP G G A rs76473246 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 94.0 46.0 117.0 0.0 0.489362 0 G|0.967;A|0.033 0.033 strong . NCLN 27 . NM_020170 exon14 c.G1563A p.P521P CAAGCCGGCCGTC . PASS Atlas-SNP SMARCA2 6595 hgsc.bcm.edu 37 9 2039779 2039779 + Silent SNP G G A rs62639301 byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 98.0 51.0 66.0 1.0 0.520408 0.0151515 G|0.889;A|0.111 0.111 strong SMARCA2_ENST00000349721,NS,carcinoma,0,2 SMARCA2 313 2 NM_139045 exon4 c.G669A p.Q223Q GCAACAGCAGCAG . scavenged Atlas-SNP THOP1 7064 hgsc.bcm.edu 37 19 2790508 2790508 + Missense_Mutation SNP C C T rs76198851 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 46.0 27.0 50.0 0.0 0.586957 0 C|0.998;T|0.002 0.002 strong . THOP1 49 . NM_003249 exon2 c.C106T p.R36C GAGGAGCGCACCA . PASS Atlas-SNP ZNF469 84627 hgsc.bcm.edu 37 16 88501999 88501999 + Silent SNP G G A rs116696830 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 80.0 38.0 61.0 0.0 0.475 0 G|0.992;A|0.008 0.008 strong . ZNF469 121 . NM_001127464 exon2 c.G8037A p.A2679A TGCAGCGGAGACT . PASS Atlas-SNP BHLHE41 79365 hgsc.bcm.edu 37 12 26275297 26275297 + Missense_Mutation SNP G G T rs121912617 alternate_allele TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 5.0 4.0 4.0 0.0 0.8 0 . . alt . BHLHE41 20 . NM_030762 exon5 c.C1151A p.P384Q GGGAACGGGGCGG . PASS Atlas-SNP APC2 10297 hgsc.bcm.edu 37 19 1469030 1469030 + Silent SNP A A G rs265278 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 23.0 17.0 10.0 0.0 0.73913 0 A|0.833;G|0.167 0.167 strong . APC2 50 . NM_005883 exon15 c.A5730G p.K1910K GCCCAAAACGCCG . PASS Atlas-SNP FUK 197258 hgsc.bcm.edu 37 16 70508544 70508544 + Missense_Mutation SNP C C T rs17883716 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 96.0 47.0 93.0 0.0 0.489583 0 C|0.995;T|0.005 0.005 strong . FUK 72 . NM_145059 exon17 c.C2102T p.P701L AACTGCCGGGACC . PASS Atlas-SNP MECOM 2122 hgsc.bcm.edu 37 3 168833976 168833976 + Missense_Mutation SNP C C T rs149928659 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 187.0 90.0 240.0 0.0 0.481283 0 C|0.999;T|0.001 0.001 strong . MECOM 216 . NM_004991 exon8 c.G1684A p.E562K ACCTCTCGGGCTG . PASS Atlas-SNP RBM44 375316 hgsc.bcm.edu 37 2 238725833 238725833 + Missense_Mutation SNP A A G rs73086770 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 213.0 85.0 185.0 0.0 0.399061 0 A|0.967;G|0.033 0.033 strong . RBM44 167 . NM_001080504 exon3 c.A274G p.S92G ACAGAGAGTACTC . PASS Atlas-SNP TNFSF15 9966 hgsc.bcm.edu 37 9 117568219 117568219 + Missense_Mutation SNP C C T rs150191342 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 108.0 75.0 104.0 0.0 0.694444 0 C|0.996;T|0.004 0.004 strong . TNFSF15 23 . NM_005118 exon1 c.G74A p.R25K TTGGGCCTGCAGC . PASS Atlas-SNP TSHZ3 57616 hgsc.bcm.edu 37 19 31767717 31767717 + Silent SNP G G A rs61744745 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 167.0 86.0 155.0 0.0 0.51497 0 G|0.961;A|0.039 0.039 strong . TSHZ3 549 . NM_020856 exon2 c.C2982T p.H994H CTCTAGGTGACTG . PASS Atlas-SNP SERPINA5 5104 hgsc.bcm.edu 37 14 95056407 95056407 + Missense_Mutation SNP G G C rs6114 bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 121.0 50.0 141.0 0.0 0.413223 0 G|0.974;C|0.026 0.026 strong . SERPINA5 69 . NM_000624 exon4 c.G649C p.G217R CACAAAGGCACCC . PASS Atlas-SNP ACOT11 26027 hgsc.bcm.edu 37 1 55073630 55073630 + Silent SNP C C T rs78753605 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 157.0 87.0 165.0 0.0 0.55414 0 C|0.984;T|0.016 0.016 strong . ACOT11 105 . NM_147161 exon15 c.C1518T p.I506I TGTCATCGCGCTG . PASS Atlas-SNP CSMD1 64478 hgsc.bcm.edu 37 8 3245054 3245054 + Missense_Mutation SNP C C T rs73657835 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 84.0 42.0 86.0 0.0 0.5 0 C|0.966;T|0.034 0.034 strong CSMD1_ENST00000537824,NS,carcinoma,+1,2 CSMD1 1469 2 NM_033225 exon18 c.G2744A p.R915K TGGTTCCTCTCAC . PASS Atlas-SNP FER1L6 654463 hgsc.bcm.edu 37 8 124987404 124987404 + Missense_Mutation SNP A A G rs77810887 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 288.0 150.0 252.0 0.0 0.520833 0 A|0.988;G|0.012 0.012 strong . FER1L6 268 . NM_001039112 exon8 c.A541G p.N181D TTCTGCAACAAGT . PASS Atlas-SNP TACC2 10579 hgsc.bcm.edu 37 10 123970173 123970173 + Missense_Mutation SNP T T C rs7083331 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 96.0 46.0 93.0 0.0 0.479167 0 T|0.899;C|0.101 0.101 strong . TACC2 271 . NM_206862 exon9 c.T6233C p.I2078T TCCCCATCTCTAA . PASS Atlas-SNP CYP4A22 284541 hgsc.bcm.edu 37 1 47603338 47603338 + Missense_Mutation SNP G G A rs112604161 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 171.0 82.0 110.0 0.0 0.479532 0 G|0.987;A|0.013 0.013 strong . CYP4A22 60 . NM_001010969 exon1 c.G181A p.G61R CTCTTCGGGCACA . PASS Atlas-SNP ELL 8178 hgsc.bcm.edu 37 19 18561473 18561473 + Silent SNP G G A rs34868531 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 106.0 58.0 50.0 0.0 0.54717 0 G|0.980;A|0.020 0.020 strong . ELL 52 . NM_006532 exon8 c.C1279T p.L427L GGGGCAGGCCGAG . PASS Atlas-SNP CNTNAP1 8506 hgsc.bcm.edu 37 17 40841001 40841001 + Missense_Mutation SNP G G C rs35437096 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 109.0 53.0 118.0 1.0 0.486239 0.00847458 G|0.961;C|0.039 0.039 strong CNTNAP1,uveal_tract,malignant_melanoma,-1,1 CNTNAP1 116 1 NM_003632 exon10 c.G1564C p.V522L ACTCTGGTGGAGG . scavenged Atlas-SNP ABLIM1 3983 hgsc.bcm.edu 37 10 116203801 116203801 + Silent SNP A A C rs74158004 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 124.0 57.0 112.0 0.0 0.459677 0 A|0.963;C|0.037 0.037 strong . ABLIM1 131 . NM_002313 exon17 c.T1920G p.S640S GATGGGAGAATCG . PASS Atlas-SNP CTC1 80169 hgsc.bcm.edu 37 17 8135446 8135446 + Silent SNP G G A rs3027235 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 92.0 41.0 53.0 0.0 0.445652 0 G|0.964;A|0.036 0.036 strong . CTC1 75 . NM_025099 exon13 c.C2160T p.T720T TGGGCCGGTGGGA . PASS Atlas-SNP CNPY4 245812 hgsc.bcm.edu 37 7 99722173 99722173 + Missense_Mutation SNP G G A rs60551236 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 96.0 46.0 100.0 0.0 0.479167 0 G|0.979;A|0.021 0.021 strong . CNPY4 18 . NM_152755 exon5 c.G502A p.G168R ATTGTGGGAGACT . PASS Atlas-SNP CTAGE5 4253 hgsc.bcm.edu 37 14 39736693 39736693 + Silent SNP G G T rs34909359 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 73.0 33.0 74.0 0.0 0.452055 0 G|0.979;T|0.021 0.021 strong . CTAGE5 75 . NM_001247989 exon1 c.G30T p.P10P TCAACCGTATTTG . PASS Atlas-SNP CLU 1191 hgsc.bcm.edu 37 8 27457512 27457512 + Missense_Mutation SNP T T G rs9331936 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 81.0 45.0 78.0 0.0 0.555556 0 T|0.922;G|0.078 0.078 strong . CLU 54 . NM_001831 exon7 c.A949C p.N317H AGGGGTTGTTGGT . PASS Atlas-SNP DCHS2 54798 hgsc.bcm.edu 37 4 155219318 155219318 + Missense_Mutation SNP C C G rs28561984 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 206.0 94.0 212.0 0.0 0.456311 0 C|0.867;G|0.027;T|0.106 0.027 strong . DCHS2 594 . NM_017639 exon18 c.G4783C p.E1595Q GCGACTCGGGGGA . PASS Atlas-SNP HLA-C 3107 hgsc.bcm.edu 37 6 31237275 31237275 + Missense_Mutation SNP G G A rs41559915 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 155.0 81.0 157.0 0.0 0.522581 0 G|0.981;A|0.019 0.019 strong HLA-C_ENST00000383329,NS,carcinoma,-1,2 HLA-C 92 2 NM_002117 exon6 c.C1043T p.A348V CACGCAGCCTGAG . PASS Atlas-SNP SLC26A10 65012 hgsc.bcm.edu 37 12 58017665 58017665 + Nonsense_Mutation SNP G G A rs115563091 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 71.0 40.0 70.0 0.0 0.56338 0 G|0.999;A|0.001 0.001 strong . SLC26A10 89 . NM_133489 exon8 c.G1100A p.W367X TGCTGTGGCTGGG . PASS Atlas-SNP KLHL36 79786 hgsc.bcm.edu 37 16 84691256 84691256 + Silent SNP C C T rs12102528 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 59.0 23.0 45.0 0.0 0.38983 0 C|0.984;T|0.016 0.016 strong . KLHL36 51 . NM_024731 exon3 c.C843T p.P281P CCAGCCCGTCATG . PASS Atlas-SNP TMEM8B 51754 hgsc.bcm.edu 37 9 35842480 35842480 + Silent SNP A A G rs7037450 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 105.0 52.0 115.0 0.0 0.495238 0 A|0.962;G|0.038 0.038 strong . TMEM8B 53 . NM_001042590 exon6 c.A45G p.E15E CCCAGAACCGCCA . PASS Atlas-SNP CEP85L 387119 hgsc.bcm.edu 37 6 118887215 118887215 + Missense_Mutation SNP T T A rs9489444 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 202.0 114.0 175.0 0.0 0.564356 0 T|0.964;A|0.036 0.036 strong . CEP85L 26 . NM_001178035 exon4 c.A506T p.D169V CAGTTATCCGGGG . PASS Atlas-SNP MORC1 27136 hgsc.bcm.edu 37 3 108780895 108780895 + Silent SNP T T A rs79817474 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 121.0 68.0 128.0 0.0 0.561983 0 T|0.989;A|0.011 0.011 strong . MORC1 211 . NM_014429 exon11 c.A906T p.I302I TTTCAATATGGAT . PASS Atlas-SNP ND5 0 hgsc.bcm.edu 37 MT 14000 14000 + Missense_Mutation SNP T T A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 8.0 8.0 8.0 0.0 1 0 . . none . . . . ENST00000361567 exon1 c.T1664A p.L555Q TAGACCTAACCTG . PASS Atlas-SNP SLC26A8 116369 hgsc.bcm.edu 37 6 35987425 35987425 + Silent SNP T T C rs61743377 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 205.0 89.0 227.0 0.0 0.434146 0 T|0.986;C|0.014 0.014 strong . SLC26A8 95 . NM_052961 exon2 c.A60G p.S20S TGCGAATGAGTTT . PASS Atlas-SNP OR13F1 138805 hgsc.bcm.edu 37 9 107266813 107266813 + Silent SNP C C T rs61754949 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 168.0 47.0 196.0 0.0 0.279762 0 C|0.987;T|0.013 0.013 strong . OR13F1 75 . NM_001004485 exon1 c.C270T p.N90N GAGAAACACTATT . PASS Atlas-SNP ZNF844 284391 hgsc.bcm.edu 37 19 12186372 12186372 + Missense_Mutation SNP G G A rs56481038 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 110.0 57.0 86.0 0.0 0.518182 0 . . weak . ZNF844 69 . NM_001136501 exon4 c.G437A p.R146H AACAACGTAAGAA . PASS Atlas-SNP PSG8 440533 hgsc.bcm.edu 37 19 43269686 43269686 + Silent SNP C C T rs61393109 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 43.0 20.0 31.0 0.0 0.465116 0 C|0.988;T|0.012 0.012 strong . PSG8 101 . NM_001130168 exon1 c.G48A p.K16K GAGCCCCTTCCAG . PASS Atlas-SNP CDC42EP2 10435 hgsc.bcm.edu 37 11 65088498 65088498 + Silent SNP T T C rs4149835 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 128.0 57.0 133.0 0.0 0.445312 0 T|0.914;C|0.086 0.086 strong . CDC42EP2 13 . NM_006779 exon2 c.T129C p.I43I TCATATTGGCAGT . PASS Atlas-SNP CEACAM4 1089 hgsc.bcm.edu 37 19 42125710 42125710 + Missense_Mutation SNP A A G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 116.0 55.0 103.0 0.0 0.474138 0 . . none CEACAM4,NS,neuroblastoma,+1,1 CEACAM4 42 1 NM_001817 exon7 c.T728C p.V243A TAAGAGACCACAT . PASS Atlas-SNP FAH 2184 hgsc.bcm.edu 37 15 80460421 80460421 + Silent SNP C C T rs116272698 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 220.0 105.0 215.0 0.0 0.477273 0 C|0.990;T|0.010 0.010 strong . FAH 36 . NM_000137 exon6 c.C483T p.G161G CCATGGCCGTGCC . PASS Atlas-SNP FAAH 2166 hgsc.bcm.edu 37 1 46877885 46877885 + Missense_Mutation SNP C C G rs75429705 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 196.0 107.0 207.0 1.0 0.545918 0.00483092 C|0.997;G|0.003 0.003 strong . FAAH 36 . NM_001441 exon13 c.C1427G p.A476G TGCTGGCCCCTGC . PASS Atlas-SNP BCAN 63827 hgsc.bcm.edu 37 1 156621252 156621252 + Silent SNP G G A rs146863260 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 51.0 24.0 35.0 0.0 0.470588 0 G|0.994;A|0.006 0.006 strong . BCAN 174 . NM_198427 exon7 c.G1068A p.S356S AGACTCGGCCCAG . PASS Atlas-SNP CYP8B1 1582 hgsc.bcm.edu 37 3 42916596 42916596 + Missense_Mutation SNP T T C rs35764459 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 98.0 46.0 98.0 0.0 0.469388 0 T|0.977;C|0.023 0.023 strong . CYP8B1 59 . NM_004391 exon1 c.A713G p.K238R AGCATCTTGTGAA . PASS Atlas-SNP JAK2 3717 hgsc.bcm.edu 37 9 5050706 5050706 + Silent SNP C C T rs2230722 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 74.0 32.0 86.0 0.0 0.432432 0 C|0.647;T|0.353 0.353 strong . JAK2 35466 . NM_004972 exon6 c.C489T p.H163H TGTGCACGGATGG . PASS Atlas-SNP SYCP1 6847 hgsc.bcm.edu 37 1 115537343 115537343 + Silent SNP T T C rs17033011 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 108.0 53.0 93.0 0.0 0.490741 0 T|0.954;C|0.046 0.046 strong . SYCP1 149 . NM_003176 exon31 c.T2728C p.L910L GAGACATTGAAAA . PASS Atlas-SNP FAM110A 83541 hgsc.bcm.edu 37 20 825579 825579 + Silent SNP G G A rs8124809 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 157.0 86.0 87.0 0.0 0.547771 0 A|0.020;C|0.000;G|0.979 0.020 strong . FAM110A 18 . NM_207121 exon2 c.G132A p.E44E TGTGGAGCGCCTG . PASS Atlas-SNP ABCC12 94160 hgsc.bcm.edu 37 16 48174766 48174766 + Silent SNP A A G rs16945872 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 103.0 47.0 94.0 0.0 0.456311 0 A|0.955;G|0.045 0.045 strong . ABCC12 190 . NM_033226 exon4 c.T489C p.I163I CAGTCCAATGCCA . PASS Atlas-SNP CCDC18 343099 hgsc.bcm.edu 37 1 93720153 93720153 + Missense_Mutation SNP G G T rs61729705 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 200.0 90.0 217.0 0.0 0.45 0 A|0.000;G|0.947;T|0.053 0.053 strong . CCDC18 93 . NM_206886 exon24 c.G3324T p.R1108S ACAAAGGATGAAA . PASS Atlas-SNP VWA5B1 127731 hgsc.bcm.edu 37 1 20640969 20640969 + Silent SNP G G A rs114916291 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 115.0 68.0 115.0 0.0 0.591304 0 G|0.988;A|0.012 0.012 strong . VWA5B1 44 . NM_001039500 exon4 c.G447A p.S149S CTCCTCGGAGCTC . PASS Atlas-SNP MAPK10 5602 hgsc.bcm.edu 37 4 86950354 86950354 + Silent SNP A A G rs148438622 byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 45.0 103.0 0.0 0.45 0 A|1.000;G|0.000 0.000 strong MAPK10_ENST00000449047,colon,carcinoma,-2,2 MAPK10 106 2 NM_002753 exon13 c.T1248C p.P416P ACCTGAAGGAGAA . PASS Atlas-SNP ACVR1B 91 hgsc.bcm.edu 37 12 52370181 52370181 + Silent SNP G G A rs115556161 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 167.0 85.0 154.0 0.0 0.508982 0 G|0.994;A|0.006 0.006 strong . ACVR1B 167 . NM_020328 exon3 c.G402A p.P134P CGGCCCGGTGTTC . PASS Atlas-SNP RAB4A 5867 hgsc.bcm.edu 37 1 229431613 229431613 + Silent SNP T T C rs114366150 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 96.0 41.0 68.0 0.0 0.427083 0 T|0.998;C|0.002 0.002 strong . RAB4A 29 . NM_004578 exon4 c.T246C p.Y82Y AAGTTATTACCGA . PASS Atlas-SNP CCDC102B 79839 hgsc.bcm.edu 37 18 66678192 66678192 + Missense_Mutation SNP G G C rs9963788 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 104.0 104.0 97.0 0.0 1 0 G|0.928;C|0.072 0.072 strong . CCDC102B 92 . NM_001093729 exon9 c.G1285C p.A429P CAACATGCCTACT . PASS Atlas-SNP ITGA2B 3674 hgsc.bcm.edu 37 17 42457087 42457087 + Silent SNP C C T rs79289329 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 116.0 52.0 107.0 0.0 0.448276 0 C|0.994;T|0.006 0.006 strong . ITGA2B 88 . NM_000419 exon18 c.G1848A p.V616V ATGCAGCACGACA . PASS Atlas-SNP AFF4 27125 hgsc.bcm.edu 37 5 132232148 132232148 + Missense_Mutation SNP C C G rs138811630 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 196.0 89.0 173.0 0.0 0.454082 0 C|0.999;G|0.001 0.001 strong . AFF4 120 . NM_014423 exon11 c.G2174C p.R725T GGTATTCTAGTCA . PASS Atlas-SNP CCDC116 164592 hgsc.bcm.edu 37 22 21991224 21991224 + Silent SNP C C T rs45533832 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 90.0 44.0 87.0 0.0 0.488889 0 C|0.974;T|0.026 0.026 strong . CCDC116 56 . NM_152612 exon5 c.C1707T p.T569T CTGCACCGGCATG . PASS Atlas-SNP MSH2 4436 hgsc.bcm.edu 37 2 47637246 47637246 + Missense_Mutation SNP A A G rs17217772 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 88.0 44.0 103.0 0.0 0.5 0 A|0.965;G|0.035 0.035 strong . MSH2 198 . NM_000251 exon3 c.A380G p.N127S CTGGCAATCTCTC . PASS Atlas-SNP LRRC71 149499 hgsc.bcm.edu 37 1 156902678 156902678 + Missense_Mutation SNP G G A rs11264585 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 115.0 57.0 98.0 0.0 0.495652 0 G|0.981;A|0.019 0.019 strong . LRRC71 33 . NM_144702 exon15 c.G1597A p.A533T GCGTACGCCATAA . PASS Atlas-SNP MERTK 10461 hgsc.bcm.edu 37 2 112740561 112740561 + Silent SNP A A G rs115203717 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 123.0 54.0 151.0 0.0 0.439024 0 A|0.995;G|0.005 0.005 strong . MERTK 112 . NM_006343 exon8 c.A1287G p.A429A GAGTGCAGGGATT . PASS Atlas-SNP COL6A6 131873 hgsc.bcm.edu 37 3 130289687 130289687 + Silent SNP C C T rs59562634 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 75.0 74.0 76.0 0.0 0.986667 0 C|0.945;T|0.055 0.055 strong . COL6A6 497 . NM_001102608 exon6 c.C2427T p.D809D TTTAGACGTTGTG . PASS Atlas-SNP ECSIT 51295 hgsc.bcm.edu 37 19 11618846 11618846 + Missense_Mutation SNP G G C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 143.0 76.0 129.0 0.0 0.531469 0 . . none . ECSIT 32 . NM_001142464 exon5 c.C756G p.D252E TGTTGAGTCTTTG . PASS Atlas-SNP IL1R1 3554 hgsc.bcm.edu 37 2 102781466 102781466 + Silent SNP A A G rs144946641 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 44.0 81.0 0.0 0.473118 0 A|0.998;G|0.002 0.002 strong IL1R1,NS,carcinoma,0,1 IL1R1 52 1 NM_000877 exon3 c.A294G p.V98V CGTGGTAAGGTAA . PASS Atlas-SNP DNAH9 1770 hgsc.bcm.edu 37 17 11592928 11592928 + Silent SNP C C T rs35922062 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 88.0 46.0 75.0 0.0 0.522727 0 C|0.988;T|0.012 0.012 strong . DNAH9 695 . NM_001372 exon20 c.C3789T p.I1263I GCACATCGAGATC . PASS Atlas-SNP ZNF831 128611 hgsc.bcm.edu 37 20 57766397 57766397 + Missense_Mutation SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 47.0 25.0 35.0 0.0 0.531915 0 . . none . ZNF831 287 . NM_178457 exon1 c.C323T p.P108L GGAAGCCGGCGGC . PASS Atlas-SNP RGS3 5998 hgsc.bcm.edu 37 9 116356389 116356389 + Missense_Mutation SNP C C T rs57845277 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 259.0 94.0 273.0 0.0 0.362934 0 C|0.988;T|0.012 0.012 strong . RGS3 251 . NM_144489 exon1 c.C190T p.R64W CAGCCCCGGCTTG . PASS Atlas-SNP CCDC132 55610 hgsc.bcm.edu 37 7 92926102 92926102 + Missense_Mutation SNP A A G rs374290264 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 75.0 32.0 67.0 0.0 0.426667 0 . . weak . CCDC132 136 . NM_017667 exon15 c.A1216G p.I406V TTGTCTATATTCA . PASS Atlas-SNP CCDC130 81576 hgsc.bcm.edu 37 19 13873793 13873793 + Missense_Mutation SNP C C A rs138278370 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 40.0 13.0 52.0 0.0 0.325 0 C|0.994;A|0.006 0.006 strong . CCDC130 25 . NM_030818 exon10 c.C1102A p.Q368K TCCTCCCAGGAGG . PASS Atlas-SNP SLC24A1 9187 hgsc.bcm.edu 37 15 65918277 65918277 + Missense_Mutation SNP C C T rs35398714 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 61.0 33.0 75.0 0.0 0.540984 0 C|0.995;T|0.005 0.005 strong . SLC24A1 58 . NM_004727 exon2 c.C1859T p.A620V CAGTGGCCAAGGT . PASS Atlas-SNP RDH8 50700 hgsc.bcm.edu 37 19 10132358 10132358 + Missense_Mutation SNP G G A rs142753796 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 95.0 54.0 108.0 0.0 0.568421 0 G|0.999;A|0.001 0.001 strong . RDH8 51 . NM_015725 exon6 c.G929A p.R310H GTCCACGCCTCCT . PASS Atlas-SNP BRSK1 84446 hgsc.bcm.edu 37 19 55823421 55823421 + Silent SNP G G C rs113284733 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 60.0 27.0 71.0 0.0 0.45 0 G|0.998;C|0.002 0.002 strong . BRSK1 192 . NM_032430 exon19 c.G2322C p.G774G CAACGGGACCCCT . PASS Atlas-SNP ACTBL2 345651 hgsc.bcm.edu 37 5 56778213 56778213 + Missense_Mutation SNP C C T rs73757391 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 187.0 99.0 169.0 0.0 0.529412 0 C|0.973;T|0.027 0.027 strong . ACTBL2 65 . NM_001017992 exon1 c.G322A p.E108K GTGCCTCGGTGAG . PASS Atlas-SNP CXorf36 79742 hgsc.bcm.edu 37 X 45059838 45059838 + Splice_Site SNP C C A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 127.0 67.0 155.0 0.0 0.527559 0 . . none . CXorf36 53 . NM_176819 exon2 c.233+1G>T . TTCTGACCTTATT . PASS Atlas-SNP SPIRE2 84501 hgsc.bcm.edu 37 16 89927102 89927102 + Missense_Mutation SNP G G A rs28478911 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 41.0 67.0 0.0 0.539474 0 G|1.000;|0.000 . weak SPIRE2,colon,carcinoma,-1,1 SPIRE2 63 1 NM_032451 exon10 c.G1474A p.A492T TGTCCCGCGAGTG . PASS Atlas-SNP C2CD3 26005 hgsc.bcm.edu 37 11 73759251 73759251 + Missense_Mutation SNP T T C rs1632242 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 99.0 42.0 97.0 0.0 0.424242 0 T|0.962;C|0.038 0.038 strong . C2CD3 288 . NM_015531 exon28 c.A5494G p.R1832G CTCACCTCCCAGG . PASS Atlas-SNP KIRREL3 84623 hgsc.bcm.edu 37 11 126294661 126294661 + Silent SNP G G A rs34844660 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 109.0 54.0 115.0 0.0 0.495413 0 G|0.992;A|0.008 0.008 strong . KIRREL3 183 . NM_032531 exon17 c.C2151T p.S717S GCTGTCGCTGAGG . PASS Atlas-SNP DNAH17 8632 hgsc.bcm.edu 37 17 76570924 76570924 + Silent SNP G G A rs61745225 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 205.0 85.0 206.0 0.0 0.414634 0 G|0.948;A|0.052 0.052 strong . DNAH17 347 . NM_173628 exon2 c.C216T p.L72L GGACTTGAGGGAC . PASS Atlas-SNP NFASC 23114 hgsc.bcm.edu 37 1 204939763 204939763 + Silent SNP C C T rs6690894 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 131.0 60.0 101.0 0.0 0.458015 0 C|0.974;T|0.026 0.026 strong . NFASC 396 . NM_015090 exon11 c.C1056T p.D352D GCTGGACGAACCC . PASS Atlas-SNP ZNF212 7988 hgsc.bcm.edu 37 7 148947564 148947564 + Silent SNP C C T rs138413836 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 104.0 59.0 87.0 0.0 0.567308 0 C|0.999;T|0.001 0.001 strong . ZNF212 28 . NM_012256 exon2 c.C339T p.N113N GGAGAACGTGGAG . PASS Atlas-SNP ZNF217 7764 hgsc.bcm.edu 37 20 52192308 52192308 + Missense_Mutation SNP A A C rs61758384 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 40.0 17.0 32.0 0.0 0.425 0 A|0.985;C|0.015 0.015 strong ZNF217,NS,carcinoma,+1,1 ZNF217 227 1 NM_006526 exon3 c.T2995G p.C999G GCACACAAGTGTA . PASS Atlas-SNP RBM12 10137 hgsc.bcm.edu 37 20 34241530 34241530 + Missense_Mutation SNP T T C rs17092928 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 148.0 78.0 149.0 0.0 0.527027 0 T|0.978;C|0.022 0.022 strong . RBM12 93 . NM_001198840 exon2 c.A1715G p.N572S ACAGCATTTTCAT . PASS Atlas-SNP ZNF667 63934 hgsc.bcm.edu 37 19 56952615 56952615 + Silent SNP A A G rs61740673 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 94.0 40.0 98.0 0.0 0.425532 0 A|0.965;G|0.035 0.035 strong ZNF667,NS,NS,-2,1 ZNF667 95 1 NM_022103 exon5 c.T1749C p.Y583Y ACATTCATAGGGT . PASS Atlas-SNP PITRM1 10531 hgsc.bcm.edu 37 10 3187831 3187831 + Missense_Mutation SNP C C T rs34837384 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 81.0 41.0 100.0 0.0 0.506173 0 C|0.992;T|0.008 0.008 strong . PITRM1 109 . NM_001242307 exon21 c.G2417A p.R806Q TTACTCCGACCGA . PASS Atlas-SNP KRTAP5-8 57830 hgsc.bcm.edu 37 11 71249530 71249530 + Silent SNP T T C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 229.0 16.0 157.0 1.0 0.069869 0.00636943 . . none KRTAP5-8,NS,carcinoma,+1,1 KRTAP5-8 28 1 NM_021046 exon1 c.T429C p.C143C CTGCTGTTCCCAG . scavenged Atlas-SNP FAM134B 54463 hgsc.bcm.edu 37 5 16475209 16475209 + Missense_Mutation SNP G G C rs34432513 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 206.0 104.0 196.0 0.0 0.504854 0 G|0.984;C|0.016 0.016 strong . FAM134B 72 . NM_001034850 exon9 c.C1135G p.Q379E CCAACTGTTCCTT . PASS Atlas-SNP CNTN4 152330 hgsc.bcm.edu 37 3 2787338 2787338 + Silent SNP G G A rs116041691 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 78.0 48.0 105.0 0.0 0.615385 0 G|0.996;A|0.004 0.004 strong CNTN4_ENST00000418658,NS,carcinoma,0,1 CNTN4 335 1 NM_175607 exon6 c.G315A p.S105S AAACTCGTTTGGA . PASS Atlas-SNP NUP133 55746 hgsc.bcm.edu 37 1 229636561 229636561 + Missense_Mutation SNP C C T rs75411588 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 77.0 38.0 55.0 0.0 0.493506 0 C|0.972;T|0.028 0.028 strong . NUP133 111 . NM_018230 exon4 c.G455A p.S152N TCGGCACTCCAGT . PASS Atlas-SNP DCP1B 196513 hgsc.bcm.edu 37 12 2102455 2102455 + Silent SNP A A C rs150415068 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 185.0 85.0 146.0 0.0 0.459459 0 A|0.998;C|0.002 0.002 strong DCP1B,rectum,carcinoma,0,6 DCP1B 63 6 NM_152640 exon3 c.T294G p.P98P AAGGAAAGGGTCC . PASS Atlas-SNP APOH 350 hgsc.bcm.edu 37 17 64216797 64216797 + Missense_Mutation SNP G G T rs114459902 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 147.0 57.0 156.0 0.0 0.387755 0 G|0.993;T|0.007 0.007 strong . APOH 45 . NM_000042 exon5 c.C479A p.A160D TTTCCAGCTGATG . PASS Atlas-SNP OR10T2 128360 hgsc.bcm.edu 37 1 158369210 158369210 + Missense_Mutation SNP A A G rs6660222 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 111.0 53.0 96.0 0.0 0.477477 0 A|0.976;G|0.024 0.024 strong . OR10T2 76 . NM_001004475 exon1 c.T47C p.V16A AAACCCACCAGGA . PASS Atlas-SNP LRRFIP2 9209 hgsc.bcm.edu 37 3 37144480 37144480 + Missense_Mutation SNP G G A rs143314448 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 81.0 39.0 102.0 0.0 0.481481 0 G|0.999;A|0.001 0.001 strong . LRRFIP2 71 . NM_006309 exon16 c.C808T p.R270C TGGAGCGACTGAA . PASS Atlas-SNP NOD1 10392 hgsc.bcm.edu 37 7 30491081 30491081 + Missense_Mutation SNP G G A rs151170709 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 63.0 34.0 53.0 0.0 0.539683 0 G|0.998;A|0.002 0.002 strong . NOD1 79 . NM_006092 exon6 c.C1952T p.T651M ATGAACGTGGGCA . PASS Atlas-SNP SLC44A2 57153 hgsc.bcm.edu 37 19 10713212 10713212 + Silent SNP G G A rs115559926 byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 21.0 13.0 21.0 0.0 0.619048 0 G|0.986;A|0.014 0.014 strong . SLC44A2 56 . NM_001145056 exon1 c.G6A p.E2E CATGGAGGACGAG . PASS Atlas-SNP RARS2 57038 hgsc.bcm.edu 37 6 88279282 88279282 + Silent SNP T T C rs7748563 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 157.0 71.0 137.0 0.0 0.452229 0 T|0.987;C|0.013 0.013 strong . RARS2 61 . NM_020320 exon2 c.A63G p.P21P GTTTTCTGGTGGA . PASS Atlas-SNP ALG3 10195 hgsc.bcm.edu 37 3 183963000 183963000 + Silent SNP A A G rs2233464 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 136.0 67.0 128.0 0.0 0.492647 0 A|0.962;G|0.038 0.038 strong . ALG3 48 . NM_005787 exon4 c.T591C p.G197G GCAGCAACCCCAG . PASS Atlas-SNP CD163 9332 hgsc.bcm.edu 37 12 7636027 7636027 + Silent SNP A A G rs78817356 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 123.0 58.0 131.0 0.0 0.471545 0 A|0.978;G|0.022 0.022 strong . CD163 221 . NM_203416 exon12 c.T3024C p.C1008C GGCAGGACAATCC . PASS Atlas-SNP ADAMTSL5 339366 hgsc.bcm.edu 37 19 1506799 1506799 + Silent SNP C C T rs79538691 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 50.0 25.0 36.0 0.0 0.5 0 C|0.982;T|0.018 0.018 strong . ADAMTSL5 24 . NM_213604 exon10 c.G981A p.V327V AGGCTCCACCCCC . PASS Atlas-SNP C1QL2 165257 hgsc.bcm.edu 37 2 119915750 119915750 + Silent SNP G G T rs113019193 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 7.0 4.0 7.0 0.0 0.571429 0 G|0.981;T|0.019 0.019 strong . C1QL2 25 . NM_182528 exon1 c.C96A p.I32I GTCGCAGATCATG . PASS Atlas-SNP ISYNA1 51477 hgsc.bcm.edu 37 19 18547209 18547209 + Silent SNP G G A rs61743954 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 36.0 12.0 44.0 0.0 0.333333 0 G|0.982;A|0.018 0.018 strong . ISYNA1 31 . NM_016368 exon6 c.C690T p.N230N CTCCGTGTTCGCC . PASS Atlas-SNP MYH4 4622 hgsc.bcm.edu 37 17 10354747 10354747 + Missense_Mutation SNP C C T rs200121484 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 202.0 99.0 198.0 0.0 0.490099 0 . . weak MYH4,caecum,carcinoma,0,1 MYH4 349 1 NM_017533 exon28 c.G3761A p.R1254H AGGGTGCGGCACA . PASS Atlas-SNP POU5F1B 5462 hgsc.bcm.edu 37 8 128428721 128428721 + Silent SNP C C T rs192151034 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 159.0 86.0 124.0 0.0 0.540881 0 C|0.985;T|0.015 0.015 strong . POU5F1B 32 . NM_001159542 exon1 c.C610T p.L204L CCCTTGCTGCAGA . PASS Atlas-SNP PRAM1 84106 hgsc.bcm.edu 37 19 8564288 8564288 + Missense_Mutation SNP C C T rs58466313 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 106.0 105.0 100.0 0.0 0.990566 0 C|0.891;T|0.109 0.109 strong . PRAM1 53 . NM_032152 exon2 c.G404A p.G135E GTGGCCCCCAGCT . PASS Atlas-SNP MUC17 140453 hgsc.bcm.edu 37 7 100680336 100680336 + Missense_Mutation SNP C C T rs74687161 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 120.0 59.0 130.0 0.0 0.491667 0 C|0.958;T|0.042 0.042 strong . MUC17 804 . NM_001040105 exon3 c.C5639T p.A1880V CAGTGGCCAGTTC . PASS Atlas-SNP SIDT1 54847 hgsc.bcm.edu 37 3 113323785 113323785 + Missense_Mutation SNP G G T rs61732220 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 78.0 41.0 75.0 0.0 0.525641 0 G|0.981;T|0.019 0.019 strong . SIDT1 99 . NM_017699 exon14 c.G1366T p.A456S TTTTACGCGCTGC . PASS Atlas-SNP LMBR1L 55716 hgsc.bcm.edu 37 12 49498635 49498635 + Silent SNP G G T rs141166526 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 67.0 33.0 76.0 0.0 0.492537 0 G|0.996;T|0.004 0.004 strong LMBR1L_ENST00000267102,colon,carcinoma,-1,2 LMBR1L 61 2 NM_018113 exon4 c.C225A p.A75A ACCCAGGGCAATT . PASS Atlas-SNP OR4C16 219428 hgsc.bcm.edu 37 11 55340057 55340057 + Missense_Mutation SNP G G A rs144962866 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 159.0 85.0 144.0 0.0 0.534591 0 G|0.994;A|0.006 0.006 strong . OR4C16 104 . NM_001004701 exon1 c.G454A p.V152M TCCTGTGTGCATT . PASS Atlas-SNP RANBP1 5902 hgsc.bcm.edu 37 22 20112868 20112868 + Silent SNP C C T rs111311060 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 180.0 91.0 166.0 0.0 0.505556 0 C|0.997;T|0.003 0.003 strong . RANBP1 19 . NM_002882 exon4 c.C348T p.S116S AGGTAGCGACCGT . PASS Atlas-SNP PCNXL3 399909 hgsc.bcm.edu 37 11 65403666 65403666 + Silent SNP C C T rs61732727 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 151.0 78.0 138.0 0.0 0.516556 0 C|0.974;T|0.026 0.026 strong . PCNXL3 140 . NM_032223 exon33 c.C5481T p.A1827A TGGCGCCGGCTGC . PASS Atlas-SNP PCED1B 91523 hgsc.bcm.edu 37 12 47629179 47629179 + Silent SNP G G T rs79990001 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 45.0 25.0 36.0 0.0 0.555556 0 G|0.974;T|0.026 0.026 strong FAM113B,rectum,carcinoma,+1,1 . . 1 NM_138371 exon2 c.G333T p.S111S GCAGTCGGGCGAG . PASS Atlas-SNP MRPL15 29088 hgsc.bcm.edu 37 8 55047893 55047893 + Missense_Mutation SNP G G A rs200980911 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 222.0 106.0 237.0 0.0 0.477477 0 G|0.997;A|0.003 0.003 strong . MRPL15 26 . NM_014175 exon1 c.G50A p.R17Q TACTCCGGGGCCT . PASS Atlas-SNP PWP2 5822 hgsc.bcm.edu 37 21 45538685 45538685 + Missense_Mutation SNP C C T rs150440839 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 188.0 95.0 176.0 0.0 0.505319 0 C|0.996;T|0.004 0.004 strong . PWP2 64 . NM_005049 exon9 c.C1022T p.S341L ATAGCTCGGGGGA . PASS Atlas-SNP ABCB5 340273 hgsc.bcm.edu 37 7 20725366 20725366 + Silent SNP T T G rs115722120 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 185.0 85.0 181.0 0.0 0.459459 0 T|0.995;G|0.005 0.005 strong . ABCB5 357 . NM_001163941 exon16 c.T1917G p.T639T TTCTACTGAAAGA . PASS Atlas-SNP FREM1 158326 hgsc.bcm.edu 37 9 14863863 14863863 + Silent SNP A A G rs61740262 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 121.0 65.0 107.0 0.0 0.53719 0 A|0.975;G|0.025 0.025 strong . FREM1 261 . NM_144966 exon4 c.T273C p.Y91Y GTGAACATACTTG . PASS Atlas-SNP EIF3M 10480 hgsc.bcm.edu 37 11 32610617 32610617 + Missense_Mutation SNP G G T rs140562244 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 154.0 21.0 119.0 0.0 0.136364 0 G|0.998;T|0.002 0.002 strong . EIF3M 37 . NM_006360 exon4 c.G374T p.C125F TGTATTGCAGCCT . PASS Atlas-SNP FES 2242 hgsc.bcm.edu 37 15 91436965 91436965 + Silent SNP C C T rs2227989 bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 70.0 70.0 104.0 1.0 1 0.00961538 C|0.910;T|0.090 0.090 strong . FES 102 . NM_002005 exon17 c.C2127T p.A709A GGAAGCCGATGGG . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195509605 195509605 + Missense_Mutation SNP T T C rs78644746 byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 204.0 29.0 292.0 2.0 0.142157 0.00684932 T|0.625;C|0.375 0.375 strong MUC4_ENST00000463781,NS,carcinoma,-1,1 MUC4 1505 1 NM_018406 exon2 c.A8846G p.D2949G GAAGTGTCGGTGA . scavenged Atlas-SNP COL21A1 81578 hgsc.bcm.edu 37 6 55925698 55925698 + Missense_Mutation SNP A A C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 92.0 23.0 96.0 0.0 0.25 0 . . none . COL21A1 201 . NM_030820 exon26 c.T2343G p.D781E CTTCCCATCCAAA . PASS Atlas-SNP ANGPTL1 9068 hgsc.bcm.edu 37 1 178834231 178834231 + Silent SNP T T C rs6689778 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 128.0 48.0 110.0 0.0 0.375 0 T|0.939;C|0.061 0.061 strong . ANGPTL1 41 . NM_004673 exon3 c.A681G p.Q227Q ATACTGTTGGCTG . PASS Atlas-SNP DENND2A 27147 hgsc.bcm.edu 37 7 140225578 140225578 + Silent SNP G G A rs61737086 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 111.0 60.0 92.0 0.0 0.540541 0 G|0.968;A|0.032 0.032 strong . DENND2A 132 . NM_015689 exon14 c.C2520T p.D840D GACGAGGTCAACC . PASS Atlas-SNP ZNF679 168417 hgsc.bcm.edu 37 7 63727210 63727210 + Missense_Mutation SNP G G A rs142919190 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 34.0 20.0 24.0 0.0 0.588235 0 G|0.997;A|0.003 0.003 strong ZNF679,NS,carcinoma,0,1 ZNF679 80 1 NM_153363 exon5 c.G1199A p.S400N ATAAGAGTATGCA . PASS Atlas-SNP CDYL 9425 hgsc.bcm.edu 37 6 4892381 4892381 + Silent SNP C C T rs734783 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 91.0 47.0 54.0 0.0 0.516484 0 C|0.956;T|0.044 0.044 strong . CDYL 74 . NM_004824 exon2 c.C459T p.T153T CAGGACCGCAGTG . PASS Atlas-SNP PCCA 5095 hgsc.bcm.edu 37 13 100992428 100992428 + Missense_Mutation SNP A A T rs112237881 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 94.0 43.0 88.0 0.0 0.457447 0 A|0.997;T|0.003 0.003 strong . PCCA 59 . NM_001178004 exon18 c.A1558T p.S520C ACCAAGAGTGAGA . PASS Atlas-SNP FKBP14 55033 hgsc.bcm.edu 37 7 30054492 30054492 + Silent SNP C C T rs142474407 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 66.0 42.0 63.0 0.0 0.636364 0 C|0.997;T|0.003 0.003 strong . FKBP14 18 . NM_017946 exon4 c.G495A p.K165K CTCCTTCTTTAAA . PASS Atlas-SNP ZNF765 91661 hgsc.bcm.edu 37 19 53911041 53911041 + Missense_Mutation SNP A A G rs116731689 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 264.0 129.0 209.0 0.0 0.488636 0 A|0.975;G|0.025 0.025 strong . ZNF765 61 . NM_001040185 exon4 c.A233G p.E78G GACATGAAAGTCA . PASS Atlas-SNP UNC45A 55898 hgsc.bcm.edu 37 15 91485730 91485730 + Missense_Mutation SNP C C G rs115978927 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 85.0 38.0 100.0 0.0 0.447059 0 C|0.991;G|0.009 0.009 strong . UNC45A 57 . NM_018671 exon7 c.C751G p.Q251E GAAAGCCAGGCTG . PASS Atlas-SNP SLC6A3 6531 hgsc.bcm.edu 37 5 1409226 1409226 + Silent SNP G G C rs8179035 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 63.0 32.0 44.0 0.0 0.507937 0 G|0.995;C|0.005 0.005 strong SLC6A3,NS,carcinoma,-1,1 SLC6A3 102 1 NM_001044 exon11 c.C1413G p.V471V CGTGAAGACGTAG . PASS Atlas-SNP POLRMT 5442 hgsc.bcm.edu 37 19 622304 622304 + Missense_Mutation SNP G G A rs41545023 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 42.0 23.0 34.0 0.0 0.547619 0 . . weak . POLRMT 91 . NM_005035 exon9 c.C1696T p.P566S GCCAGGGCTGCTC . PASS Atlas-SNP FREM1 158326 hgsc.bcm.edu 37 9 14857744 14857744 + Missense_Mutation SNP A A C rs145369669 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 84.0 43.0 59.0 0.0 0.511905 0 A|0.997;C|0.003 0.003 strong . FREM1 261 . NM_144966 exon6 c.T635G p.L212R GCTCTCAGTTCTA . PASS Atlas-SNP FAM109B 150368 hgsc.bcm.edu 37 22 42473586 42473586 + Missense_Mutation SNP C C T rs61736039 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 129.0 60.0 100.0 0.0 0.465116 0 C|0.975;T|0.025 0.025 strong . FAM109B 22 . NM_001002034 exon3 c.C289T p.R97C GGAGTGCGCCCAC . PASS Atlas-SNP WDFY4 57705 hgsc.bcm.edu 37 10 50165258 50165258 + Missense_Mutation SNP G G A rs61733228 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 79.0 44.0 105.0 0.0 0.556962 0 G|0.988;A|0.012 0.012 strong . WDFY4 205 . NM_020945 exon52 c.G8062A p.V2688I AGTGACGTCAGGG . PASS Atlas-SNP FLT4 2324 hgsc.bcm.edu 37 5 180058720 180058720 + Silent SNP G G A rs150736691 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 51.0 30.0 45.0 0.0 0.588235 0 G|0.999;A|0.001 0.001 strong . FLT4 356 . NM_182925 exon2 c.C117T p.H39H GATGACGTGTGAC . PASS Atlas-SNP SCAF1 58506 hgsc.bcm.edu 37 19 50156762 50156762 + Missense_Mutation SNP A A T rs201628577 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 27.0 12.0 33.0 0.0 0.444444 0 . . weak . SCAF1 78 . NM_021228 exon7 c.A3116T p.E1039V AGGAGGAGCAGCA . PASS Atlas-SNP PTCD3 55037 hgsc.bcm.edu 37 2 86358214 86358214 + Missense_Mutation SNP G G C rs146203968 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 142.0 65.0 154.0 0.0 0.457746 0 G|1.000;C|0.000 0.000 weak . PTCD3 51 . NM_017952 exon16 c.G1251C p.Q417H TTTTCAGTCAGCC . PASS Atlas-SNP BZRAP1 9256 hgsc.bcm.edu 37 17 56388356 56388356 + Silent SNP C C T rs61745692 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 161.0 86.0 163.0 0.0 0.534162 0 C|0.968;T|0.032 0.032 strong BZRAP1_ENST00000355701,caecum,carcinoma,0,2 BZRAP1 287 2 NM_004758 exon19 c.G3300A p.A1100A AAGGGGCGCTCTG . PASS Atlas-SNP SRGAP3 9901 hgsc.bcm.edu 37 3 9034605 9034605 + Missense_Mutation SNP C C G rs150617309 bycluster;byfrequency;alternate_allele TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 69.0 36.0 70.0 0.0 0.521739 0 C|1.000;G|0.000 0.000 alt . SRGAP3 146 . NM_014850 exon20 c.G2543C p.G848A ACCCCCCCAAAGC . PASS Atlas-SNP ZNF781 163115 hgsc.bcm.edu 37 19 38160255 38160255 + Silent SNP A A C rs73932934 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 77.0 37.0 93.0 0.0 0.480519 0 A|0.967;C|0.033 0.033 strong . ZNF781 66 . NM_152605 exon4 c.T795G p.L265L TGTTAAAAGCTCT . PASS Atlas-SNP CNTNAP2 26047 hgsc.bcm.edu 37 7 146829390 146829390 + Silent SNP C C T rs78543192 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 116.0 51.0 110.0 0.0 0.439655 0 C|0.995;T|0.005 0.005 strong CNTNAP2,colon,carcinoma,0,2 CNTNAP2 392 2 NM_014141 exon8 c.C1137T p.N379N TTTCAACGCTACA . PASS Atlas-SNP CLCA4 22802 hgsc.bcm.edu 37 1 87043733 87043733 + Silent SNP C C T rs2231601 bycluster;byfrequency;bysubmitter;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 91.0 38.0 125.0 0.0 0.417582 0 C|0.976;T|0.024 0.024 strong . CLCA4 131 . NM_012128 exon12 c.C2100T p.Y700Y CGCGTACATACCA . PASS Atlas-SNP SDF2 6388 hgsc.bcm.edu 37 17 26982341 26982341 + Silent SNP A A G rs35579310 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 137.0 58.0 119.0 0.0 0.423358 0 A|0.991;G|0.009 0.009 strong . SDF2 17 . NM_006923 exon2 c.T312C p.H104H GTGACTATGGAGG . PASS Atlas-SNP FGFR3 2261 hgsc.bcm.edu 37 4 1803251 1803251 + Silent SNP T T C rs2305181 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 36.0 15.0 29.0 0.0 0.416667 0 T|0.879;C|0.121 0.121 strong . FGFR3 3320 . NM_001163213 exon5 c.T603C p.I201I CCGCATTGGAGGC . PASS Atlas-SNP HPGD 3248 hgsc.bcm.edu 37 4 175414444 175414444 + Missense_Mutation SNP T T G rs200207595 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 121.0 53.0 135.0 0.0 0.438017 0 . . weak . HPGD 19 . NM_000860 exon6 c.A520C p.S174R CACCACTGTTCAT . PASS Atlas-SNP RAI1 10743 hgsc.bcm.edu 37 17 17696526 17696526 + Silent SNP G G A rs61999281 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 89.0 40.0 69.0 0.0 0.449438 0 G|0.980;A|0.020 0.020 strong . RAI1 121 . NM_030665 exon3 c.G264A p.Q88Q CACACAGCAAGGC . PASS Atlas-SNP FKBPL 63943 hgsc.bcm.edu 37 6 32097089 32097089 + Missense_Mutation SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 94.0 51.0 103.0 0.0 0.542553 0 . . none . FKBPL 25 . NM_022110 exon2 c.G469A p.G157R GCTCCCCCCAAGT . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195511236 195511236 + Missense_Mutation SNP G G T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 235.0 19.0 637.0 0.0 0.0808511 0 . . none MUC4_ENST00000463781,NS,carcinoma,-2,3 MUC4 1505 3 NM_018406 exon2 c.C7215A p.D2405E GGAAGTGTCGGTG . PASS Atlas-SNP ZFP82 284406 hgsc.bcm.edu 37 19 36884651 36884651 + Silent SNP C C A rs114627398 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 176.0 90.0 168.0 0.0 0.511364 0 C|0.989;A|0.011 0.011 strong . ZFP82 71 . NM_133466 exon5 c.G591T p.P197P TTCATACGGTTTT . PASS Atlas-SNP TAB2 23118 hgsc.bcm.edu 37 6 149699333 149699333 + Silent SNP A A G rs13215304 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 141.0 70.0 132.0 1.0 0.496454 0.00757576 A|0.977;G|0.023 0.023 strong TAB2,NS,carcinoma,+2,1 TAB2 55 1 NM_015093 exon5 c.A282G p.G94G AGAAGGAAGTAGG . scavenged Atlas-SNP ECT2 1894 hgsc.bcm.edu 37 3 172480580 172480580 + Missense_Mutation SNP A A G rs138074177 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 144.0 74.0 163.0 0.0 0.513889 0 A|0.999;G|0.001 0.001 strong . ECT2 79 . NM_001258315 exon10 c.A989G p.Y330C AACTTTATGTTGT . PASS Atlas-SNP DOCK4 9732 hgsc.bcm.edu 37 7 111400275 111400275 + Missense_Mutation SNP T T C rs374962931 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 139.0 63.0 128.0 0.0 0.453237 0 . . weak . DOCK4 365 . NM_014705 exon39 c.A4097G p.N1366S GGCTGGTTGGCGT . PASS Atlas-SNP MYO18B 84700 hgsc.bcm.edu 37 22 26423124 26423124 + Missense_Mutation SNP G G C rs6004901 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 88.0 39.0 86.0 0.0 0.443182 0 G|0.912;C|0.088 0.088 strong . MYO18B 322 . NM_032608 exon43 c.G7184C p.G2395A ATGCGGGCTGTCC . PASS Atlas-SNP LRTOMT 220074 hgsc.bcm.edu 37 11 71817250 71817250 + Missense_Mutation SNP G G A rs181092713 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 15.0 6.0 13.0 0.0 0.4 0 G|0.998;A|0.002 0.002 strong . LRTOMT 20 . NM_001145309 exon7 c.G352A p.V118I GGGCCTGTCAAAG . PASS Atlas-SNP DNAH9 1770 hgsc.bcm.edu 37 17 11687721 11687721 + Silent SNP G G A rs16945337 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 192.0 91.0 200.0 0.0 0.473958 0 G|0.956;A|0.044 0.044 strong DNAH9,NS,carcinoma,+1,1 DNAH9 695 1 NM_001372 exon41 c.G7926A p.A2642A CCCGGCGTCCCTG . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195515113 195515113 + Missense_Mutation SNP A A G rs71321849 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 335.0 34.0 169.0 0.0 0.101493 0 A|0.500;G|0.500 0.500 strong . MUC4 1505 . NM_018406 exon2 c.T3338C p.V1113A GTGGATACTGAGG . PASS Atlas-SNP PDK2 5164 hgsc.bcm.edu 37 17 48174794 48174794 + Silent SNP C C T rs11546968 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 56.0 33.0 47.0 0.0 0.589286 0 C|0.997;T|0.003 0.003 strong . PDK2 41 . NM_002611 exon2 c.C126T p.S42S ATCCAGCAATGCC . PASS Atlas-SNP MED12 9968 hgsc.bcm.edu 37 X 70339715 70339715 + Silent SNP A A G rs201566660 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 152.0 68.0 121.0 0.0 0.447368 0 A|0.999;G|0.001 0.001 strong . MED12 984 . NM_005120 exon3 c.A384G p.Q128Q CACGCAACTAGCC . PASS Atlas-SNP PRKAR1B 5575 hgsc.bcm.edu 37 7 720274 720274 + Silent SNP A A G rs200458521 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 35.0 14.0 52.0 0.0 0.4 0 A|0.998;G|0.002 0.002 strong . PRKAR1B 32 . NM_001164760 exon3 c.T267C p.P89P CACCACAGGGTTC . PASS Atlas-SNP SERPINB12 89777 hgsc.bcm.edu 37 18 61234144 61234144 + Missense_Mutation SNP G G A rs56812375 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 72.0 33.0 73.0 0.0 0.458333 0 G|0.972;A|0.028 0.028 strong SERPINB12,colon,carcinoma,0,1 SERPINB12 55 1 NM_080474 exon7 c.G1118A p.R373Q CACTACGATCTTG . PASS Atlas-SNP OR1J1 347168 hgsc.bcm.edu 37 9 125239449 125239449 + Missense_Mutation SNP G G A rs192344372 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 137.0 92.0 125.0 0.0 0.671533 0 G|0.999;A|0.001 0.001 strong OR1J1,colon,carcinoma,0,1 OR1J1 46 1 NM_001004451 exon1 c.C757T p.R253W TTGTCCGATAATA . PASS Atlas-SNP PGPEP1L 145814 hgsc.bcm.edu 37 15 99512877 99512877 + Missense_Mutation SNP C C T rs78254881 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 74.0 39.0 71.0 0.0 0.527027 0 C|0.986;T|0.014 0.014 strong . PGPEP1L 26 . NM_001102612 exon4 c.G148A p.V50I GCACGACGAGCTG . PASS Atlas-SNP CSF3R 1441 hgsc.bcm.edu 37 1 36933493 36933493 + Silent SNP G G A rs3917998 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 142.0 69.0 131.0 0.0 0.485915 0 G|0.991;A|0.009 0.009 strong . CSF3R 157 . NM_156039 exon14 c.C1794T p.I598I GAGGTGGATGTGA . PASS Atlas-SNP ABCC2 1244 hgsc.bcm.edu 37 10 101604107 101604107 + Missense_Mutation SNP C C T rs17216317 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 62.0 33.0 62.0 0.0 0.532258 0 C|0.988;T|0.012 0.012 strong . ABCC2 160 . NM_000392 exon28 c.C3872T p.P1291L GGCCTCCGCCAGA . PASS Atlas-SNP CDT1 81620 hgsc.bcm.edu 37 16 88874545 88874545 + Silent SNP G G T rs3218720 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 121.0 118.0 131.0 0.0 0.975207 0 G|0.953;T|0.047 0.047 strong . CDT1 30 . NM_030928 exon10 c.G1500T p.L500L CCTGCTGCTCCTC . PASS Atlas-SNP TMC3 342125 hgsc.bcm.edu 37 15 81641872 81641872 + Missense_Mutation SNP G G T rs61740148 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 211.0 99.0 218.0 0.0 0.469194 0 G|0.990;T|0.010 0.010 strong . TMC3 112 . NM_001080532 exon11 c.C1120A p.P374T CTGATGGTGCTAT . PASS Atlas-SNP RELN 5649 hgsc.bcm.edu 37 7 103251218 103251218 + Missense_Mutation SNP T T C rs3025962 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 75.0 34.0 73.0 0.0 0.453333 0 T|0.978;C|0.022 0.022 strong . RELN 593 . NM_173054 exon22 c.A2932G p.T978A CTGATGTAAATTC . PASS Atlas-SNP PBOV1 59351 hgsc.bcm.edu 37 6 138539372 138539372 + Missense_Mutation SNP C C T rs73774688 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 160.0 75.0 178.0 0.0 0.46875 0 C|0.991;T|0.009 0.009 strong PBOV1_ENST00000527246,NS,carcinoma,-1,2 PBOV1 12 2 NM_021635 exon1 c.G161A p.R54Q TTTTTTCGAAATA . PASS Atlas-SNP CAST 831 hgsc.bcm.edu 37 5 96082128 96082128 + Missense_Mutation SNP C C T rs78054235 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 225.0 112.0 199.0 0.0 0.497778 0 C|0.988;T|0.012 0.012 strong . CAST 58 . NM_001042440 exon15 c.C1160T p.T387M CAGCCACGGTAAA . PASS Atlas-SNP C16orf82 162083 hgsc.bcm.edu 37 16 27078462 27078462 + Missense_Mutation SNP T T C rs114324679 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 98.0 48.0 76.0 0.0 0.489796 0 T|0.984;C|0.016 0.016 strong . . . . NM_001145545 exon1 c.T146C p.V49A CAGGAGTGGCTCA . PASS Atlas-SNP FNDC7 163479 hgsc.bcm.edu 37 1 109273351 109273351 + Missense_Mutation SNP C C A rs76462144 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 153.0 77.0 176.0 0.0 0.503268 0 A|0.027;C|0.973;T|0.000 0.027 strong FNDC7_ENST00000370017,NS,carcinoma,0,2 FNDC7 113 2 NM_001144937 exon9 c.C1680A p.N560K AATCAACGTGAGC . PASS Atlas-SNP FLG2 388698 hgsc.bcm.edu 37 1 152324397 152324397 + Silent SNP G G A rs79983774 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 426.0 211.0 383.0 0.0 0.495305 0 G|0.940;A|0.060 0.060 strong . FLG2 431 . NM_001014342 exon3 c.C5865T p.H1955H CTCACTGTGGCCA . PASS Atlas-SNP NBPF3 84224 hgsc.bcm.edu 37 1 21795287 21795287 + Silent SNP G G A rs10157037 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 191.0 95.0 195.0 0.0 0.497382 0 G|0.953;A|0.047 0.047 strong . NBPF3 55 . NM_001256416 exon3 c.A240A p.K80K GAAATCGCGCCCC . PASS Atlas-SNP CEACAM8 1088 hgsc.bcm.edu 37 19 43093718 43093718 + Silent SNP C C T rs10413332 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 291.0 123.0 243.0 0.0 0.42268 0 C|0.938;T|0.062 0.062 strong . CEACAM8 44 . NM_001816 exon3 c.G594A p.R198R GAGGGTCCTGTTG . PASS Atlas-SNP HMHA1 23526 hgsc.bcm.edu 37 19 1085690 1085690 + Silent SNP G G A rs149960692 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 119.0 63.0 129.0 0.0 0.529412 0 G|0.993;A|0.007 0.007 strong . HMHA1 78 . NM_001258328 exon23 c.G3144A p.S1048S GGACTCGGACCTA . PASS Atlas-SNP ITGAL 3683 hgsc.bcm.edu 37 16 30495496 30495496 + Silent SNP C C T rs7191097 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 61.0 61.0 63.0 0.0 1 0 C|0.900;T|0.100 0.100 strong . ITGAL 149 . NM_002209 exon9 c.C918T p.P306P AAAACCCGCGAGC . PASS Atlas-SNP ZNF492 57615 hgsc.bcm.edu 37 19 22847917 22847917 + Silent SNP T T C rs4100176 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 26.0 23.0 310.0 1.0 0.884615 0.00322581 T|0.500;C|0.500 0.500 weak ZNF492_ENST00000456783,NS,carcinoma,+1,1 ZNF492 129 1 NM_020855 exon4 c.T1446C p.C482C AGAATGTGGCAAA . scavenged Atlas-SNP WNT3A 89780 hgsc.bcm.edu 37 1 228238443 228238443 + Missense_Mutation SNP G G A rs61743220 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 167.0 79.0 189.0 0.0 0.473054 0 G|0.992;A|0.008 0.008 strong . WNT3A 40 . NM_033131 exon3 c.G400A p.A134T ACGGCCGCCATCT . PASS Atlas-SNP LCN15 389812 hgsc.bcm.edu 37 9 139657874 139657874 + Missense_Mutation SNP G G C rs11145871 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 37.0 21.0 37.0 0.0 0.567568 0 G|0.994;C|0.006 0.006 strong . LCN15 11 . NM_203347 exon4 c.C353G p.S118C GCGAAGGAGCTGT . PASS Atlas-SNP SCN1A 6323 hgsc.bcm.edu 37 2 166900425 166900425 + Silent SNP C C T rs145035963 byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 195.0 111.0 213.0 0.0 0.569231 0 C|1.000;T|0.000 0.000 strong . SCN1A 641 . NM_001165964 exon11 c.G1797A p.E599E GTTATCCTCAAAG . PASS Atlas-SNP NEIL2 252969 hgsc.bcm.edu 37 8 11640853 11640853 + Silent SNP C C T rs112549959 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 207.0 97.0 180.0 0.0 0.468599 0 C|0.996;T|0.004 0.004 strong . NEIL2 14 . NM_001135746 exon4 c.C633T p.G211G TCTAGGCCAGGCT . PASS Atlas-SNP TSPYL5 85453 hgsc.bcm.edu 37 8 98289922 98289922 + Missense_Mutation SNP C C T rs200123082 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 32.0 18.0 29.0 0.0 0.5625 0 C|0.994;T|0.006 0.006 strong . TSPYL5 48 . NM_033512 exon1 c.G151A p.A51T CCTGTGCCGCCTG . PASS Atlas-SNP APOC2 344 hgsc.bcm.edu 37 19 45452429 45452429 + Missense_Mutation SNP A A C rs5126 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 123.0 59.0 122.0 0.0 0.479675 0 A|0.991;C|0.009 0.009 strong . APOC2 9 . NM_000483 exon4 c.A229C p.K77Q TACAGCAAAAGCA . PASS Atlas-SNP SPATA2 9825 hgsc.bcm.edu 37 20 48522263 48522263 + Missense_Mutation SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 371.0 188.0 342.0 0.0 0.506739 0 . . none . SPATA2 36 . NM_006038 exon3 c.G1456A p.A486T GGTAAGCGCTGAG . PASS Atlas-SNP URB2 9816 hgsc.bcm.edu 37 1 229770827 229770827 + Missense_Mutation SNP C C T rs115641620 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 117.0 62.0 108.0 0.0 0.529915 0 C|0.992;T|0.008 0.008 strong . URB2 152 . NM_014777 exon4 c.C467T p.S156L GCTGGTCGGCCTG . PASS Atlas-SNP ATP5J 522 hgsc.bcm.edu 37 21 27107251 27107251 + Missense_Mutation SNP C C G rs71649640 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 99.0 52.0 100.0 0.0 0.525253 0 C|0.990;G|0.010 0.010 strong . ATP5J 13 . NM_001003701 exon1 c.G16C p.G6R CCTACCCGCCATC . PASS Atlas-SNP ZNF804B 219578 hgsc.bcm.edu 37 7 88963401 88963401 + Missense_Mutation SNP C C T rs141118086 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 83.0 34.0 87.0 0.0 0.409639 0 C|0.986;T|0.014 0.014 strong . ZNF804B 322 . NM_181646 exon4 c.C1105T p.P369S TTCAGCCCACCAA . PASS Atlas-SNP XYLT1 64131 hgsc.bcm.edu 37 16 17353090 17353090 + Missense_Mutation SNP G G C rs113276942 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 197.0 110.0 143.0 0.0 0.558376 0 G|0.950;C|0.050 0.050 strong XYLT1,NS,carcinoma,+1,1 XYLT1 147 1 NM_022166 exon3 c.C668G p.A223G GCTGCGGCTCTGT . PASS Atlas-SNP HPS5 11234 hgsc.bcm.edu 37 11 18330522 18330522 + Silent SNP A A G rs146455658 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 88.0 40.0 97.0 0.0 0.454545 0 A|0.999;G|0.001 0.001 strong . HPS5 70 . NM_181507 exon6 c.T582C p.L194L TCGAGTAAGTGAA . PASS Atlas-SNP PNO1 56902 hgsc.bcm.edu 37 2 68385240 68385240 + Silent SNP C C G rs61735657 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 78.0 39.0 56.0 0.0 0.5 0 C|0.979;G|0.021 0.021 strong . PNO1 17 . NM_020143 exon1 c.C174G p.P58P GAGGCCCGTCTTC . PASS Atlas-SNP SMARCAL1 50485 hgsc.bcm.edu 37 2 217285104 217285104 + Missense_Mutation SNP C C G rs2066522 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 160.0 76.0 164.0 1.0 0.475 0.00609756 C|0.957;G|0.043 0.043 strong SMARCAL1,right_upper_lobe,carcinoma,+1,1 SMARCAL1 93 1 NM_014140 exon5 c.C945G p.S315R CACCAGCAGTGAG . scavenged Atlas-SNP PLEKHG4B 153478 hgsc.bcm.edu 37 5 143359 143359 + Missense_Mutation SNP G G A rs114876243 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 49.0 24.0 61.0 0.0 0.489796 0 G|0.985;A|0.015 0.015 strong . PLEKHG4B 167 . NM_052909 exon2 c.G607A p.V203I GGGGTCGTCACCC . PASS Atlas-SNP TNFRSF21 27242 hgsc.bcm.edu 37 6 47251772 47251772 + Missense_Mutation SNP C C T rs148459670 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 269.0 137.0 227.0 0.0 0.509294 0 C|1.000;T|0.000 0.000 strong . TNFRSF21 61 . NM_014452 exon3 c.G1145A p.R382Q TCCTGCCGGGGCC . PASS Atlas-SNP DUOX1 53905 hgsc.bcm.edu 37 15 45444572 45444572 + Silent SNP T T C rs114272662 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 219.0 116.0 194.0 1.0 0.52968 0.00515464 T|0.968;C|0.032 0.032 strong . DUOX1 125 . NM_017434 exon26 c.T3282C p.S1094S CATCTCTTTCATG . PASS Atlas-SNP GSE1 23199 hgsc.bcm.edu 37 16 85690900 85690900 + Missense_Mutation SNP G G A rs35446008 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 92.0 46.0 101.0 0.0 0.5 0 G|0.985;A|0.015 0.015 strong . . . . NM_014615 exon8 c.G1330A p.G444S GATGCCGGCCTGC . PASS Atlas-SNP ZNF141 7700 hgsc.bcm.edu 37 4 367290 367290 + Missense_Mutation SNP A A G rs61733102 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 61.0 31.0 35.0 0.0 0.508197 0 A|0.998;G|0.002 0.002 strong . ZNF141 48 . NM_003441 exon4 c.A1064G p.N355S AACTGAATGAACA . PASS Atlas-SNP CD200R1L 344807 hgsc.bcm.edu 37 3 112545875 112545875 + Missense_Mutation SNP G G A rs61740125 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 141.0 141.0 130.0 0.0 1 0 G|0.979;A|0.021 0.021 strong . CD200R1L 47 . NM_001008784 exon4 c.C644T p.T215I TTGCCAGTCAAAT . PASS Atlas-SNP ITGA11 22801 hgsc.bcm.edu 37 15 68603345 68603345 + Missense_Mutation SNP C C T rs146663204 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 88.0 33.0 76.0 0.0 0.375 0 C|0.997;T|0.003 0.003 strong . ITGA11 110 . NM_001004439 exon26 c.G3161A p.R1054H GGAGCACGACGCA . PASS Atlas-SNP EPHA10 284656 hgsc.bcm.edu 37 1 38197214 38197214 + Missense_Mutation SNP G G A rs141193695 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 86.0 38.0 99.0 0.0 0.44186 0 G|0.979;A|0.021 0.021 strong EPHA10,colon,carcinoma,+1,1 EPHA10 120 1 NM_001099439 exon7 c.C1532T p.A511V GTGGGCGCCCCTG . PASS Atlas-SNP COL18A1 80781 hgsc.bcm.edu 37 21 46900062 46900062 + Missense_Mutation SNP G G A rs61738822 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 41.0 44.0 0.0 0.539474 0 G|0.996;A|0.004 0.004 strong . COL18A1 129 . NM_030582 exon10 c.G1930A p.D644N AGACACGACAAGC . PASS Atlas-SNP PRAMEF2 65122 hgsc.bcm.edu 37 1 12918903 12918903 + Silent SNP G G A rs17038644 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 452.0 227.0 358.0 1.0 0.502212 0.0027933 G|0.978;A|0.022 0.022 strong . PRAMEF2 85 . NM_023014 exon2 c.G39A p.A13A GCTGGCGGGGCAG . PASS Atlas-SNP KRTAP10-7 386675 hgsc.bcm.edu 37 21 46021546 46021546 + Missense_Mutation SNP C C G rs116074123 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 114.0 83.0 59.0 0.0 0.72807 0 C|0.974;G|0.026 0.026 strong . KRTAP10-7 41 . NM_198689 exon2 c.C1010G p.A337G GCCAGGCCAGCTG . PASS Atlas-SNP CD101 9398 hgsc.bcm.edu 37 1 117576631 117576631 + Missense_Mutation SNP C C T rs34248572 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 112.0 53.0 138.0 0.0 0.473214 0 C|0.972;T|0.028 0.028 strong CD101,NS,carcinoma,-1,1 CD101 95 1 NM_001256109 exon9 c.C2974T p.R992W AACACACGGAAAG . PASS Atlas-SNP FASLG 356 hgsc.bcm.edu 37 1 172628488 172628488 + Silent SNP G G A rs61756244 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 136.0 60.0 139.0 0.0 0.441176 0 G|0.944;A|0.056 0.056 strong . FASLG 44 . NM_000639 exon1 c.G147A p.P49P ACCACCGCCACCG . PASS Atlas-SNP TPRN 286262 hgsc.bcm.edu 37 9 140086940 140086940 + Silent SNP C C T rs115446132 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 71.0 41.0 93.0 0.0 0.577465 0 C|0.996;T|0.004 0.004 strong . TPRN 28 . NM_001128228 exon2 c.G1929A p.V643V GGGTCTCACGCTG . PASS Atlas-SNP HSH2D 84941 hgsc.bcm.edu 37 19 16263946 16263946 + Silent SNP C C T rs1870354 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 55.0 33.0 73.0 0.0 0.6 0 C|0.986;T|0.014 0.014 strong . HSH2D 16 . NM_032855 exon6 c.C309T p.D103D GCTGGACGCCCTG . PASS Atlas-SNP NOL8 55035 hgsc.bcm.edu 37 9 95078413 95078413 + Missense_Mutation SNP T T C rs41305617 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 242.0 91.0 223.0 0.0 0.376033 0 T|0.986;C|0.014 0.014 strong . NOL8 118 . NM_017948 exon7 c.A494G p.K165R TCATATTTGATGA . PASS Atlas-SNP GPR98 84059 hgsc.bcm.edu 37 5 90136732 90136732 + Missense_Mutation SNP C C G rs61748627 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 58.0 30.0 63.0 0.0 0.517241 0 C|0.988;G|0.012 0.012 strong . GPR98 605 . NM_032119 exon78 c.C16949G p.T5650S TCCATACCATCAG . PASS Atlas-SNP OGFR 11054 hgsc.bcm.edu 37 20 61444900 61444900 + Missense_Mutation SNP A A C rs61735508 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 64.0 37.0 64.0 0.0 0.578125 0 A|0.975;C|0.025 0.025 strong . OGFR 63 . NM_007346 exon7 c.A1933C p.S645R GGCCCCAGCCCGG . PASS Atlas-SNP TTN 7273 hgsc.bcm.edu 37 2 179577870 179577870 + Silent SNP T T C rs61232800 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 288.0 134.0 285.0 0.0 0.465278 0 T|0.981;C|0.019 0.019 strong . TTN 18412 . NM_001267550 exon93 c.A26991G p.T8997T TATACATGTGTAG . PASS Atlas-SNP NOS1 4842 hgsc.bcm.edu 37 12 117691490 117691490 + Silent SNP G G A rs9658446 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 149.0 51.0 121.0 0.0 0.342282 0 G|0.985;A|0.015 0.015 strong NOS1,NS,carcinoma,0,1 NOS1 240 1 NM_001204218 exon18 c.C2703T p.P901P GAGGTCGGGCCCA . PASS Atlas-SNP TRAPPC9 83696 hgsc.bcm.edu 37 8 140999002 140999002 + Silent SNP G G A rs28710457 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 62.0 30.0 49.0 0.0 0.483871 0 G|0.986;A|0.014 0.014 strong . TRAPPC9 114 . NM_031466 exon19 c.C3036T p.T1012T ATGCTCGGTGGAG . PASS Atlas-SNP PCDHB16 57717 hgsc.bcm.edu 37 5 140562756 140562756 + Missense_Mutation SNP C C G rs28398442 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 73.0 39.0 65.0 0.0 0.534247 0 C|0.991;G|0.009 0.009 strong . PCDHB16 159 . NM_020957 exon1 c.C622G p.L208V CCTCAACTAAGAT . PASS Atlas-SNP ECM1 1893 hgsc.bcm.edu 37 1 150482639 150482639 + Silent SNP C C T rs74352693 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 110.0 51.0 101.0 0.0 0.463636 0 C|0.982;T|0.018 0.018 strong . ECM1 96 . NM_001202858 exon5 c.C447T p.H149H CCAGCACCCCAAT . PASS Atlas-SNP PODXL2 50512 hgsc.bcm.edu 37 3 127387388 127387388 + Silent SNP C C T rs34716022 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 253.0 133.0 230.0 0.0 0.525692 0 C|0.938;T|0.062 0.062 strong . PODXL2 53 . NM_015720 exon5 c.C1311T p.S437S TCTGAGCAAGCCC . PASS Atlas-SNP HELQ 113510 hgsc.bcm.edu 37 4 84374692 84374692 + Missense_Mutation SNP A A G rs17006837 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 123.0 64.0 124.0 0.0 0.520325 0 A|0.864;G|0.136 0.136 strong . HELQ 95 . NM_133636 exon2 c.T704C p.L235P TGGGGCAGTTCCT . PASS Atlas-SNP TM7SF2 7108 hgsc.bcm.edu 37 11 64882441 64882441 + Silent SNP G G A rs33981236 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 174.0 93.0 130.0 0.0 0.534483 0 G|0.981;A|0.019 0.019 strong TM7SF2,NS,carcinoma,+1,1 TM7SF2 30 1 NM_003273 exon7 c.G780A p.A260A GCTGGCGTTTGGG . PASS Atlas-SNP DEFB135 613209 hgsc.bcm.edu 37 8 11842019 11842019 + Missense_Mutation SNP G G A rs73663074 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 103.0 57.0 105.0 0.0 0.553398 0 G|0.959;A|0.041 0.041 strong . DEFB135 7 . NM_001033017 exon2 c.G154A p.E52K AAAAACGAACAAT . PASS Atlas-SNP TRPV6 55503 hgsc.bcm.edu 37 7 142573613 142573613 + Silent SNP C C T rs79832568 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 170.0 83.0 167.0 0.0 0.488235 0 C|0.976;T|0.024 0.024 strong . TRPV6 108 . NM_018646 exon7 c.G807A p.T269T TCCATACGTCCAC . PASS Atlas-SNP MYLK 4638 hgsc.bcm.edu 37 3 123452859 123452859 + Silent SNP C C T rs115018449 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 149.0 65.0 114.0 0.0 0.436242 0 C|0.998;T|0.002 0.002 strong MYLK,caecum,carcinoma,0,1 MYLK 224 1 NM_053025 exon10 c.G984A p.S328S TCTGGGCGAGTCC . PASS Atlas-SNP PARP14 54625 hgsc.bcm.edu 37 3 122419993 122419993 + Silent SNP C C T rs16833421 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 75.0 37.0 56.0 0.0 0.493333 0 C|0.965;T|0.035 0.035 strong . PARP14 242 . NM_017554 exon6 c.C2592T p.A864A CAATGCCACCATC . PASS Atlas-SNP BPIFA2 140683 hgsc.bcm.edu 37 20 31761885 31761885 + Silent SNP G G T rs61734343 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 138.0 58.0 121.0 0.0 0.42029 0 A|0.003;G|0.992;T|0.005 0.005 strong . . . . NM_080574 exon4 c.G303T p.G101G ACACAGGTTGAAA . PASS Atlas-SNP PFKP 5214 hgsc.bcm.edu 37 10 3177944 3177944 + Silent SNP C C T rs61731934 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 40.0 51.0 0.0 0.526316 0 C|0.983;T|0.017 0.017 strong PFKP_ENST00000381075,NS,carcinoma,+2,2 PFKP 182 2 NM_002627 exon21 c.C2139T p.T713T TACCACCGATGAT . PASS Atlas-SNP ABCA8 10351 hgsc.bcm.edu 37 17 66928468 66928468 + Missense_Mutation SNP G G C rs62638729 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 99.0 46.0 80.0 0.0 0.464646 0 G|0.945;C|0.055 0.055 strong . ABCA8 213 . NM_007168 exon6 c.C758G p.A253G ATCAAGGCCTTCA . PASS Atlas-SNP SEMA4B 10509 hgsc.bcm.edu 37 15 90771787 90771787 + Missense_Mutation SNP G G A rs16944065 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 70.0 30.0 58.0 0.0 0.428571 0 G|0.979;A|0.021 0.021 strong . SEMA4B 51 . NM_020210 exon15 c.G2426A p.S809N CACTCAGCATCCA . PASS Atlas-SNP C19orf54 284325 hgsc.bcm.edu 37 19 41248532 41248532 + Silent SNP G G A rs36071297 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 145.0 78.0 127.0 0.0 0.537931 0 G|0.905;A|0.095 0.095 strong . C19orf54 13 . NM_198476 exon6 c.C862T p.L288L TGGACAGCAGGTA . PASS Atlas-SNP HRNR 388697 hgsc.bcm.edu 37 1 152193049 152193049 + Silent SNP C C T rs114845154 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 123.0 54.0 114.0 0.0 0.439024 0 C|0.985;T|0.015 0.015 strong HRNR,NS,carcinoma,-2,1 HRNR 403 1 NM_001009931 exon3 c.G1056A p.E352E GCCAGACTCATGT . PASS Atlas-SNP CEP89 84902 hgsc.bcm.edu 37 19 33406328 33406328 + Missense_Mutation SNP G G A rs113919201 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 244.0 128.0 218.0 1.0 0.52459 0.00458716 G|0.991;A|0.009 0.009 strong CEP89,NS,carcinoma,+1,1 CEP89 82 1 NM_032816 exon14 c.C1480T p.R494C TGGCACGTAAAAT . PASS Atlas-SNP GPC3 2719 hgsc.bcm.edu 37 X 132730541 132730541 + Silent SNP A A G rs2314298 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 461.0 297.0 421.0 0.0 0.644252 0 A|0.905;G|0.095 0.095 strong . GPC3 88 . NM_001164617 exon8 c.T1569C p.D523D TTCATCATCACCG . PASS Atlas-SNP CIZ1 25792 hgsc.bcm.edu 37 9 130941451 130941451 + Silent SNP C C T rs45536439 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 118.0 70.0 118.0 0.0 0.59322 0 C|0.961;T|0.039 0.039 strong . CIZ1 75 . NM_001257975 exon8 c.G1125A p.A375A TGTTTGCGCCTGC . PASS Atlas-SNP CDC42BPB 9578 hgsc.bcm.edu 37 14 103406169 103406169 + Silent SNP C C T rs60475222 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 216.0 96.0 163.0 0.0 0.444444 0 C|0.992;T|0.008 0.008 strong . CDC42BPB 123 . NM_006035 exon33 c.G4707A p.R1569R CTACCGCCTCTGC . PASS Atlas-SNP CTF1 1489 hgsc.bcm.edu 37 16 30910830 30910830 + Silent SNP C C T rs8059269 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 188.0 83.0 194.0 0.0 0.441489 0 C|0.965;T|0.035 0.035 strong . CTF1 3 . NM_001330 exon2 c.C120T p.Y40Y CAAATACGCTGAG . PASS Atlas-SNP CLCA4 22802 hgsc.bcm.edu 37 1 87045696 87045696 + Missense_Mutation SNP G G C rs2231604 bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 149.0 59.0 110.0 0.0 0.395973 0 G|0.950;C|0.050 0.050 strong . CLCA4 131 . NM_012128 exon14 c.G2428C p.V810L CTTCAAGTAAATA . PASS Atlas-SNP PSG6 5675 hgsc.bcm.edu 37 19 43414875 43414875 + Missense_Mutation SNP A A C rs59587483 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 294.0 133.0 278.0 0.0 0.452381 0 A|0.960;C|0.040 0.040 strong . PSG6 89 . NM_001031850 exon3 c.T563G p.M188R TGAGTCATAGGGA . PASS Atlas-SNP SH2D4A 63898 hgsc.bcm.edu 37 8 19221784 19221784 + Missense_Mutation SNP A A G rs35319139 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 67.0 32.0 89.0 0.0 0.477612 0 A|0.973;G|0.027 0.027 strong . SH2D4A 49 . NM_022071 exon7 c.A908G p.K303R CTCAAAAACCTCT . PASS Atlas-SNP SLC47A2 146802 hgsc.bcm.edu 37 17 19607432 19607432 + Silent SNP C C T rs34169093 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 39.0 20.0 45.0 0.0 0.512821 0 C|0.935;T|0.065 0.065 strong . SLC47A2 61 . NM_152908 exon11 c.G1077A p.A359A AGTATCCGCAGCC . PASS Atlas-SNP ENAM 10117 hgsc.bcm.edu 37 4 71508869 71508869 + Missense_Mutation SNP T T C rs2609428 bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 137.0 62.0 125.0 0.0 0.452555 0 T|0.952;C|0.048 0.048 strong . ENAM 140 . NM_031889 exon9 c.T1726C p.F576L CCACCTTTTAAGG . PASS Atlas-SNP MAML3 55534 hgsc.bcm.edu 37 4 140811114 140811114 + Silent SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 98.0 6.0 87.0 1.0 0.0612245 0.0114943 . . none MAML3_ENST00000509479,colon,carcinoma,0,4 MAML3 192 4 NM_018717 exon2 c.G1476A p.Q492Q CTGCTGCTGCTGC . scavenged Atlas-SNP HOMEZ 57594 hgsc.bcm.edu 37 14 23744826 23744826 + Missense_Mutation SNP T T A rs76331664 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 135.0 15.0 159.0 0.0 0.111111 0 . . weak . HOMEZ 80 . NM_020834 exon2 c.A1611T p.E537D ATCATCTTCCTCC . PASS Atlas-SNP PROSER2 254427 hgsc.bcm.edu 37 10 11912381 11912381 + Silent SNP G G A rs191542752 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 19.0 10.0 20.0 0.0 0.526316 0 G|0.993;A|0.007 0.007 strong . . . . NM_153256 exon4 c.G1284A p.L428L GAAGCTGGGGCTG . PASS Atlas-SNP AQP7 364 hgsc.bcm.edu 37 9 33385134 33385134 + Missense_Mutation SNP C C T rs61073250 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 150.0 87.0 113.0 0.0 0.58 0 C|0.964;T|0.036 0.036 strong . AQP7 58 . NM_001170 exon8 c.G898A p.V300I GCAATACGGTTAT . PASS Atlas-SNP BCAR3 8412 hgsc.bcm.edu 37 1 94049576 94049576 + Silent SNP A A G rs78645541 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 146.0 81.0 144.0 0.0 0.554795 0 A|0.992;G|0.008 0.008 strong . BCAR3 62 . NM_001261409 exon6 c.T1032C p.I344I CATACCAATCGGC . PASS Atlas-SNP FMO2 2327 hgsc.bcm.edu 37 1 171162583 171162583 + Missense_Mutation SNP T T C rs2020860 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 55.0 24.0 66.0 0.0 0.436364 0 T|0.895;C|0.105 0.105 strong FMO2,colon,carcinoma,+1,1 FMO2 66 1 NM_001460 exon3 c.T242C p.F81S CAAACTTCCTGCA . PASS Atlas-SNP XPR1 9213 hgsc.bcm.edu 37 1 180804033 180804033 + Silent SNP C C T rs61742073 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 67.0 30.0 71.0 0.0 0.447761 0 C|0.949;T|0.051 0.051 strong . XPR1 76 . NM_004736 exon10 c.C1158T p.F386F CCCCTTCCATAAG . PASS Atlas-SNP RBP1 5947 hgsc.bcm.edu 37 3 139257727 139257727 + Missense_Mutation SNP T T C rs34674353 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 274.0 141.0 260.0 0.0 0.514599 0 T|0.992;C|0.008 0.008 strong . RBP1 39 . NM_002899 exon2 c.A334G p.M112V TGATCATATGGTC . PASS Atlas-SNP MTERFD2 130916 hgsc.bcm.edu 37 2 242036769 242036769 + Silent SNP G G A rs10171090 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 118.0 52.0 129.0 0.0 0.440678 0 G|0.978;A|0.022 0.022 strong . MTERFD2 33 . NM_182501 exon3 c.C594T p.V198V AAGCCTGACAGTG . PASS Atlas-SNP GBA 2629 hgsc.bcm.edu 37 1 155210498 155210498 + Missense_Mutation SNP T T C rs150466109 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 60.0 31.0 53.0 0.0 0.516667 0 T|0.979;C|0.021 0.021 strong . GBA 46 . NM_001005742 exon3 c.A38G p.K13R AAAGGCTTGGGAC . PASS Atlas-SNP WDR87 83889 hgsc.bcm.edu 37 19 38380501 38380501 + Silent SNP G G A rs143655348 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 195.0 95.0 207.0 1.0 0.487179 0.00483092 G|0.994;A|0.006 0.006 strong . WDR87 191 . NM_031951 exon6 c.C3693T p.G1231G CCTGCGGCCAGAT . PASS Atlas-SNP TG 7038 hgsc.bcm.edu 37 8 133953676 133953676 + Missense_Mutation SNP A A G rs61744679 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 286.0 144.0 241.0 0.0 0.503497 0 A|0.964;G|0.036 0.036 strong . TG 416 . NM_003235 exon26 c.A5122G p.I1708V AACCCCATTGTGT . PASS Atlas-SNP TMEM44 93109 hgsc.bcm.edu 37 3 194325103 194325103 + Missense_Mutation SNP G G A rs745169 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 131.0 65.0 104.0 0.0 0.496183 0 G|0.930;A|0.070 0.070 strong . TMEM44 42 . NM_001166306 exon9 c.C1085T p.P362L CGACGGGGGGTCC . PASS Atlas-SNP CCBL2 56267 hgsc.bcm.edu 37 1 89453966 89453966 + Missense_Mutation SNP G G A rs74100109 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 328.0 159.0 266.0 0.0 0.484756 0 G|0.988;A|0.012 0.012 strong . CCBL2 138 . NM_001008661 exon2 c.C68T p.S23F TTGGAAGAAGAAA . PASS Atlas-SNP FUT1 2523 hgsc.bcm.edu 37 19 49253717 49253717 + Silent SNP G G T rs838138 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 55.0 55.0 77.0 0.0 1 0 G|0.955;T|0.045 0.045 strong . FUT1 44 . NM_000148 exon4 c.C822A p.T274T CTGGGAGGTGTCG . PASS Atlas-SNP C1orf27 54953 hgsc.bcm.edu 37 1 186355168 186355168 + Missense_Mutation SNP A A G rs115570554 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 56.0 24.0 41.0 0.0 0.428571 0 A|0.997;G|0.003 0.003 strong . C1orf27 41 . NM_001164245 exon4 c.A283G p.I95V TTTATTATTACTA . PASS Atlas-SNP PDE9A 5152 hgsc.bcm.edu 37 21 44192574 44192574 + Missense_Mutation SNP C C T rs147305658 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 62.0 38.0 100.0 0.0 0.612903 0 C|0.999;T|0.001 0.001 strong . PDE9A 69 . NM_002606 exon19 c.C1712T p.T571M GCTTGACGTCTGG . PASS Atlas-SNP OR6C76 390326 hgsc.bcm.edu 37 12 55820358 55820358 + Silent SNP G G A rs12322458 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 152.0 72.0 165.0 0.0 0.473684 0 G|0.978;A|0.022 0.022 strong . OR6C76 98 . NM_001005183 exon1 c.G321A p.T107T CTCAACGGAGTTT . PASS Atlas-SNP ANK1 286 hgsc.bcm.edu 37 8 41522407 41522407 + Missense_Mutation SNP G G C rs112350393 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 63.0 28.0 68.0 0.0 0.444444 0 G|0.969;C|0.031 0.031 strong . ANK1 497 . NM_020478 exon1 c.C135G p.D45E CTCCTTGTCCAGC . PASS Atlas-SNP THAP11 57215 hgsc.bcm.edu 37 16 67876805 67876805 + Silent SNP A A G rs28434205 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 19.0 7.0 19.0 0.0 0.368421 0 A|0.991;G|0.009 0.009 strong THAP11,bladder,carcinoma,0,3 THAP11 27 3 NM_020457 exon1 c.A348G p.Q116Q GCAGCAACAGCAG . PASS Atlas-SNP FMN2 56776 hgsc.bcm.edu 37 1 240371409 240371409 + Silent SNP G G T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 149.0 7.0 142.0 0.0 0.0469799 0 . . none FMN2,NS,neuroblastoma,0,1 FMN2 451 1 NM_020066 exon5 c.G3297T p.P1099P CCCTCCGCCCCCT . scavenged Atlas-SNP EIF1AD 84285 hgsc.bcm.edu 37 11 65767578 65767578 + Missense_Mutation SNP G G A rs35497370 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 91.0 47.0 110.0 0.0 0.516484 0 G|0.997;A|0.003 0.003 strong EIF1AD,colon,carcinoma,+1,1 EIF1AD 10 1 NM_001242483 exon3 c.C142T p.R48C GGAAGCGCTGCCC . PASS Atlas-SNP OR4K15 81127 hgsc.bcm.edu 37 14 20443751 20443751 + Missense_Mutation SNP T T G rs139828094 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 193.0 102.0 187.0 0.0 0.528497 0 T|0.994;G|0.006 0.006 strong . OR4K15 82 . NM_001005486 exon1 c.T74G p.M25R AATCGATGAATGA . PASS Atlas-SNP AKNAD1 254268 hgsc.bcm.edu 37 1 109395230 109395230 + Silent SNP A A G rs142279898 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 99.0 49.0 83.0 0.0 0.494949 0 A|0.998;G|0.002 0.002 strong . AKNAD1 83 . NM_152763 exon2 c.T57C p.Y19Y CCCATCATAAGGC . PASS Atlas-SNP GLIS3 169792 hgsc.bcm.edu 37 9 4118262 4118262 + Missense_Mutation SNP C C A rs75462592 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 24.0 18.0 10.0 0.0 0.75 0 C|0.993;A|0.007 0.007 strong . GLIS3 152 . NM_001042413 exon4 c.G1216T p.G406C CCAGGCCTGGCTG . PASS Atlas-SNP MAP2K2 5605 hgsc.bcm.edu 37 19 4110552 4110552 + Silent SNP C C G rs10424722 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 56.0 38.0 45.0 0.0 0.678571 0 C|0.956;G|0.044 0.044 strong . MAP2K2 72 . NM_030662 exon3 c.G405C p.G135G GAAGGCCCCGTAG . PASS Atlas-SNP MAL2 114569 hgsc.bcm.edu 37 8 120233968 120233968 + Missense_Mutation SNP G G A rs2303398 bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 135.0 88.0 138.0 0.0 0.651852 0 G|0.895;A|0.105 0.105 strong . . . . NM_052886 exon3 c.G274A p.A92T ATGGTGGCTCAAA . PASS Atlas-SNP INCENP 3619 hgsc.bcm.edu 37 11 61906216 61906216 + Missense_Mutation SNP G G A rs61751226 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 50.0 26.0 44.0 0.0 0.52 0 G|0.995;A|0.005 0.005 strong . INCENP 122 . NM_001040694 exon6 c.G1147A p.E383K GAGGCTGAGCCTG . PASS Atlas-SNP C2orf16 84226 hgsc.bcm.edu 37 2 27804114 27804114 + Missense_Mutation SNP C C T rs13392197 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 81.0 44.0 90.0 0.0 0.54321 0 C|0.983;T|0.017 0.017 strong . C2orf16 357 . NM_032266 exon1 c.C4675T p.H1559Y ACCCGTCATAACC . PASS Atlas-SNP C15orf54 400360 hgsc.bcm.edu 37 15 39544809 39544809 + Missense_Mutation SNP G G C rs115130297 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 165.0 88.0 145.0 0.0 0.533333 0 G|0.997;C|0.003 0.003 strong . C15orf54 18 . NM_207445 exon2 c.G473C p.R158T GAGAGAGGGGACA . PASS Atlas-SNP PLSCR5 389158 hgsc.bcm.edu 37 3 146311832 146311832 + Missense_Mutation SNP G G T rs12107687 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 142.0 72.0 141.0 0.0 0.507042 0 G|0.987;T|0.013 0.013 strong . PLSCR5 35 . NM_001085420 exon4 c.C328A p.R110S AAGTACGATTGAA . PASS Atlas-SNP IVL 3713 hgsc.bcm.edu 37 1 152883036 152883036 + Missense_Mutation SNP C C T rs4459054 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 208.0 88.0 169.0 0.0 0.423077 0 C|0.986;T|0.014 0.014 strong IVL,NS,carcinoma,-2,1 IVL 100 1 NM_005547 exon2 c.C763T p.L255F CTGGAGCTCTCTG . PASS Atlas-SNP RBM20 282996 hgsc.bcm.edu 37 10 112540884 112540884 + Missense_Mutation SNP C C A rs7908490 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 129.0 54.0 129.0 0.0 0.418605 0 C|0.970;A|0.030 0.030 strong . RBM20 50 . NM_001134363 exon2 c.C517A p.P173T TTTTCACCCCCCA . PASS Atlas-SNP ROS1 6098 hgsc.bcm.edu 37 6 117681560 117681560 + Silent SNP G G T rs140639104 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 73.0 24.0 75.0 0.0 0.328767 0 G|0.998;T|0.002 0.002 strong . ROS1 728 . NM_002944 exon22 c.C3390A p.A1130A TGTAAAGGCCCTA . PASS Atlas-SNP LRIT2 340745 hgsc.bcm.edu 37 10 85981756 85981756 + Missense_Mutation SNP G G T rs74145770 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 208.0 119.0 159.0 0.0 0.572115 0 G|0.957;T|0.043 0.043 strong . LRIT2 81 . NM_001017924 exon3 c.C1573A p.P525T CAGCTGGATGTTC . PASS Atlas-SNP NLRC4 58484 hgsc.bcm.edu 37 2 32463353 32463353 + Missense_Mutation SNP A A G rs202095832 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 113.0 61.0 91.0 0.0 0.539823 0 . . weak . NLRC4 165 . NM_001199138 exon6 c.T2369C p.L790P TTCTTCAGGTTTT . PASS Atlas-SNP EXPH5 23086 hgsc.bcm.edu 37 11 108383560 108383560 + Missense_Mutation SNP T T A rs10890850 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 130.0 86.0 126.0 0.0 0.661538 0 T|0.967;A|0.033 0.033 strong . EXPH5 193 . NM_015065 exon6 c.A2674T p.N892Y AAGAATTCTTTGA . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195511397 195511397 + Missense_Mutation SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 142.0 9.0 377.0 1.0 0.0633803 0.00265252 . . none MUC4_ENST00000463781,NS,carcinoma,+1,3 MUC4 1505 3 NM_018406 exon2 c.C7054T p.P2352S GAAGAGGGGTGGC . scavenged Atlas-SNP ABCA6 23460 hgsc.bcm.edu 37 17 67109493 67109493 + Silent SNP A A G rs2058128 bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 64.0 30.0 53.0 0.0 0.46875 0 A|0.876;G|0.124 0.124 strong . ABCA6 210 . NM_080284 exon15 c.T1911C p.L637L ATCTAAAAGCAAA . PASS Atlas-SNP ODF1 4956 hgsc.bcm.edu 37 8 103573086 103573086 + Missense_Mutation SNP T T C rs11995900 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 79.0 31.0 93.0 0.0 0.392405 0 T|0.911;C|0.089 0.089 strong . ODF1 55 . NM_024410 exon2 c.T727C p.F243L AGCCGATTTTCCT . PASS Atlas-SNP PON2 5445 hgsc.bcm.edu 37 7 95039394 95039394 + Missense_Mutation SNP C C G rs17876152 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 108.0 58.0 83.0 0.0 0.537037 0 C|0.983;G|0.017 0.017 strong . PON2 32 . NM_000305 exon6 c.G514C p.V172L GTCCAACAGCTGT . PASS Atlas-SNP TAF1 6872 hgsc.bcm.edu 37 X 70595132 70595132 + Silent SNP T T C rs5981106 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 158.0 67.0 141.0 0.0 0.424051 0 T|0.891;C|0.109 0.109 strong . TAF1 439 . NM_004606 exon4 c.T528C p.T176T TATTACTGGTGGT . PASS Atlas-SNP MFRP 83552 hgsc.bcm.edu 37 11 119216867 119216867 + Missense_Mutation SNP G G C rs139436396 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 46.0 23.0 48.0 0.0 0.5 0 G|0.990;C|0.010 0.010 strong . MFRP 63 . NM_031433 exon3 c.C160G p.R54G GACGCCGACCTGC . PASS Atlas-SNP RASA2 5922 hgsc.bcm.edu 37 3 141248572 141248572 + Missense_Mutation SNP A A C rs144759014 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 42.0 17.0 35.0 0.0 0.404762 0 A|1.000;C|0.000 0.000 strong RASA2_ENST00000286364,temporal_lobe,glioma,+2,2 RASA2 169 2 NM_006506 exon4 c.A378C p.E126D AAAAGAAGACTTG . PASS Atlas-SNP COX1 5742 hgsc.bcm.edu 37 MT 6071 6071 + Silent SNP T T C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 12.0 12.0 13.0 0.0 1 0 . . none . . . . ENST00000361624 exon1 c.T168C p.V56V CAACGTTATCGTC . PASS Atlas-SNP KCNT1 57582 hgsc.bcm.edu 37 9 138651648 138651648 + Silent SNP A A G rs61739517 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 116.0 39.0 135.0 0.0 0.336207 0 A|0.967;G|0.033 0.033 strong . KCNT1 139 . NM_020822 exon11 c.A978G p.P326P CTGGCCATCGCAG . PASS Atlas-SNP ACACB 32 hgsc.bcm.edu 37 12 109637234 109637234 + Silent SNP G G T rs73398054 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 96.0 46.0 109.0 0.0 0.479167 0 A|0.006;G|0.992;T|0.002 0.002 strong . ACACB 330 . NM_001093 exon17 c.G2655T p.T885T TAAGACGTGTGTG . PASS Atlas-SNP TMEM251 26175 hgsc.bcm.edu 37 14 93652734 93652734 + Silent SNP C C T rs61744704 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 263.0 133.0 246.0 0.0 0.505703 0 C|0.997;T|0.003 0.003 strong . . . . NM_001098621 exon2 c.C228T p.A76A GCTGGCCTTGGAA . PASS Atlas-SNP ERP27 121506 hgsc.bcm.edu 37 12 15070169 15070169 + Silent SNP T T A rs35203261 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 229.0 102.0 229.0 0.0 0.445415 0 T|0.980;A|0.020 0.020 strong . ERP27 37 . NM_152321 exon5 c.A519T p.P173P ATACTCTGGGGAG . PASS Atlas-SNP CEACAM8 1088 hgsc.bcm.edu 37 19 43093793 43093793 + Silent SNP G G A rs10418988 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 231.0 104.0 206.0 0.0 0.450216 0 G|0.977;A|0.023 0.023 strong . CEACAM8 44 . NM_001816 exon3 c.C519T p.N173N GGTTGTGTTCTGA . PASS Atlas-SNP EML2 24139 hgsc.bcm.edu 37 19 46142624 46142624 + Missense_Mutation SNP A A C rs201822741 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 56.0 29.0 45.0 0.0 0.517857 0 A|0.994;C|0.006 0.006 strong . EML2 64 . NM_012155 exon1 c.T11G p.F4C GCTCCAAAGCTAC . PASS Atlas-SNP DSE 29940 hgsc.bcm.edu 37 6 116720466 116720466 + Missense_Mutation SNP G G T rs76186865 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 78.0 34.0 100.0 0.0 0.435897 0 G|0.970;T|0.030 0.030 strong . DSE 98 . NM_001080976 exon2 c.G53T p.C18F TGCTTTGCTTTGT . PASS Atlas-SNP CDC27 996 hgsc.bcm.edu 37 17 45234301 45234301 + Missense_Mutation SNP C C A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 46.0 2.0 76.0 1.0 0.0434783 0.0131579 . . none CDC27_ENST00000531206,NS,carcinoma,+1,10 CDC27 337 10 NM_001114091 exon7 c.G820T p.A274S TAAGAGCTGCTGG . scavenged Atlas-SNP FAM179B 23116 hgsc.bcm.edu 37 14 45431636 45431636 + Silent SNP C C T rs141982460 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 60.0 29.0 51.0 0.0 0.483333 0 C|0.998;T|0.002 0.002 strong . FAM179B 115 . NM_015091 exon1 c.C12T p.A4A GGCTGCCCCCTCC . PASS Atlas-SNP PIK3C2G 5288 hgsc.bcm.edu 37 12 18473933 18473933 + Missense_Mutation SNP T T G rs201637656 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 256.0 121.0 287.0 0.0 0.472656 0 . . weak PIK3C2G_ENST00000433979,NS,carcinoma,+1,2 PIK3C2G 315 2 NM_004570 exon7 c.T1175G p.L392R ATCAACTTCTAGA . PASS Atlas-SNP KIAA1456 57604 hgsc.bcm.edu 37 8 12879016 12879016 + Silent SNP T T A rs75377133 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 112.0 47.0 91.0 0.0 0.419643 0 T|0.989;A|0.011 0.011 strong . KIAA1456 20 . NM_020844 exon5 c.T828A p.V276V AGAAGTTTGGGCC . PASS Atlas-SNP SNAPC4 6621 hgsc.bcm.edu 37 9 139292751 139292751 + Missense_Mutation SNP C C T rs7031489 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 91.0 30.0 88.0 0.0 0.32967 0 C|0.991;T|0.009 0.009 strong . SNAPC4 82 . NM_003086 exon1 c.G130A p.D44N GCTTACCTGCTTC . PASS Atlas-SNP GSDMA 284110 hgsc.bcm.edu 37 17 38122117 38122117 + Silent SNP G G A rs16965465 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 42.0 16.0 56.0 0.0 0.380952 0 G|0.930;A|0.070 0.070 strong GSDMA,NS,carcinoma,+1,1 GSDMA 26 1 NM_178171 exon2 c.G177A p.T59T CTACACGCTGCTG . PASS Atlas-SNP XPR1 9213 hgsc.bcm.edu 37 1 180849394 180849394 + Missense_Mutation SNP A A G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 130.0 66.0 111.0 0.0 0.507692 0 . . none . XPR1 76 . NM_004736 exon14 c.A1991G p.N664S AGTACAACCAGAG . PASS Atlas-SNP SPTA1 6708 hgsc.bcm.edu 37 1 158587368 158587368 + Missense_Mutation SNP T T C rs111980420 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 190.0 112.0 231.0 0.0 0.589474 0 T|0.994;C|0.006 0.006 strong . SPTA1 720 . NM_003126 exon47 c.A6559G p.K2187E TTTCTTTGAGCAA . PASS Atlas-SNP GCLC 2729 hgsc.bcm.edu 37 6 53365102 53365102 + Silent SNP C C T rs17881359 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 176.0 82.0 179.0 0.0 0.465909 0 C|0.994;T|0.006 0.006 strong . GCLC 58 . NM_001498 exon14 c.G1524A p.T508T GAGCTCCGTGCTG . PASS Atlas-SNP SPHKAP 80309 hgsc.bcm.edu 37 2 228882588 228882588 + Silent SNP T T C rs73994847 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 101.0 53.0 85.0 0.0 0.524752 0 T|0.953;C|0.047 0.047 strong . SPHKAP 750 . NM_030623 exon7 c.A2982G p.K994K CTTGTGTTTCCTC . PASS Atlas-SNP TENM4 26011 hgsc.bcm.edu 37 11 78387356 78387356 + Silent SNP C C T rs59660398 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 88.0 39.0 67.0 0.0 0.443182 0 C|0.963;T|0.037 0.037 strong . . . . NM_001098816 exon30 c.G5337A p.A1779A CTGCAGCGCCACC . PASS Atlas-SNP PTPN1 5770 hgsc.bcm.edu 37 20 49191191 49191191 + Silent SNP A A G rs35414863 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 99.0 51.0 89.0 0.0 0.515152 0 A|0.976;G|0.024 0.024 strong . PTPN1 36 . NM_002827 exon5 c.A492G p.T164T CCTTACAGTGAGT . PASS Atlas-SNP NLGN4X 57502 hgsc.bcm.edu 37 X 5821468 5821468 + Silent SNP C C G rs61741754 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 229.0 125.0 173.0 0.0 0.545852 0 C|0.870;G|0.130 0.130 strong . NLGN4X 191 . NM_181332 exon5 c.G1251C p.R417R AGTCTCCCGCAAA . PASS Atlas-SNP TRIM17 51127 hgsc.bcm.edu 37 1 228601506 228601506 + Missense_Mutation SNP C C T rs116188608 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 109.0 44.0 93.0 0.0 0.40367 0 C|0.986;T|0.014 0.014 strong . TRIM17 66 . NM_001024940 exon3 c.G517A p.E173K GCCACTCGGCTAA . PASS Atlas-SNP BRD7 29117 hgsc.bcm.edu 37 16 50368671 50368671 + Missense_Mutation SNP C C G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 194.0 58.0 136.0 0.0 0.298969 0 . . none . BRD7 61 . NM_013263 exon7 c.G838C p.G280R CATCTCCAGAGTC . PASS Atlas-SNP LRP1 4035 hgsc.bcm.edu 37 12 57578696 57578696 + Silent SNP C C T rs140921686 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 144.0 79.0 110.0 0.0 0.548611 0 C|0.999;T|0.001 0.001 strong . LRP1 428 . NM_002332 exon39 c.C6261T p.R2087R GAACCGCGAGGTG . PASS Atlas-SNP PLA2R1 22925 hgsc.bcm.edu 37 2 160901403 160901403 + Silent SNP C C T rs35005192 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 137.0 58.0 132.0 0.0 0.423358 0 C|0.994;T|0.006 0.006 strong . PLA2R1 153 . NM_001195641 exon2 c.G375A p.P125P CTGCAGCGGGCCT . PASS Atlas-SNP MYO3B 140469 hgsc.bcm.edu 37 2 171256771 171256771 + Missense_Mutation SNP C C T rs148136770 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 129.0 56.0 166.0 0.0 0.434109 0 C|0.999;T|0.001 0.001 strong . MYO3B 320 . NM_001083615 exon17 c.C1865T p.S622F TTTCCTCTCAACA . PASS Atlas-SNP SLC52A3 113278 hgsc.bcm.edu 37 20 744510 744510 + Silent SNP G G A rs3746806 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 87.0 37.0 71.0 0.0 0.425287 0 A|0.009;C|0.000;G|0.991 0.009 strong C20orf54,colon,carcinoma,-2,1 . . 1 NM_033409 exon3 c.C705T p.L235L CGCCACGAGGCAG . PASS Atlas-SNP AMOT 154796 hgsc.bcm.edu 37 X 112022687 112022687 + Missense_Mutation SNP T T C rs147791527 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 116.0 82.0 94.0 0.0 0.706897 0 T|0.990;C|0.010 0.010 strong . AMOT 204 . NM_001113490 exon10 c.A2695G p.T899A CAGCAGTGGCAGT . PASS Atlas-SNP CCDC37 348807 hgsc.bcm.edu 37 3 126142189 126142189 + Silent SNP C C A rs78360289 bycluster;byfrequency;by1000genomes;alternate_allele TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 148.0 79.0 128.0 0.0 0.533784 0 C|0.992;T|0.008 . alt . CCDC37 69 . NM_182628 exon12 c.C1104A p.P368P CCCCCCCACGCAG . PASS Atlas-SNP CALHM1 255022 hgsc.bcm.edu 37 10 105215071 105215071 + Missense_Mutation SNP C C T rs114015468 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 123.0 75.0 90.0 0.0 0.609756 0 C|0.988;T|0.012 0.012 strong . CALHM1 33 . NM_001001412 exon2 c.G989A p.G330D GGCCCACCCCCAG . PASS Atlas-SNP MC1R 4157 hgsc.bcm.edu 37 16 89985984 89985984 + Silent SNP G G A rs3212364 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 83.0 35.0 62.0 0.0 0.421687 0 G|0.991;A|0.009 0.009 strong . MC1R 20 . NM_002386 exon1 c.G318A p.L106L TGCACTGGTGGCC . PASS Atlas-SNP C1orf158 93190 hgsc.bcm.edu 37 1 12819401 12819401 + Silent SNP G G A rs115263357 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 107.0 53.0 111.0 0.0 0.495327 0 G|0.993;A|0.007 0.007 strong . C1orf158 28 . NM_152290 exon3 c.G384A p.K128K AGAGAAGTCTGAC . PASS Atlas-SNP DCTN1 1639 hgsc.bcm.edu 37 2 74596321 74596321 + Silent SNP T T C rs13429423 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 305.0 151.0 252.0 0.0 0.495082 0 T|0.956;C|0.044 0.044 strong . DCTN1 110 . NM_004082 exon15 c.A1605G p.T535T CTGGTTTGTCAGT . PASS Atlas-SNP ZNF566 84924 hgsc.bcm.edu 37 19 36940675 36940675 + Missense_Mutation SNP T T C rs35217571 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 159.0 89.0 183.0 0.0 0.559748 0 T|0.986;C|0.014 0.014 strong . ZNF566 40 . NM_001145343 exon5 c.A464G p.H155R GGATGGTGACTCA . PASS Atlas-SNP PCNX 22990 hgsc.bcm.edu 37 14 71514668 71514668 + Missense_Mutation SNP G G C rs78161372 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 226.0 102.0 206.0 0.0 0.451327 0 G|0.995;C|0.005 0.005 strong . PCNX 198 . NM_014982 exon22 c.G4305C p.L1435F GCTGTTGGATCTC . PASS Atlas-SNP OR2T3 343173 hgsc.bcm.edu 37 1 248636934 248636934 + Missense_Mutation SNP G G T rs9435929 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 441.0 278.0 635.0 2.0 0.630385 0.00314961 G|1.000;|0.000 . weak . OR2T3 79 . NM_001005495 exon1 c.G283T p.D95Y GGAGATGATACCA . PASS Atlas-SNP GGT1 2678 hgsc.bcm.edu 37 22 25010746 25010746 + Silent SNP T T C rs4049881 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 269.0 127.0 230.0 0.0 0.472119 0 T|0.970;C|0.030 0.030 strong . GGT1 68 . NM_013430 exon6 c.T168C p.D56D CAGGGATGCACTG . PASS Atlas-SNP AGRN 375790 hgsc.bcm.edu 37 1 978804 978804 + Missense_Mutation SNP C C T rs144164397 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 38.0 65.0 0.0 0.5 0 C|0.999;T|0.001 0.001 strong . AGRN 110 . NM_198576 exon8 c.C1570T p.R524W CTCGGGCGGGAGA . PASS Atlas-SNP SEC14L3 266629 hgsc.bcm.edu 37 22 30860831 30860831 + Missense_Mutation SNP G G A rs115090125 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 148.0 75.0 135.0 0.0 0.506757 0 G|0.997;A|0.003 0.003 strong . SEC14L3 46 . NM_174975 exon8 c.C640T p.R214C TCCTGCGAGTGTC . PASS Atlas-SNP PYGM 5837 hgsc.bcm.edu 37 11 64520569 64520569 + Silent SNP G G A rs11231865 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 221.0 121.0 200.0 1.0 0.547511 0.005 G|0.963;A|0.037 0.037 strong . PYGM 77 . NM_005609 exon12 c.C1494T p.P498P CAGCCCGGGGTTA . PASS Atlas-SNP GRIN3A 116443 hgsc.bcm.edu 37 9 104432462 104432462 + Silent SNP A A G rs200841145 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 79.0 48.0 96.0 0.0 0.607595 0 A|1.000;G|0.000 0.000 strong . GRIN3A 186 . NM_133445 exon3 c.T2232C p.F744F CATTAGAAACCTT . PASS Atlas-SNP CXorf65 158830 hgsc.bcm.edu 37 X 70325881 70325881 + Silent SNP G G A rs138762266 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 174.0 77.0 200.0 0.0 0.442529 0 G|0.996;A|0.004 0.004 strong . CXorf65 23 . NM_001025265 exon3 c.C219T p.Y73Y AACGTAGTAGGTG . PASS Atlas-SNP CYB5B 80777 hgsc.bcm.edu 37 16 69458746 69458746 + Missense_Mutation SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 89.0 4.0 67.0 0.0 0.0449438 0 . . none . CYB5B 12 . NM_030579 exon1 c.C160T p.R54C GTCACCCGCTTCC . PASS Atlas-SNP SHROOM2 357 hgsc.bcm.edu 37 X 9863929 9863929 + Missense_Mutation SNP G G A rs146519576 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 138.0 63.0 106.0 0.0 0.456522 0 G|0.998;A|0.002 0.002 strong . SHROOM2 139 . NM_001649 exon4 c.G1981A p.G661S GGCACCGGCCGCT . PASS Atlas-SNP MGAM 8972 hgsc.bcm.edu 37 7 141754629 141754629 + Missense_Mutation SNP G G C rs145885349 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 191.0 94.0 169.0 0.0 0.492147 0 G|0.997;C|0.003 0.003 strong MGAM_ENST00000549489,caecum,carcinoma,-2,3 MGAM 767 3 NM_004668 exon27 c.G3235C p.E1079Q ACCCCTGAGGGTC . PASS Atlas-SNP TMEM66 51669 hgsc.bcm.edu 37 8 29927182 29927182 + Missense_Mutation SNP G G A rs34416759 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 159.0 64.0 126.0 0.0 0.402516 0 G|0.990;A|0.010 0.010 strong . TMEM66 23 . NM_016127 exon3 c.C676T p.P226S AGCCTGGGGGAGG . PASS Atlas-SNP ACTG2 72 hgsc.bcm.edu 37 2 74140616 74140616 + Silent SNP C C T rs34286914 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 137.0 66.0 144.0 0.0 0.481752 0 C|0.976;T|0.024 0.024 strong . ACTG2 37 . NM_001615 exon6 c.C456T p.I152I AGGCATCGTCCTG . PASS Atlas-SNP AGFG2 3268 hgsc.bcm.edu 37 7 100151719 100151719 + Missense_Mutation SNP G G A rs61742738 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 86.0 43.0 83.0 0.0 0.5 0 G|0.959;A|0.041 0.041 strong . AGFG2 44 . NM_006076 exon5 c.G589A p.V197I AAGCCCGTCAGTC . PASS Atlas-SNP PTX4 390667 hgsc.bcm.edu 37 16 1536140 1536140 + Missense_Mutation SNP C C T rs79505704 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 75.0 40.0 65.0 0.0 0.533333 0 C|0.987;T|0.013 0.013 strong . PTX4 46 . NM_001013658 exon3 c.G1222A p.G408R CGAATCCGCCCCC . PASS Atlas-SNP IFNAR1 3454 hgsc.bcm.edu 37 21 34721782 34721782 + Missense_Mutation SNP C C T rs17875834 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 106.0 49.0 117.0 0.0 0.462264 0 C|0.930;T|0.070 0.070 strong IFNAR1,caecum,carcinoma,0,1 IFNAR1 44 1 NM_000629 exon8 c.C1076T p.T359M GAAACACGCCTGT . PASS Atlas-SNP SSPO 23145 hgsc.bcm.edu 37 7 149488909 149488909 + Silent SNP C C T rs893600 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 159.0 77.0 188.0 0.0 0.484277 0 C|0.979;T|0.021 0.021 strong . . . . NM_198455 exon35 c.C5250T p.D1750D AGTGGACGGTGAA . PASS Atlas-SNP WWC3 55841 hgsc.bcm.edu 37 X 10085227 10085227 + Silent SNP T T C rs7058143 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 123.0 51.0 106.0 0.0 0.414634 0 0|0.004;C|0.221 0.221 strong . WWC3 142 . NM_015691 exon11 c.T1128C p.R376R CAGCCGTGGGTCT . PASS Atlas-SNP CTNNBL1 56259 hgsc.bcm.edu 37 20 36396429 36396429 + Missense_Mutation SNP C C G rs186475150 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 199.0 107.0 180.0 0.0 0.537688 0 C|0.995;G|0.005 0.005 strong . CTNNBL1 78 . NM_030877 exon7 c.C733G p.L245V CAGTGGCTGTTGA . PASS Atlas-SNP GJB4 127534 hgsc.bcm.edu 37 1 35227306 35227306 + Missense_Mutation SNP C C A rs78499418 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 75.0 41.0 73.0 0.0 0.546667 0 C|0.966;A|0.034 0.034 strong . GJB4 51 . NM_153212 exon2 c.C451A p.R151S TTCCACCGCCTCT . PASS Atlas-SNP ALKBH4 54784 hgsc.bcm.edu 37 7 102098035 102098035 + Missense_Mutation SNP G G A rs150409598 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 48.0 28.0 58.0 0.0 0.583333 0 G|0.996;A|0.004 0.004 strong . ALKBH4 21 . NM_017621 exon3 c.C715T p.R239C GGGAGCGGGCGGG . PASS Atlas-SNP FBXO34 55030 hgsc.bcm.edu 37 14 55818162 55818162 + Missense_Mutation SNP C C T rs74050979 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 207.0 90.0 195.0 0.0 0.434783 0 C|0.979;T|0.021 0.021 strong . FBXO34 61 . NM_017943 exon2 c.C1054T p.P352S TGTGGCCCTTCAA . PASS Atlas-SNP CYP4F12 66002 hgsc.bcm.edu 37 19 15794463 15794463 + Missense_Mutation SNP G G C rs57578760 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 154.0 44.0 103.0 0.0 0.285714 0 G|0.973;C|0.027 0.027 strong . CYP4F12 89 . NM_023944 exon7 c.G808C p.V270L GACGCTGTCATCC . PASS Atlas-SNP AHNAK2 113146 hgsc.bcm.edu 37 14 105417731 105417731 + Missense_Mutation SNP G G C rs199870471 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 261.0 108.0 364.0 0.0 0.413793 0 . . weak . AHNAK2 719 . NM_138420 exon7 c.C4057G p.L1353V CAGACAGGTCCAC . PASS Atlas-SNP VPS9D1 9605 hgsc.bcm.edu 37 16 89778919 89778919 + Silent SNP T T C rs139626173 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 38.0 27.0 42.0 0.0 0.710526 0 T|0.989;C|0.011 0.011 strong . . . . NM_004913 exon6 c.A555G p.L185L CCGCTGTAGAGAG . PASS Atlas-SNP ITPR2 3709 hgsc.bcm.edu 37 12 26816779 26816779 + Missense_Mutation SNP C C T rs77639758 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 74.0 38.0 68.0 0.0 0.513514 0 C|0.998;T|0.002 0.002 strong . ITPR2 270 . NM_002223 exon15 c.G1552A p.V518I CAAATACCTATCA . PASS Atlas-SNP KRTAP4-7 100132476 hgsc.bcm.edu 37 17 39240577 39240577 + Missense_Mutation SNP A A G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 135.0 16.0 106.0 0.0 0.118519 0 . . none . KRTAP4-7 49 . NM_033061 exon1 c.A119G p.Y40C CCTGCTACCGCCC . PASS Atlas-SNP HRCT1 646962 hgsc.bcm.edu 37 9 35906601 35906601 + Missense_Mutation SNP C C A rs112212538 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 36.0 22.0 37.0 0.0 0.611111 0 C|0.846;A|0.154 0.154 strong . HRCT1 14 . NM_001039792 exon1 c.C317A p.P106H ACCACCCCCACCG . PASS Atlas-SNP YY1AP1 55249 hgsc.bcm.edu 37 1 155629982 155629982 + Missense_Mutation SNP C C T rs145852062 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 320.0 162.0 291.0 1.0 0.50625 0.00343643 C|0.981;T|0.019 0.019 strong . YY1AP1 104 . NM_001198903 exon10 c.G2133A p.M711I CTGGATCATGTTA . PASS Atlas-SNP LILRA6 79168 hgsc.bcm.edu 37 19 54744771 54744771 + Silent SNP A A G rs394983 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 471.0 124.0 380.0 1.0 0.26327 0.00263158 A|0.570;G|0.430 0.430 strong . LILRA6 75 . NM_024318 exon5 c.T891C p.Y297Y TGCACCATAGCAC . PASS Atlas-SNP MRS2 57380 hgsc.bcm.edu 37 6 24418749 24418749 + Silent SNP G G A rs141564147 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 261.0 118.0 278.0 0.0 0.452107 0 G|0.996;A|0.004 0.004 strong . MRS2 31 . NM_020662 exon9 c.G1050A p.S350S TCTTTCGCTCTTT . PASS Atlas-SNP SRCAP 10847 hgsc.bcm.edu 37 16 30748715 30748715 + Missense_Mutation SNP G G A rs144295177 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 149.0 78.0 144.0 0.0 0.52349 0 G|1.000;A|0.000 0.000 weak . SRCAP 298 . NM_006662 exon34 c.G7354A p.A2452T GCTCCGGCTGCAA . PASS Atlas-SNP H6PD 9563 hgsc.bcm.edu 37 1 9322194 9322194 + Silent SNP C C T rs145706807 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 213.0 126.0 195.0 0.0 0.591549 0 C|0.999;T|0.001 0.001 strong . H6PD 71 . NM_004285 exon4 c.C822T p.L274L CACCCTCGTGGCC . PASS Atlas-SNP RAB3D 9545 hgsc.bcm.edu 37 19 11436221 11436221 + Silent SNP A A G rs12981706 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 48.0 16.0 46.0 0.0 0.333333 0 A|0.939;G|0.061;T|0.000 0.061 strong . RAB3D 24 . NM_004283 exon5 c.T513C p.N171N CTTCACATTGATG . PASS Atlas-SNP CXCR5 643 hgsc.bcm.edu 37 11 118764382 118764382 + Silent SNP G G T rs2230319 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 114.0 67.0 97.0 0.0 0.587719 0 G|0.952;T|0.048 0.048 strong . CXCR5 34 . NM_001716 exon2 c.G129T p.G43G AGAGGGGCCCCTC . PASS Atlas-SNP NOLC1 9221 hgsc.bcm.edu 37 10 103920255 103920255 + Silent SNP T T A rs145855726 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 102.0 51.0 97.0 0.0 0.5 0 T|0.997;A|0.003 0.003 strong . NOLC1 61 . NM_004741 exon10 c.T1146A p.G382G AGCTGGTACCACC . PASS Atlas-SNP OR2H1 26716 hgsc.bcm.edu 37 6 29429732 29429732 + Silent SNP T T C rs61732184 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 303.0 139.0 256.0 0.0 0.458746 0 T|0.964;C|0.036 0.036 strong . OR2H1 38 . NM_030883 exon3 c.T186C p.S62S CCTCTCTGACCTC . PASS Atlas-SNP NDOR1 27158 hgsc.bcm.edu 37 9 140108468 140108468 + Silent SNP C C T rs114934623 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 69.0 15.0 36.0 0.0 0.217391 0 C|0.994;T|0.006 0.006 strong . NDOR1 71 . NM_001144026 exon5 c.C460T p.L154L AGGGTTCTGGGGC . PASS Atlas-SNP HOXC10 3226 hgsc.bcm.edu 37 12 54379610 54379610 + Silent SNP G G C rs145093077 alternate_allele TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 106.0 49.0 72.0 0.0 0.462264 0 G|1.000;A|0.000 . alt . HOXC10 42 . NM_017409 exon1 c.G567C p.S189S GGAATCGCCTCAG . PASS Atlas-SNP ABCB5 340273 hgsc.bcm.edu 37 7 20766752 20766752 + Missense_Mutation SNP G G T rs35885925 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 50.0 27.0 76.0 0.0 0.54 0 G|0.979;T|0.021 0.021 strong . ABCB5 357 . NM_001163941 exon22 c.G2715T p.Q905H GCTTCAGACTCAA . PASS Atlas-SNP SUN1 23353 hgsc.bcm.edu 37 7 878583 878583 + Missense_Mutation SNP G G T rs114826023 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 38.0 16.0 39.0 0.0 0.421053 0 G|0.997;T|0.003 0.003 strong . SUN1 157 . NM_001171945 exon4 c.G289T p.G97C GACAGCGGCACCA . PASS Atlas-SNP FOXA2 3170 hgsc.bcm.edu 37 20 22563134 22563134 + Missense_Mutation SNP A A G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 110.0 38.0 107.0 0.0 0.345455 0 . . none . FOXA2 48 . NM_021784 exon2 c.T746C p.F249S TTCTCGAACATGT . PASS Atlas-SNP FAM160A1 729830 hgsc.bcm.edu 37 4 152571711 152571711 + Missense_Mutation SNP C C T rs77993711 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 113.0 55.0 126.0 0.0 0.486726 0 C|0.995;T|0.005 0.005 strong . FAM160A1 60 . NM_001109977 exon11 c.C2518T p.H840Y AGTCGCCATCCCG . PASS Atlas-SNP HUNK 30811 hgsc.bcm.edu 37 21 33371442 33371442 + Missense_Mutation SNP T T C rs150499320 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 128.0 55.0 123.0 0.0 0.429688 0 T|0.999;C|0.001 0.001 strong . HUNK 74 . NM_014586 exon11 c.T2090C p.L697P AGCCCCTAGCCCC . PASS Atlas-SNP MUC17 140453 hgsc.bcm.edu 37 7 100682831 100682831 + Missense_Mutation SNP C C G rs34223735 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 146.0 9.0 120.0 0.0 0.0616438 0 . . weak . MUC17 804 . NM_001040105 exon3 c.C8134G p.L2712V AGCACCCTTTCAA . PASS Atlas-SNP OR2AE1 81392 hgsc.bcm.edu 37 7 99473801 99473801 + Missense_Mutation SNP A A G rs73403577 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 150.0 74.0 169.0 0.0 0.493333 0 A|0.933;G|0.067 0.067 strong OR2AE1,rectum,carcinoma,+1,1 OR2AE1 32 1 NM_001005276 exon1 c.T856C p.S286P TCAGAGAATTCAA . PASS Atlas-SNP FOXD4 2298 hgsc.bcm.edu 37 9 117637 117637 + Silent SNP G G A rs138098441 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 228.0 115.0 219.0 0.0 0.504386 0 G|0.974;A|0.026 0.026 strong . FOXD4 75 . NM_207305 exon1 c.C483T p.C161C GACGAAGCAGTCG . PASS Atlas-SNP IFLTD1 160492 hgsc.bcm.edu 37 12 25671871 25671871 + Silent SNP A A G rs34028410 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 151.0 79.0 117.0 0.0 0.523179 0 A|0.980;G|0.020 0.020 strong . IFLTD1 121 . NM_001145728 exon8 c.T1047C p.P349P GCGATTAGGGAAA . PASS Atlas-SNP DNAH3 55567 hgsc.bcm.edu 37 16 20996868 20996868 + Missense_Mutation SNP A A T rs34179606 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 66.0 35.0 79.0 0.0 0.530303 0 A|0.989;T|0.011 0.011 strong . DNAH3 1142 . NM_017539 exon48 c.T7196A p.I2399N TTGCTGATGTTGT . PASS Atlas-SNP TTC21B 79809 hgsc.bcm.edu 37 2 166781188 166781188 + Missense_Mutation SNP G G A rs16851307 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 115.0 44.0 121.0 0.0 0.382609 0 G|0.983;A|0.017 0.017 strong . TTC21B 130 . NM_024753 exon12 c.C1387T p.P463S TTGCAGGCTAAAC . PASS Atlas-SNP LYSMD1 388695 hgsc.bcm.edu 37 1 151138250 151138250 + Missense_Mutation SNP G G T rs113805704 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 98.0 52.0 121.0 0.0 0.530612 0 G|0.994;T|0.006 0.006 strong . LYSMD1 23 . NM_001136543 exon1 c.C9A p.S3R AGGTCCGCTCCGC . PASS Atlas-SNP OR6K2 81448 hgsc.bcm.edu 37 1 158669980 158669980 + Missense_Mutation SNP G G A rs111363268 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 85.0 42.0 73.0 0.0 0.494118 0 G|0.977;A|0.023 0.023 strong OR6K2,right_upper_lobe,carcinoma,+2,1 OR6K2 104 1 NM_001005279 exon1 c.C463T p.P155S GAAGGGGTGTGAT . PASS Atlas-SNP AKAP1 8165 hgsc.bcm.edu 37 17 55183726 55183726 + Missense_Mutation SNP G G A rs61731968 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 114.0 49.0 112.0 0.0 0.429825 0 G|0.927;A|0.073 0.073 strong . AKAP1 73 . NM_001242902 exon3 c.G901A p.E301K GGTGTCGAGGGAG . PASS Atlas-SNP MAN2B2 23324 hgsc.bcm.edu 37 4 6611560 6611560 + Missense_Mutation SNP G G A rs61733399 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 55.0 103.0 0.0 0.55 0 G|0.981;A|0.019 0.019 strong . MAN2B2 80 . NM_015274 exon13 c.G2042A p.R681H CAATCCGCTCCCG . PASS Atlas-SNP PTP4A1 7803 hgsc.bcm.edu 37 6 64289996 64289996 + Silent SNP C C T rs1681943 bycluster;byfrequency;by2hit2allele;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 42.0 23.0 45.0 0.0 0.547619 0 C|0.980;T|0.020 0.020 strong . PTP4A1 13 . NM_003463 exon6 c.C439T p.L147L CAACTTCTGTATT . PASS Atlas-SNP ARL4D 379 hgsc.bcm.edu 37 17 41477670 41477670 + Silent SNP G G A rs61749921 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 49.0 28.0 67.0 0.0 0.571429 0 G|0.979;A|0.021 0.021 strong . ARL4D 16 . NM_001661 exon2 c.G570A p.R190R CAAGAGGAAGAAG . PASS Atlas-SNP CEP192 55125 hgsc.bcm.edu 37 18 13068191 13068191 + Silent SNP C C A rs143595675 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 110.0 55.0 76.0 0.0 0.5 0 C|0.996;A|0.004 0.004 strong . CEP192 340 . NM_032142 exon23 c.C4713A p.G1571G AGCAGGCCCTTCT . PASS Atlas-SNP KRTAP10-4 386672 hgsc.bcm.edu 37 21 45994763 45994763 + Silent SNP C C T rs115169164 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 104.0 52.0 127.0 0.0 0.5 0 C|0.980;T|0.020 0.020 strong . KRTAP10-4 44 . NM_198687 exon1 c.C1128T p.P376P CGTGCCCGTCCCT . PASS Atlas-SNP ND5 0 hgsc.bcm.edu 37 MT 13506 13506 + Silent SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 8.0 8.0 20.0 0.0 1 0 . . none . . . . ENST00000361567 exon1 c.C1170T p.Y390Y TTTCTACTCCAAA . PASS Atlas-SNP STK38L 23012 hgsc.bcm.edu 37 12 27450671 27450671 + Silent SNP G G T rs56140810 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 68.0 32.0 56.0 0.0 0.470588 0 G|0.972;T|0.028 0.028 strong . STK38L 44 . NM_015000 exon2 c.G18T p.G6G GGCAGGGACTACA . PASS Atlas-SNP NOP14 8602 hgsc.bcm.edu 37 4 2955361 2955361 + Missense_Mutation SNP T T G rs111987238 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 115.0 55.0 117.0 0.0 0.478261 0 T|0.995;G|0.005 0.005 strong . NOP14 69 . NM_003703 exon5 c.A624C p.Q208H TTGAGCTTGTCTC . PASS Atlas-SNP ABCB1 5243 hgsc.bcm.edu 37 7 87179256 87179256 + Missense_Mutation SNP G G A rs142600685 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 136.0 57.0 139.0 0.0 0.419118 0 G|0.999;A|0.001 0.001 strong ABCB1,NS,carcinoma,0,2 ABCB1 263 2 NM_000927 exon14 c.C1465T p.R489C CATAGCGAATGTT . PASS Atlas-SNP TATDN2 9797 hgsc.bcm.edu 37 3 10311949 10311949 + Silent SNP T T C rs145595744 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 131.0 80.0 83.0 0.0 0.610687 0 T|0.997;C|0.003 0.003 strong . TATDN2 59 . NM_014760 exon4 c.T1083C p.S361S GCCTTCTTCCTTC . PASS Atlas-SNP FGFR2 2263 hgsc.bcm.edu 37 10 123310871 123310871 + Missense_Mutation SNP A A G rs755793 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 37.0 70.0 0.0 0.397849 0 A|0.878;G|0.122 0.122 strong . FGFR2 758 . NM_022970 exon5 c.T557C p.M186T GTTGGCATTGGGT . PASS Atlas-SNP ZNF658 26149 hgsc.bcm.edu 37 9 40784132 40784132 + Silent SNP A A G rs79131704 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 264.0 93.0 233.0 0.0 0.352273 0 . . weak . ZNF658 100 . NM_033160 exon4 c.T213C p.D71D GAATTCATCTTCT . PASS Atlas-SNP OR6C76 390326 hgsc.bcm.edu 37 12 55820927 55820927 + Missense_Mutation SNP C C T rs73327795 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 54.0 31.0 70.0 0.0 0.574074 0 C|0.983;T|0.017 0.017 strong . OR6C76 98 . NM_001005183 exon1 c.C890T p.A297V AACAAGCATTTAA . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195509559 195509559 + Silent SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 187.0 24.0 261.0 0.0 0.128342 0 . . none MUC4_ENST00000463781,NS,carcinoma,-1,2 MUC4 1505 2 NM_018406 exon2 c.C8892T p.T2964T AGTGTCGGTGACA . PASS Atlas-SNP KIF20B 9585 hgsc.bcm.edu 37 10 91532574 91532574 + Missense_Mutation SNP A A G rs150021584 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 389.0 182.0 407.0 1.0 0.467866 0.002457 A|0.999;G|0.001 0.001 strong . KIF20B 191 . NM_016195 exon32 c.A5251G p.I1751V ATTGATATATCAG . PASS Atlas-SNP KLHDC4 54758 hgsc.bcm.edu 37 16 87743072 87743072 + Missense_Mutation SNP C C T rs61735154 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 62.0 32.0 34.0 0.0 0.516129 0 C|0.978;T|0.022 0.022 strong . KLHDC4 45 . NM_017566 exon10 c.G1246A p.E416K TGTCTTCGTCCTC . PASS Atlas-SNP USH1C 10083 hgsc.bcm.edu 37 11 17531057 17531057 + Missense_Mutation SNP C C A rs139996942 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 124.0 64.0 100.0 1.0 0.516129 0.01 C|0.988;A|0.012 0.012 strong USH1C,NS,carcinoma,-1,2 USH1C 157 2 NM_153676 exon18 c.G1859T p.R620L AGTGGGCGGGTGG . scavenged Atlas-SNP HRNR 388697 hgsc.bcm.edu 37 1 152191116 152191116 + Missense_Mutation SNP C C T rs138107632 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 266.0 124.0 221.0 1.0 0.466165 0.00452489 C|0.985;T|0.015 0.015 strong . HRNR 403 . NM_001009931 exon3 c.G2989A p.G997S GTTGGCCGTGGCC . PASS Atlas-SNP UACA 55075 hgsc.bcm.edu 37 15 70959576 70959576 + Silent SNP C C T rs61746327 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 161.0 68.0 149.0 0.0 0.42236 0 C|0.989;T|0.011 0.011 strong . UACA 235 . NM_018003 exon16 c.G3447A p.V1149V TTTGGTCACTGTC . PASS Atlas-SNP LRIT1 26103 hgsc.bcm.edu 37 10 85993923 85993923 + Silent SNP C C T rs149121025 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 94.0 41.0 59.0 0.0 0.43617 0 C|0.998;T|0.002 0.002 strong LRIT1,NS,haematopoietic_neoplasm,0,1 LRIT1 73 1 NM_015613 exon3 c.G801A p.L267L GCCACCCAAAAGG . PASS Atlas-SNP GDNF 2668 hgsc.bcm.edu 37 5 37835752 37835752 + Silent SNP A A C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 128.0 50.0 141.0 0.0 0.390625 0 . . none . GDNF 56 . NM_001190468 exon1 c.T9G p.S3S AGGCAAAGACTGC . PASS Atlas-SNP MAP2K1 5604 hgsc.bcm.edu 37 15 66779597 66779597 + Silent SNP A A T rs146869577 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 115.0 51.0 133.0 0.0 0.443478 0 A|0.995;T|0.005 0.005 strong . MAP2K1 115 . NM_002755 exon8 c.A927T p.A309A CATGGCAATTTTT . PASS Atlas-SNP TAC3 6866 hgsc.bcm.edu 37 12 57406234 57406234 + Missense_Mutation SNP A A G rs73334764 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 83.0 42.0 77.0 0.0 0.506024 0 A|0.971;G|0.029 0.029 strong . TAC3 11 . NM_013251 exon6 c.T295C p.S99P TAGGAGAGTCTAG . PASS Atlas-SNP ARL14 80117 hgsc.bcm.edu 37 3 160395483 160395483 + Missense_Mutation SNP C C A rs35633732 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 123.0 122.0 118.0 0.0 0.99187 0 C|0.942;A|0.058 0.058 strong . ARL14 16 . NM_025047 exon1 c.C349A p.P117T AATGTGCCTGTTG . PASS Atlas-SNP SLC40A1 30061 hgsc.bcm.edu 37 2 190437572 190437572 + Silent SNP G G A rs11568344 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 196.0 98.0 186.0 0.0 0.5 0 G|0.960;A|0.040 0.040 strong . SLC40A1 51 . NM_014585 exon4 c.C387T p.L129L ACTTACGAGAACC . PASS Atlas-SNP TLL2 7093 hgsc.bcm.edu 37 10 98240156 98240156 + Missense_Mutation SNP T T A rs61738802 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 256.0 118.0 250.0 0.0 0.460938 0 T|0.986;A|0.014 0.014 strong . TLL2 122 . NM_012465 exon2 c.A236T p.K79I CTGGCTTTGTCAA . PASS Atlas-SNP NDUFS4 4724 hgsc.bcm.edu 37 5 52856572 52856572 + Missense_Mutation SNP T T A rs145347909 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 80.0 39.0 63.0 0.0 0.4875 0 T|0.999;A|0.001 0.001 strong . NDUFS4 17 . NM_002495 exon1 c.T80A p.V27D TTTCCGTTTCCAG . PASS Atlas-SNP SIDT2 51092 hgsc.bcm.edu 37 11 117062989 117062989 + Missense_Mutation SNP C C T rs12285035 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 93.0 98.0 0.0 1 0 C|0.978;T|0.022 0.022 strong . SIDT2 82 . NM_001040455 exon20 c.C1892T p.T631M GGAACACGGCGTT . PASS Atlas-SNP VWDE 221806 hgsc.bcm.edu 37 7 12409209 12409209 + Missense_Mutation SNP G G A rs77088407 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 161.0 81.0 178.0 0.0 0.503106 0 G|0.985;A|0.015 0.015 strong . VWDE 123 . NM_001135924 exon12 c.C2723T p.S908F CTTGGGGAACACG . PASS Atlas-SNP CLEC4A 50856 hgsc.bcm.edu 37 12 8290881 8290881 + Missense_Mutation SNP T T C rs74810750 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 162.0 72.0 127.0 0.0 0.444444 0 T|0.994;C|0.006 0.006 strong . CLEC4A 28 . NM_016184 exon6 c.T712C p.X238R CACTTATGAACTG . PASS Atlas-SNP CACNA1A 773 hgsc.bcm.edu 37 19 13323261 13323261 + Silent SNP C C T rs7249722 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 109.0 49.0 106.0 0.0 0.449541 0 C|0.996;T|0.004 0.004 strong . CACNA1A 715 . NM_001127221 exon42 c.G6129A p.T2043T TGTGCCCGTCTTC . PASS Atlas-SNP APOBEC3C 27350 hgsc.bcm.edu 37 22 39413957 39413957 + Missense_Mutation SNP G G A rs141108460 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 276.0 114.0 281.0 0.0 0.413043 0 G|1.000;A|0.000 0.000 weak . APOBEC3C 21 . NM_014508 exon3 c.G361A p.A121T TTCACCGCCCGCC . PASS Atlas-SNP SIGLEC9 27180 hgsc.bcm.edu 37 19 51628395 51628395 + Missense_Mutation SNP C C T rs144549146 byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 227.0 108.0 210.0 0.0 0.475771 0 C|1.000;T|0.000 0.000 strong . SIGLEC9 85 . NM_001198558 exon1 c.C164T p.P55L CTGGCCCAGTAGT . PASS Atlas-SNP SEC24D 9871 hgsc.bcm.edu 37 4 119659518 119659518 + Silent SNP G G A rs1128403 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 178.0 75.0 170.0 0.0 0.421348 0 G|0.956;A|0.044 0.044 strong . SEC24D 96 . NM_014822 exon19 c.C2394T p.L798L CTGGTGGAGAACT . PASS Atlas-SNP FAM194A 131831 hgsc.bcm.edu 37 3 150391789 150391789 + Missense_Mutation SNP C C T rs11919896 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 62.0 30.0 78.0 0.0 0.483871 0 C|0.970;T|0.030 0.030 strong . FAM194A 91 . NM_152394 exon11 c.G1297A p.G433R TGCTCCCATGTTT . PASS Atlas-SNP MCEE 84693 hgsc.bcm.edu 37 2 71351641 71351641 + Missense_Mutation SNP T T C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 51.0 25.0 55.0 0.0 0.490196 0 . . none . MCEE 19 . NM_032601 exon2 c.A73G p.T25A TTACTGTTGGAAT . PASS Atlas-SNP DYX1C1 161582 hgsc.bcm.edu 37 15 55790053 55790053 + Missense_Mutation SNP T T C rs61733359 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 37.0 19.0 50.0 0.0 0.513514 0 T|0.995;C|0.005 0.005 strong . DYX1C1 54 . NM_001033560 exon3 c.A128G p.N43S GGAAAGTTGACCT . PASS Atlas-SNP TTC21A 199223 hgsc.bcm.edu 37 3 39166887 39166887 + Missense_Mutation SNP C C T rs74824603 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 130.0 61.0 129.0 0.0 0.469231 0 A|0.004;C|0.994;T|0.001 0.001 strong . TTC21A 96 . NM_145755 exon11 c.C1280T p.A427V CCACAGCGCTCCT . PASS Atlas-SNP PDE11A 50940 hgsc.bcm.edu 37 2 178592452 178592452 + Silent SNP C C A rs77341035 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 112.0 54.0 105.0 0.0 0.482143 0 C|0.989;A|0.011 0.011 strong . PDE11A 283 . NM_016953 exon12 c.G1977T p.R659R AACCATCCGATAG . PASS Atlas-SNP SIPA1L2 57568 hgsc.bcm.edu 37 1 232575051 232575051 + Silent SNP G G A rs189356281 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 123.0 61.0 106.0 1.0 0.495935 0.00943396 G|0.996;A|0.004 0.004 strong SIPA1L2,colon,carcinoma,-2,1 SIPA1L2 218 1 NM_020808 exon13 c.C3834T p.L1278L AGGGCCGAGGATG . scavenged Atlas-SNP PCDHA9 9752 hgsc.bcm.edu 37 5 140229581 140229581 + Missense_Mutation SNP G G C rs59056023 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 346.0 173.0 300.0 1.0 0.5 0.00333333 G|0.939;C|0.061 0.061 strong . PCDHA9 373 . NM_031857 exon1 c.G1501C p.E501Q TTGGGCGAGCGCT . PASS Atlas-SNP TSGA10 80705 hgsc.bcm.edu 37 2 99722135 99722135 + Missense_Mutation SNP C C T rs146207401 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 66.0 30.0 73.0 0.0 0.454545 0 C|0.999;T|0.001 0.001 strong . TSGA10 81 . NM_182911 exon7 c.G236A p.R79Q TCTCGTCGAAGTC . PASS Atlas-SNP HEPHL1 341208 hgsc.bcm.edu 37 11 93844722 93844722 + Silent SNP C C T rs76467816 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 194.0 193.0 205.0 0.0 0.994845 0 C|0.979;T|0.021 0.021 strong . HEPHL1 144 . NM_001098672 exon19 c.C3228T p.S1076S TTACTCCACCACA . PASS Atlas-SNP LEFTY1 10637 hgsc.bcm.edu 37 1 226074635 226074635 + Missense_Mutation SNP C C T rs61739581 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 285.0 134.0 293.0 0.0 0.470175 0 C|0.939;T|0.061 0.061 strong . LEFTY1 30 . NM_020997 exon4 c.G893A p.R298Q GGCTGCCGGCAGG . PASS Atlas-SNP RBPJL 11317 hgsc.bcm.edu 37 20 43945377 43945377 + Missense_Mutation SNP C C A rs35220957 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 39.0 25.0 45.0 0.0 0.641026 0 C|0.988;A|0.012 0.012 strong . RBPJL 67 . NM_014276 exon12 c.C1332A p.S444R CTGCAGCGACTGG . PASS Atlas-SNP ZNF213 7760 hgsc.bcm.edu 37 16 3190767 3190767 + Missense_Mutation SNP G G A rs143851164 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 33.0 20.0 33.0 0.0 0.606061 0 G|1.000;A|0.000 0.000 weak . ZNF213 36 . NM_004220 exon6 c.G799A p.D267N GGCAGCGACGTGA . PASS Atlas-SNP BCL9L 283149 hgsc.bcm.edu 37 11 118773204 118773204 + Silent SNP G G A rs7119065 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 30.0 19.0 21.0 0.0 0.633333 0 G|0.949;A|0.051 0.051 strong BCL9L_ENST00000392849,right_upper_lobe,carcinoma,-1,2 BCL9L 254 2 NM_182557 exon6 c.C1248T p.D416D CTCAATGTCTCGC . PASS Atlas-SNP SSPO 23145 hgsc.bcm.edu 37 7 149481205 149481205 + Missense_Mutation SNP T T C rs73727609 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 65.0 28.0 55.0 0.0 0.430769 0 T|0.986;C|0.014 0.014 strong . . . . NM_198455 exon18 c.T2687C p.M896T CCACCATGAAGGA . PASS Atlas-SNP USP11 8237 hgsc.bcm.edu 37 X 47107038 47107038 + Silent SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 240.0 111.0 256.0 0.0 0.4625 0 . . none . USP11 93 . NM_004651 exon20 c.C2694T p.S898S GGACAGCGGCCAG . PASS Atlas-SNP DSEL 92126 hgsc.bcm.edu 37 18 65180706 65180706 + Silent SNP T T C rs9959648 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 68.0 68.0 67.0 0.0 1 0 T|0.949;C|0.051 0.051 strong . DSEL 196 . NM_032160 exon2 c.A1170G p.Q390Q CCACCTTTGGGCA . PASS Atlas-SNP FASTKD1 79675 hgsc.bcm.edu 37 2 170413700 170413700 + Missense_Mutation SNP T T C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 83.0 46.0 107.0 0.0 0.554217 0 . . none . FASTKD1 86 . NM_024622 exon6 c.A1079G p.K360R TACCTTTTAATCA . PASS Atlas-SNP VWF 7450 hgsc.bcm.edu 37 12 6103072 6103072 + Missense_Mutation SNP C C T rs2229446 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 48.0 23.0 72.0 0.0 0.479167 0 C|0.939;T|0.061 0.061 strong VWF,rectum,carcinoma,-1,1 VWF 338 1 NM_000552 exon37 c.G6554A p.R2185Q TTGGTCCGACAGA . PASS Atlas-SNP TNFAIP3 7128 hgsc.bcm.edu 37 6 138196066 138196066 + Missense_Mutation SNP T T G rs2230926 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 180.0 94.0 164.0 0.0 0.522222 0 T|0.857;G|0.143 0.143 strong TNFAIP3,eye,lymphoid_neoplasm,0,1 TNFAIP3 340 1 NM_001270507 exon3 c.T380G p.F127C CGCTGTTCAGCAC . PASS Atlas-SNP PCDH12 51294 hgsc.bcm.edu 37 5 141336858 141336858 + Missense_Mutation SNP C C T rs140883612 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 225.0 106.0 220.0 0.0 0.471111 0 C|0.991;T|0.009 0.009 strong . PCDH12 133 . NM_016580 exon1 c.G559A p.G187S CAGGGCCCACAAT . PASS Atlas-SNP CBLC 23624 hgsc.bcm.edu 37 19 45285734 45285734 + Silent SNP G G A rs10416628 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 119.0 62.0 118.0 0.0 0.521008 0 G|0.958;A|0.042 0.042 strong . CBLC 41 . NM_001130852 exon4 c.G765A p.R255R CTGCAGGGACAAG . PASS Atlas-SNP BRD7 29117 hgsc.bcm.edu 37 16 50368626 50368626 + Missense_Mutation SNP T T C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 84.0 8.0 71.0 0.0 0.0952381 0 . . none . BRD7 61 . NM_013263 exon7 c.A883G p.K295E ACTTTTTATTTTC . PASS Atlas-SNP KRTAP4-8 728224 hgsc.bcm.edu 37 17 39253931 39253931 + Missense_Mutation SNP G G A rs150613353 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 123.0 54.0 84.0 0.0 0.439024 0 G|0.966;A|0.034 0.034 strong . KRTAP4-8 57 . NM_031960 exon1 c.C406T p.R136C AGGGGCGGCAGCA . PASS Atlas-SNP ERN2 10595 hgsc.bcm.edu 37 16 23721865 23721865 + Missense_Mutation SNP C C T rs9932495 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 99.0 51.0 156.0 0.0 0.515152 0 C|0.981;T|0.019 0.019 strong . ERN2 131 . NM_033266 exon3 c.G349A p.V117I CGATGACGGGATC . PASS Atlas-SNP GPATCH1 55094 hgsc.bcm.edu 37 19 33587298 33587298 + Silent SNP C C T rs114017497 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 152.0 73.0 167.0 0.0 0.480263 0 C|0.991;T|0.009 0.009 strong . GPATCH1 79 . NM_018025 exon7 c.C798T p.G266G AGCTGGCGATCTT . PASS Atlas-SNP RYR3 6263 hgsc.bcm.edu 37 15 34111969 34111969 + Silent SNP C C T rs58745096 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 174.0 87.0 168.0 0.0 0.5 0 C|0.984;T|0.016 0.016 strong RYR3,NS,carcinoma,0,1 RYR3 760 1 NM_001036 exon77 c.C10719T p.D3573D GGAAGACGACCCT . PASS Atlas-SNP KRTAP19-6 337973 hgsc.bcm.edu 37 21 31914013 31914013 + Missense_Mutation SNP G G A rs115563631 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 94.0 42.0 94.0 0.0 0.446809 0 G|0.985;A|0.015 0.015 strong . KRTAP19-6 16 . NM_181612 exon1 c.C140T p.S47L CGGCATGATGGGC . PASS Atlas-SNP DOCK7 85440 hgsc.bcm.edu 37 1 63119442 63119442 + Missense_Mutation SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 149.0 45.0 129.0 0.0 0.302013 0 . . none . DOCK7 184 . NM_001271999 exon4 c.G343A p.D115N TACAGTCTCTAAC . PASS Atlas-SNP TRRAP 8295 hgsc.bcm.edu 37 7 98558922 98558922 + Silent SNP G G A rs34983214 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 94.0 46.0 81.0 0.0 0.489362 0 G|0.993;A|0.007 0.007 strong . TRRAP 863 . NM_001244580 exon45 c.G6507A p.T2169T CTGCACGGGCCTA . PASS Atlas-SNP GFRA4 64096 hgsc.bcm.edu 37 20 3640568 3640568 + Silent SNP C C T rs74740423 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 41.0 23.0 37.0 0.0 0.560976 0 C|0.968;T|0.032 0.032 strong . GFRA4 10 . NM_145762 exon5 c.G888A p.P296P CAGGGCCGGGAGA . PASS Atlas-SNP ACOT1 641371 hgsc.bcm.edu 37 14 74009937 74009937 + Missense_Mutation SNP A A G rs377598014 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 906.0 319.0 659.0 0.0 0.352097 0 . . weak . ACOT1 12 . NM_001037161 exon3 c.A844G p.I282V AATCGCATCAAGG . PASS Atlas-SNP BTNL2 56244 hgsc.bcm.edu 37 6 32370859 32370859 + Missense_Mutation SNP C C T rs9461742 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 194.0 92.0 168.0 0.0 0.474227 0 C|0.992;T|0.008 0.008 strong . BTNL2 50 . NM_019602 exon3 c.G562A p.V188M CAGACACGGCCAG . PASS Atlas-SNP C3 718 hgsc.bcm.edu 37 19 6711070 6711070 + Missense_Mutation SNP C C G rs11569422 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 184.0 90.0 177.0 0.0 0.48913 0 C|0.980;G|0.020 0.020 strong . C3 192 . NM_000064 exon12 c.G1407C p.E469D GAGGGTCTCCCCG . PASS Atlas-SNP MPZL2 10205 hgsc.bcm.edu 37 11 118133334 118133334 + Silent SNP T T C rs17122002 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 120.0 70.0 167.0 0.0 0.583333 0 T|0.954;C|0.046 0.046 strong . MPZL2 20 . NM_005797 exon3 c.A255G p.Q85Q CATGGGTTGGAAG . PASS Atlas-SNP WAS 7454 hgsc.bcm.edu 37 X 48546837 48546837 + Missense_Mutation SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 255.0 68.0 238.0 0.0 0.266667 0 . . none . WAS 51 . NM_000377 exon9 c.G926A p.R309H TGAGGCGCCAGGG . PASS Atlas-SNP CYP27A1 1593 hgsc.bcm.edu 37 2 219674482 219674482 + Silent SNP G G A rs692003 bycluster;byfrequency;bysubmitter;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 73.0 32.0 82.0 0.0 0.438356 0 G|0.935;A|0.065 0.065 strong . CYP27A1 52 . NM_000784 exon2 c.G438A p.P146P TGGGCCGTTCACC . PASS Atlas-SNP HSD3B1 3283 hgsc.bcm.edu 37 1 120057163 120057163 + Silent SNP G G A rs33913717 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 250.0 127.0 233.0 0.0 0.508 0 G|0.990;A|0.010 0.010 strong HSD3B1,caecum,carcinoma,+1,1 HSD3B1 53 1 NM_000862 exon4 c.G1017A p.A339A TCTGGCGTATAAG . PASS Atlas-SNP CD1E 913 hgsc.bcm.edu 37 1 158325819 158325819 + Silent SNP G G A rs61734678 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 249.0 114.0 219.0 0.0 0.457831 0 G|0.988;A|0.012 0.012 strong CD1E,colon,carcinoma,+1,2 CD1E 129 2 NM_030893 exon4 c.G828A p.A276A TGTGGCGGCTGGG . PASS Atlas-SNP OBSCN 84033 hgsc.bcm.edu 37 1 228547691 228547691 + Silent SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 164.0 83.0 128.0 0.0 0.506098 0 . . none . OBSCN 2142 . NM_052843 exon81 c.C19098T p.P6366P GACCCCCGGAGGG . PASS Atlas-SNP ABCA8 10351 hgsc.bcm.edu 37 17 66928460 66928460 + Missense_Mutation SNP T T C rs16973446 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 91.0 40.0 76.0 0.0 0.43956 0 T|0.915;C|0.085 0.085 strong . ABCA8 213 . NM_007168 exon6 c.A766G p.T256A TCATTGTCATCAA . PASS Atlas-SNP PLA2G4F 255189 hgsc.bcm.edu 37 15 42438380 42438380 + Silent SNP G G A rs80108792 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 90.0 47.0 109.0 0.0 0.522222 0 G|0.988;A|0.012 0.012 strong . PLA2G4F 75 . NM_213600 exon14 c.C1479T p.Y493Y AATGGGGTAAGGG . PASS Atlas-SNP CLRN2 645104 hgsc.bcm.edu 37 4 17517141 17517141 + Silent SNP G G A rs201838208 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 148.0 80.0 164.0 0.0 0.540541 0 . . weak . CLRN2 40 . NM_001079827 exon1 c.G252A p.T84T ATTCACGAGTGAG . PASS Atlas-SNP MDC1 9656 hgsc.bcm.edu 37 6 30673013 30673013 + Missense_Mutation SNP A A G rs61733213 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 363.0 186.0 322.0 1.0 0.512397 0.00310559 A|0.958;G|0.042 0.042 strong . MDC1 218 . NM_014641 exon10 c.T3947C p.M1316T GAGGACATATTTG . PASS Atlas-SNP PTPN23 25930 hgsc.bcm.edu 37 3 47454398 47454398 + Missense_Mutation SNP C C T rs140165828 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 247.0 116.0 237.0 0.0 0.469636 0 C|0.998;T|0.002 0.002 strong PTPN23,NS,carcinoma,-1,1 PTPN23 85 1 NM_015466 exon25 c.C4634T p.P1545L CCTCCCCGCCCCC . PASS Atlas-SNP CHST12 55501 hgsc.bcm.edu 37 7 2472662 2472662 + Missense_Mutation SNP G G C rs11537796 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 21.0 10.0 17.0 0.0 0.47619 0 G|0.970;C|0.030 0.030 strong . CHST12 39 . NM_018641 exon2 c.G388C p.G130R CTGCGGGGCTTCT . PASS Atlas-SNP XCL1 6375 hgsc.bcm.edu 37 1 168549321 168549321 + Missense_Mutation SNP G G C rs56148248 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 161.0 68.0 281.0 0.0 0.42236 0 G|0.982;C|0.018 0.018 strong . XCL1 16 . NM_002995 exon2 c.G82C p.D28H GTCTCAGATAAGA . PASS Atlas-SNP DLG2 1740 hgsc.bcm.edu 37 11 83182726 83182726 + Silent SNP G G T rs34857356 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 111.0 60.0 144.0 0.0 0.540541 0 G|0.984;T|0.016 0.016 strong DLG2_ENST00000418306,colon,carcinoma,+2,9 DLG2 448 9 NM_001142699 exon24 c.C2389A p.R797R TGATCCGATCCTT . PASS Atlas-SNP FAM174A 345757 hgsc.bcm.edu 37 5 99897880 99897880 + Missense_Mutation SNP A A G rs76060686 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 242.0 117.0 206.0 0.0 0.483471 0 A|0.992;G|0.008 0.008 strong . FAM174A 13 . NM_198507 exon2 c.A557G p.N186S ATGCCAATCATCC . PASS Atlas-SNP PREX1 57580 hgsc.bcm.edu 37 20 47274733 47274733 + Missense_Mutation SNP T T C rs62621889 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 161.0 68.0 155.0 0.0 0.42236 0 T|0.989;C|0.011 0.011 strong . PREX1 441 . NM_020820 exon17 c.A1915G p.I639V CCTCGATGTCAAA . PASS Atlas-SNP HOXD8 3234 hgsc.bcm.edu 37 2 176995146 176995146 + Missense_Mutation SNP G G A rs192755857 by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 9.0 7.0 2.0 0.0 0.777778 0 G|0.966;A|0.034 0.034 strong . HOXD8 24 . NM_001199746 exon1 c.G52A p.A18T GCGGCTGCGGCGG . PASS Atlas-SNP RGS9 8787 hgsc.bcm.edu 37 17 63221136 63221136 + Missense_Mutation SNP C C T rs116395890 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 96.0 49.0 95.0 0.0 0.510417 0 C|0.994;T|0.006 0.006 strong . RGS9 82 . NM_003835 exon18 c.C1424T p.A475V ACATGGCTCCCAG . PASS Atlas-SNP LBH 81606 hgsc.bcm.edu 37 2 30457288 30457288 + Missense_Mutation SNP C C T rs144194149 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 186.0 98.0 171.0 0.0 0.526882 0 C|0.996;T|0.004 0.004 strong . LBH 14 . NM_030915 exon2 c.C44T p.S15L TGAGATCGGCCAA . PASS Atlas-SNP ATAD3A 55210 hgsc.bcm.edu 37 1 1458944 1458944 + Silent SNP C C T rs112145664 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 186.0 106.0 139.0 0.0 0.569892 0 C|0.974;T|0.026 0.026 strong . ATAD3A 35 . NM_018188 exon9 c.C1104T p.L368L TGTGCTCAGTGTA . PASS Atlas-SNP ATP1A2 477 hgsc.bcm.edu 37 1 160104950 160104950 + Silent SNP C C T rs61734529 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 414.0 216.0 356.0 0.0 0.521739 0 C|0.978;T|0.022 0.022 strong . ATP1A2 167 . NM_000702 exon15 c.C1980T p.C660C GGCATGCGTGGTG . PASS Atlas-SNP SF3A3 10946 hgsc.bcm.edu 37 1 38433762 38433762 + Silent SNP G G A rs59294668 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 500.0 294.0 478.0 2.0 0.588 0.0041841 G|0.983;A|0.017 0.017 strong . SF3A3 37 . NM_006802 exon15 c.C1326T p.N442N AGCAGTGTTTGGG . PASS Atlas-SNP C5orf20 140947 hgsc.bcm.edu 37 5 134782396 134782396 + Missense_Mutation SNP T T A rs67187482 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 42.0 104.0 0.0 0.42 0 T|0.905;A|0.095 0.095 strong . C5orf20 16 . NM_130848 exon1 c.A403T p.S135C TGAAACTACAAAC . PASS Atlas-SNP EPPK1 83481 hgsc.bcm.edu 37 8 144946271 144946271 + Missense_Mutation SNP C C T rs58368323 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 72.0 34.0 95.0 0.0 0.472222 0 C|0.961;T|0.039 0.039 strong . EPPK1 199 . NM_031308 exon1 c.G1151A p.G384E ACTAGCCCCTTCT . PASS Atlas-SNP ENDOU 8909 hgsc.bcm.edu 37 12 48110150 48110150 + Silent SNP G G A rs61734364 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 204.0 93.0 193.0 0.0 0.455882 0 A|0.024;G|0.975;T|0.000 0.024 strong . ENDOU 39 . NM_001172439 exon6 c.C684T p.D228D GAAGGCGTCCTGC . PASS Atlas-SNP ANGPT4 51378 hgsc.bcm.edu 37 20 861853 861853 + Silent SNP G G A rs6086328 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 111.0 48.0 121.0 0.0 0.432432 0 A|0.066;G|0.934 0.066 strong . ANGPT4 77 . NM_015985 exon5 c.C912T p.V304V GGTGTAGACACCA . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195505828 195505828 + Missense_Mutation SNP G G T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 292.0 24.0 246.0 0.0 0.0821918 0 . . none MUC4_ENST00000463781,NS,carcinoma,-1,3 MUC4 1505 3 NM_018406 exon2 c.C12623A p.P4208H GGAAGAGGGGTGG . PASS Atlas-SNP COTL1 23406 hgsc.bcm.edu 37 16 84651452 84651452 + Silent SNP G G C rs144159131 byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 35.0 16.0 22.0 0.0 0.457143 0 G|0.999;C|0.001 0.001 strong . COTL1 17 . NM_021149 exon1 c.C69G p.A23A GATGACGGCCGAG . PASS Atlas-SNP BCL6B 255877 hgsc.bcm.edu 37 17 6930927 6930927 + Missense_Mutation SNP G G A rs201522060 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 86.0 44.0 65.0 0.0 0.511628 0 . . weak . BCL6B 85 . NM_181844 exon9 c.G1429A p.G477R ATTCTCGGGGGGC . PASS Atlas-SNP C9orf172 389813 hgsc.bcm.edu 37 9 139740900 139740900 + Silent SNP C C T rs147735504 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 38.0 16.0 41.0 0.0 0.421053 0 C|0.994;T|0.006 0.006 strong . C9orf172 23 . NM_001080482 exon1 c.C2034T p.N678N GTTCAACGCCTGC . PASS Atlas-SNP WDSUB1 151525 hgsc.bcm.edu 37 2 160104988 160104988 + Missense_Mutation SNP T T C rs74475652 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 91.0 44.0 101.0 0.0 0.483516 0 T|0.958;C|0.042 0.042 strong . WDSUB1 39 . NM_152528 exon10 c.A1168G p.I390V CTTCAATTTTCCT . PASS Atlas-SNP BMP3 651 hgsc.bcm.edu 37 4 81952658 81952658 + Missense_Mutation SNP C C G rs61729824 bycluster;byfrequency;by1000genomes;alternate_allele TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 103.0 47.0 78.0 0.0 0.456311 0 C|0.988;T|0.012 . alt . BMP3 59 . NM_001201 exon1 c.C220G p.R74G GCGGCCCGGACAC . PASS Atlas-SNP SCAF11 9169 hgsc.bcm.edu 37 12 46321417 46321417 + Silent SNP G G A rs11574971 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 90.0 45.0 76.0 0.0 0.5 0 G|0.894;A|0.106 0.106 strong . SCAF11 145 . NM_004719 exon11 c.C2067T p.T689T ATGTTCGGTCAGC . PASS Atlas-SNP PLXNB2 23654 hgsc.bcm.edu 37 22 50720430 50720430 + Silent SNP G G C rs56110807 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 41.0 23.0 48.0 0.0 0.560976 0 G|0.953;C|0.047 0.047 strong . PLXNB2 172 . NM_012401 exon20 c.C3198G p.A1066A GTTGTAGGCCTCT . PASS Atlas-SNP TNFSF12 8742 hgsc.bcm.edu 37 17 7460514 7460514 + Silent SNP G G A rs143039184 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 84.0 45.0 87.0 0.0 0.535714 0 G|0.999;A|0.001 0.001 strong . TNFSF12 20 . NM_003809 exon7 c.G597A p.A199A CACTGCGGCGAGT . PASS Atlas-SNP TG 7038 hgsc.bcm.edu 37 8 133899438 133899438 + Silent SNP C C T rs61742713 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 149.0 77.0 141.0 0.0 0.516779 0 C|0.974;T|0.026 0.026 strong . TG 416 . NM_003235 exon9 c.C1821T p.T607T CCAGACCTGTGAG . PASS Atlas-SNP SEL1L3 23231 hgsc.bcm.edu 37 4 25806279 25806279 + Missense_Mutation SNP T T C rs16877591 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 237.0 120.0 237.0 0.0 0.506329 0 T|0.933;C|0.067 0.067 strong . SEL1L3 62 . NM_015187 exon10 c.A1660G p.I554V AGCTAATTTGGTG . PASS Atlas-SNP C5orf42 65250 hgsc.bcm.edu 37 5 37158363 37158363 + Missense_Mutation SNP G G A rs16903518 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 183.0 92.0 157.0 0.0 0.502732 0 G|0.970;A|0.030 0.030 strong . C5orf42 422 . NM_023073 exon39 c.C7775T p.P2592L GACCAAGGTTTCT . PASS Atlas-SNP UCP3 7352 hgsc.bcm.edu 37 11 73717247 73717247 + Missense_Mutation SNP C C T rs2229707 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 32.0 67.0 0.0 0.421053 0 C|0.964;T|0.036 0.036 strong . UCP3 31 . NM_003356 exon3 c.G304A p.V102I GCTTGACGGAGTC . PASS Atlas-SNP BMP10 27302 hgsc.bcm.edu 37 2 69093288 69093288 + Missense_Mutation SNP G G T rs2231345 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 349.0 168.0 346.0 0.0 0.481375 0 G|0.979;T|0.021 0.021 strong . BMP10 70 . NM_014482 exon2 c.C750A p.N250K CAAAGGGTTATGC . PASS Atlas-SNP PKD1 5310 hgsc.bcm.edu 37 16 2156153 2156153 + Missense_Mutation SNP C C G rs28369051 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 296.0 138.0 223.0 0.0 0.466216 0 C|0.972;G|0.028 0.028 strong . PKD1 184 . NM_000296 exon19 c.G7642C p.E2548Q CCACCTCGAAGTG . PASS Atlas-SNP URB1 9875 hgsc.bcm.edu 37 21 33711077 33711077 + Silent SNP C C T rs58130645 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 127.0 62.0 99.0 0.0 0.488189 0 C|0.986;T|0.014 0.014 strong . URB1 176 . NM_014825 exon26 c.G4449A p.S1483S AAACAGCGAGTGC . PASS Atlas-SNP LAMA1 284217 hgsc.bcm.edu 37 18 7040197 7040197 + Missense_Mutation SNP T T C rs62619829 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 106.0 52.0 71.0 0.0 0.490566 0 T|0.986;C|0.014 0.014 strong . LAMA1 458 . NM_005559 exon10 c.A1300G p.T434A CTCCTGTATAACC . PASS Atlas-SNP IWS1 55677 hgsc.bcm.edu 37 2 128261099 128261099 + Missense_Mutation SNP C C T rs34785867 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 185.0 184.0 176.0 0.0 0.994595 0 C|0.977;T|0.023 0.023 strong . IWS1 61 . NM_017969 exon4 c.G1273A p.V425I CTGATACAGCATC . PASS Atlas-SNP PCDHA1 56147 hgsc.bcm.edu 37 5 140167175 140167175 + Missense_Mutation SNP T T C rs61743801 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 166.0 81.0 159.0 0.0 0.487952 0 T|0.983;C|0.017 0.017 strong . PCDHA1 387 . NM_031411 exon1 c.T1300C p.S434P TCGCCTTCGCTGT . PASS Atlas-SNP PTX4 390667 hgsc.bcm.edu 37 16 1536138 1536138 + Silent SNP T T C rs114122805 by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 77.0 41.0 66.0 0.0 0.532468 0 T|0.980;C|0.020 0.020 strong . PTX4 46 . NM_001013658 exon3 c.A1224G p.G408G GTCGAATCCGCCC . PASS Atlas-SNP KCNN1 3780 hgsc.bcm.edu 37 19 18084775 18084775 + Silent SNP G G A rs75754669 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 5.0 4.0 1.0 0.0 0.8 0 G|0.990;A|0.010 0.010 strong . KCNN1 74 . NM_002248 exon3 c.G78A p.P26P CCCTCCGGACCCT . PASS Atlas-SNP FCGR2B 2213 hgsc.bcm.edu 37 1 161645058 161645058 + Missense_Mutation SNP T T G rs148534844 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 331.0 141.0 324.0 0.0 0.425982 0 T|0.992;G|0.008 0.008 strong . FCGR2B 33 . NM_004001 exon6 c.T772G p.Y258D CCAGGATACCCTG . PASS Atlas-SNP PLCXD3 345557 hgsc.bcm.edu 37 5 41382536 41382536 + Silent SNP C C T rs16871312 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 36.0 36.0 32.0 0.0 1 0 C|0.907;T|0.093 0.093 strong . PLCXD3 86 . NM_001005473 exon2 c.G204A p.V68V TTTGGCCACAGTT . PASS Atlas-SNP FNDC1 84624 hgsc.bcm.edu 37 6 159647584 159647584 + Silent SNP G G A rs12110595 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 50.0 17.0 85.0 0.0 0.34 0 G|0.929;A|0.071 0.071 strong . FNDC1 250 . NM_032532 exon9 c.G1152A p.A384A GGATGCGCTACCA . PASS Atlas-SNP EME1 146956 hgsc.bcm.edu 37 17 48453219 48453219 + Missense_Mutation SNP G G A rs114836030 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 78.0 35.0 64.0 0.0 0.448718 0 G|0.994;A|0.006 0.006 strong . EME1 39 . NM_152463 exon2 c.G650A p.R217K AGCAGAGACAAGC . PASS Atlas-SNP HERC2 8924 hgsc.bcm.edu 37 15 28424100 28424100 + Silent SNP C C T rs9806328 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 92.0 37.0 76.0 0.0 0.402174 0 C|0.864;T|0.136 0.136 strong . HERC2 501 . NM_004667 exon59 c.G9096A p.T3032T GGGCACCGTCCCG . PASS Atlas-SNP KRTAP4-4 84616 hgsc.bcm.edu 37 17 39316841 39316841 + Missense_Mutation SNP A A T rs444509 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 147.0 147.0 171.0 0.0 1 0 A|0.912;T|0.088 0.088 strong . KRTAP4-4 21 . NM_032524 exon1 c.T103A p.C35S GGCAGCAGGTGGT . PASS Atlas-SNP FAM183A 440585 hgsc.bcm.edu 37 1 43621973 43621973 + Missense_Mutation SNP C C T rs59274667 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 120.0 60.0 99.0 0.0 0.5 0 C|0.996;T|0.004 0.004 strong . FAM183A 28 . NM_001101376 exon4 c.C394T p.H132Y GATGATCACCACA . PASS Atlas-SNP CCDC129 223075 hgsc.bcm.edu 37 7 31691582 31691582 + Missense_Mutation SNP G G A rs80081783 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 153.0 77.0 168.0 0.0 0.503268 0 G|0.995;A|0.005 0.005 strong LOC223075,right_lower_lobe,carcinoma,-1,2 CCDC129 127 2 NM_001257968 exon13 c.G2819A p.R940H CGTTACGTGAGGC . PASS Atlas-SNP ERI2 112479 hgsc.bcm.edu 37 16 20809240 20809240 + Missense_Mutation SNP G G T rs61746707 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 248.0 114.0 189.0 0.0 0.459677 0 G|0.987;T|0.013 0.013 strong . ERI2 50 . NM_001142725 exon9 c.C1882A p.Q628K TTTCTTGGTATTT . PASS Atlas-SNP C7orf65 401335 hgsc.bcm.edu 37 7 47698737 47698737 + Missense_Mutation SNP A A C rs114109572 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 83.0 35.0 100.0 0.0 0.421687 0 A|0.999;C|0.001 0.001 strong . C7orf65 18 . NM_001123065 exon3 c.A367C p.T123P GGTTTCACTGACC . PASS Atlas-SNP APOF 319 hgsc.bcm.edu 37 12 56755300 56755300 + Silent SNP A A C rs11575217 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 126.0 53.0 150.0 0.0 0.420635 0 A|0.945;C|0.055 0.055 strong . APOF 13 . NM_001638 exon2 c.T690G p.A230A CATCCCAGCCATG . PASS Atlas-SNP CSMD3 114788 hgsc.bcm.edu 37 8 114111156 114111156 + Missense_Mutation SNP C C T rs73701331 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 125.0 63.0 109.0 0.0 0.504 0 C|0.990;T|0.010 0.010 strong . CSMD3 2325 . NM_052900 exon5 c.G746A p.S249N ATGCCACTGGATC . PASS Atlas-SNP METTL11B 149281 hgsc.bcm.edu 37 1 170136808 170136808 + Silent SNP G G T rs61745740 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 106.0 45.0 96.0 0.0 0.424528 0 G|0.999;T|0.001 0.001 strong . METTL11B 18 . NM_001136107 exon4 c.G762T p.L254L TGGGCTGGTGGTG . PASS Atlas-SNP FCRL2 79368 hgsc.bcm.edu 37 1 157736673 157736673 + Silent SNP C C T rs34445670 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 336.0 150.0 325.0 0.0 0.446429 0 C|0.983;T|0.017 0.017 strong . FCRL2 104 . NM_030764 exon7 c.G1251A p.L417L ATACAACAGCAAA . PASS Atlas-SNP PHC2 1912 hgsc.bcm.edu 37 1 33820520 33820520 + Silent SNP G G A rs79627057 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 110.0 46.0 90.0 0.0 0.418182 0 G|0.981;A|0.019 0.019 strong . PHC2 78 . NM_198040 exon7 c.C1311T p.P437P GCCCTCGGGATGT . PASS Atlas-SNP ARID2 196528 hgsc.bcm.edu 37 12 46245077 46245077 + Silent SNP G G A rs7296694 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 120.0 58.0 116.0 0.0 0.483333 0 G|0.905;A|0.095 0.095 strong . ARID2 311 . NM_152641 exon15 c.G3171A p.S1057S TGAGTCGAGTCTG . PASS Atlas-SNP SPTA1 6708 hgsc.bcm.edu 37 1 158626382 158626382 + Missense_Mutation SNP G G A rs34706737 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 72.0 30.0 83.0 0.0 0.416667 0 G|0.976;A|0.024 0.024 strong . SPTA1 720 . NM_003126 exon20 c.C2870T p.A957V CGCAGAGCTTTCA . PASS Atlas-SNP PKP1 5317 hgsc.bcm.edu 37 1 201282334 201282334 + Missense_Mutation SNP G G A rs34626929 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 226.0 126.0 223.0 0.0 0.557522 0 G|0.974;A|0.026 0.026 strong . PKP1 127 . NM_001005337 exon3 c.G347A p.R116H ACAGGCGCTTCAG . PASS Atlas-SNP ZNF780A 284323 hgsc.bcm.edu 37 19 40581677 40581677 + Silent SNP G G A rs337795 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 139.0 139.0 89.0 0.0 1 0 G|0.928;A|0.072 0.072 strong . ZNF780A 156 . NM_001142577 exon6 c.C675T p.N225N ACATTCGTTACAT . PASS Atlas-SNP PARP14 54625 hgsc.bcm.edu 37 3 122437536 122437536 + Missense_Mutation SNP C C T rs61732767 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 138.0 51.0 164.0 0.0 0.369565 0 C|0.990;T|0.010 0.010 strong . PARP14 242 . NM_017554 exon14 c.C4538T p.A1513V TTGAGGCGATGAT . PASS Atlas-SNP RBPJL 11317 hgsc.bcm.edu 37 20 43938284 43938284 + Missense_Mutation SNP G G A rs35032855 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 39.0 119.0 0.0 0.419355 0 G|0.988;A|0.012 0.012 strong . RBPJL 67 . NM_014276 exon3 c.G209A p.R70Q CTGTGCGGATCCT . PASS Atlas-SNP EPPK1 83481 hgsc.bcm.edu 37 8 144942097 144942097 + Silent SNP G G A rs73375119 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 260.0 132.0 247.0 1.0 0.507692 0.00404858 G|0.984;A|0.016 0.016 strong EPPK1,NS,NS,-1,1 EPPK1 199 1 NM_031308 exon1 c.C5325T p.H1775H CAACACGTGTCTC . PASS Atlas-SNP CASC5 57082 hgsc.bcm.edu 37 15 40916272 40916272 + Silent SNP G G A rs34758606 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 98.0 55.0 75.0 0.0 0.561224 0 G|0.991;A|0.009 0.009 strong . CASC5 269 . NM_170589 exon11 c.G3888A p.A1296A AAAAGCGCAAGTT . PASS Atlas-SNP CELA3A 10136 hgsc.bcm.edu 37 1 22328207 22328207 + Missense_Mutation SNP G G A rs11541414 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 264.0 135.0 270.0 0.0 0.511364 0 G|0.950;A|0.050 0.050 strong . CELA3A 35 . NM_005747 exon1 c.G40A p.V14I GTGGCCGTTGGTA . PASS Atlas-SNP NOTCH1 4851 hgsc.bcm.edu 37 9 139390958 139390958 + Silent SNP T T C rs11574911 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 31.0 11.0 26.0 0.0 0.354839 0 T|0.968;C|0.032 0.032 strong NOTCH1,NS,lymphoid_neoplasm,0,1 NOTCH1 1980 1 NM_017617 exon34 c.A7233G p.P2411P TGGTGGTGGCGGC . PASS Atlas-SNP DSC2 1824 hgsc.bcm.edu 37 18 28681903 28681903 + Missense_Mutation SNP T T C rs868333 bycluster;by2hit2allele;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 10.0 5.0 25.0 0.0 0.5 0 T|0.923;C|0.077 0.077 strong . DSC2 168 . NM_024422 exon1 c.A32G p.N11S GCTCCGTTCCAGG . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195509322 195509322 + Silent SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 177.0 11.0 127.0 0.0 0.0621469 0 . . none MUC4_ENST00000463781,NS,carcinoma,0,1 MUC4 1505 1 NM_018406 exon2 c.C9129T p.V3043V GTCGGTGACAGGA . PASS Atlas-SNP TMPRSS4 56649 hgsc.bcm.edu 37 11 117978578 117978578 + Missense_Mutation SNP G G A rs1894176 bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 51.0 35.0 57.0 0.0 0.686275 0 G|0.955;A|0.045 0.045 strong TMPRSS4,NS,carcinoma,-1,1 TMPRSS4 46 1 NM_019894 exon6 c.G530A p.R177Q GCATGCGGAACTC . PASS Atlas-SNP C1orf53 388722 hgsc.bcm.edu 37 1 197872001 197872001 + Silent SNP G G A rs73083807 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 15.0 7.0 20.0 0.0 0.466667 0 G|0.972;A|0.028 0.028 strong . C1orf53 18 . NM_001024594 exon1 c.G222A p.A74A AACCGCGGCGGAG . PASS Atlas-SNP AHR 196 hgsc.bcm.edu 37 7 17379157 17379157 + Missense_Mutation SNP G G A rs4986826 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 43.0 27.0 53.0 0.0 0.627907 0 G|0.974;A|0.026 0.026 strong . AHR 89 . NM_001621 exon10 c.G1708A p.V570I GGTGAGGTTGACT . PASS Atlas-SNP OBSCN 84033 hgsc.bcm.edu 37 1 228404864 228404864 + Missense_Mutation SNP G G A rs141921462 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 91.0 57.0 94.0 0.0 0.626374 0 G|0.996;A|0.004 0.004 strong . OBSCN 2142 . NM_001271223 exon8 c.G2528A p.R843H GTGAGCGCTTCTT . PASS Atlas-SNP ACSM2A 123876 hgsc.bcm.edu 37 16 20476974 20476974 + Missense_Mutation SNP C C T rs13332099 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 521.0 179.0 502.0 0.0 0.34357 0 C|0.993;T|0.007 0.007 strong ACSM2A,NS,carcinoma,-2,1 ACSM2A 120 1 NM_001010845 exon4 c.C313T p.R105C CTGCAGCGTGGGG . PASS Atlas-SNP DKK3 27122 hgsc.bcm.edu 37 11 12023868 12023868 + Silent SNP A A G rs79628149 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 361.0 164.0 362.0 1.0 0.454294 0.00276243 A|0.991;G|0.009 0.009 strong . DKK3 35 . NM_001018057 exon2 c.T330C p.H110H GTGCACATGGATG . PASS Atlas-SNP LYPD1 116372 hgsc.bcm.edu 37 2 133403647 133403647 + Missense_Mutation SNP T T C rs139508764 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 158.0 85.0 180.0 0.0 0.537975 0 T|0.998;C|0.002 0.002 strong . LYPD1 11 . NM_144586 exon3 c.A397G p.K133E CTAATTTGAGGAA . PASS Atlas-SNP VLDLR 7436 hgsc.bcm.edu 37 9 2643175 2643175 + Missense_Mutation SNP G G C rs34080096 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 38.0 22.0 40.0 0.0 0.578947 0 G|0.996;C|0.004 0.004 strong . VLDLR 68 . NM_003383 exon5 c.G464C p.S155T CATGTAGTCCCGA . PASS Atlas-SNP WDR36 134430 hgsc.bcm.edu 37 5 110432841 110432841 + Silent SNP T T C rs17132775 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 133.0 133.0 165.0 0.0 1 0 T|0.951;C|0.049 0.049 strong . WDR36 111 . NM_139281 exon3 c.T423C p.Y141Y TGCTTATGGAAAT . PASS Atlas-SNP GUCA1A 2978 hgsc.bcm.edu 37 6 42141360 42141360 + Silent SNP C C T rs116114043 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 36.0 19.0 54.0 0.0 0.527778 0 C|0.995;T|0.005 0.005 strong . GUCA1A 18 . NM_000409 exon3 c.C9T p.N3N GGGCAACGTGATG . PASS Atlas-SNP CAP2 10486 hgsc.bcm.edu 37 6 17426846 17426846 + Silent SNP T T C rs59744718 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 153.0 153.0 117.0 0.0 1 0 T|0.967;C|0.033 0.033 strong . CAP2 61 . NM_006366 exon3 c.T147C p.F49F AGCCTTTGACAAG . PASS Atlas-SNP SLC35B2 347734 hgsc.bcm.edu 37 6 44223292 44223292 + Silent SNP C C T rs35112470 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 126.0 72.0 114.0 0.0 0.571429 0 C|0.977;T|0.023 0.023 strong . SLC35B2 40 . NM_178148 exon4 c.G450A p.T150T CGAGTCCGTAAAG . PASS Atlas-SNP AKNA 80709 hgsc.bcm.edu 37 9 117104368 117104368 + Silent SNP G G A rs73548990 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 50.0 34.0 79.0 0.0 0.68 0 G|0.978;A|0.022 0.022 strong . AKNA 119 . NM_030767 exon20 c.C3795T p.P1265P ATCAGCGGGAGGC . PASS Atlas-SNP RPUSD1 113000 hgsc.bcm.edu 37 16 836111 836111 + Missense_Mutation SNP G G T rs112366818 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 72.0 71.0 59.0 0.0 0.986111 0 G|0.962;T|0.038 0.038 strong . RPUSD1 19 . NM_058192 exon6 c.C778A p.P260T GGTCAGGGTCGGG . PASS Atlas-SNP MIER2 54531 hgsc.bcm.edu 37 19 307282 307282 + Missense_Mutation SNP T T C rs35042658 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 161.0 85.0 133.0 0.0 0.52795 0 T|0.946;C|0.054 0.054 strong . MIER2 51 . NM_017550 exon13 c.A1453G p.S485G CATGGCTGGAGAT . PASS Atlas-SNP PKD1 5310 hgsc.bcm.edu 37 16 2166538 2166538 + Missense_Mutation SNP G G A rs149022148 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 85.0 45.0 104.0 0.0 0.529412 0 G|0.961;A|0.039 0.039 strong PKD1,caecum,carcinoma,0,1 PKD1 184 1 NM_000296 exon8 c.C1714T p.P572S CCACGGGCTCGTG . PASS Atlas-SNP AKAP9 10142 hgsc.bcm.edu 37 7 91622249 91622249 + Missense_Mutation SNP C C A rs138567837 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 74.0 33.0 87.0 0.0 0.445946 0 C|1.000;A|0.000 0.000 strong . AKAP9 788 . NM_005751 exon5 c.C456A p.D152E ACAAGACAGTCCG . PASS Atlas-SNP MUC17 140453 hgsc.bcm.edu 37 7 100678032 100678032 + Missense_Mutation SNP T T C rs147173571 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 352.0 33.0 163.0 0.0 0.09375 0 . . weak . MUC17 804 . NM_001040105 exon3 c.T3335C p.L1112P CCAGGCTGGTGGT . PASS Atlas-SNP SULF2 55959 hgsc.bcm.edu 37 20 46292910 46292910 + Missense_Mutation SNP C C T rs10048853 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 106.0 57.0 92.0 0.0 0.537736 0 C|0.983;T|0.017 0.017 strong . SULF2 131 . NM_001161841 exon15 c.G2021A p.R674H TTGAGGCGGCCTT . PASS Atlas-SNP ECE2 9718 hgsc.bcm.edu 37 3 183967500 183967500 + Silent SNP A A C rs2233461 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 58.0 34.0 51.0 0.0 0.586207 0 A|0.943;C|0.057 0.057 strong . ECE2 303 . NM_014693 exon1 c.A18C p.A6A AGGGGCAGGTAGG . PASS Atlas-SNP CLEC16A 23274 hgsc.bcm.edu 37 16 11133681 11133681 + Silent SNP C C T rs61740118 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 97.0 44.0 99.0 0.0 0.453608 0 C|0.989;T|0.011 0.011 strong . CLEC16A 101 . NM_015226 exon13 c.C1608T p.N536N CTACAACCACCCG . PASS Atlas-SNP LRRC43 254050 hgsc.bcm.edu 37 12 122674807 122674807 + Missense_Mutation SNP T T C rs77473460 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 176.0 82.0 186.0 0.0 0.465909 0 T|0.977;C|0.023 0.023 strong . LRRC43 105 . NM_001098519 exon5 c.T793C p.Y265H GTGCCCTACTACC . PASS Atlas-SNP CSMD3 114788 hgsc.bcm.edu 37 8 113668453 113668453 + Silent SNP A A G rs11992014 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 132.0 132.0 95.0 0.0 1 0 A|0.971;G|0.029 0.029 strong CSMD3_ENST00000343508,NS,carcinoma,-2,2 CSMD3 2325 2 NM_198123 exon18 c.T2934C p.S978S AAAATTACTGCTA . PASS Atlas-SNP VPS13A 23230 hgsc.bcm.edu 37 9 79936579 79936579 + Missense_Mutation SNP G G A rs73467962 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 125.0 75.0 99.0 0.0 0.6 0 G|0.987;A|0.013 0.013 strong . VPS13A 735 . NM_001018038 exon44 c.G5747A p.S1916N GTTTAAGTATGGA . PASS Atlas-SNP SPEF2 79925 hgsc.bcm.edu 37 5 35694454 35694454 + Missense_Mutation SNP A A G rs12332369 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 180.0 89.0 166.0 0.0 0.494444 0 A|0.973;G|0.027 0.027 strong . SPEF2 324 . NM_024867 exon13 c.A1964G p.E655G AAGGTGAAACAAT . PASS Atlas-SNP OR6P1 128366 hgsc.bcm.edu 37 1 158533219 158533219 + Missense_Mutation SNP A A C rs114956415 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 86.0 41.0 96.0 0.0 0.476744 0 A|0.987;C|0.013 0.013 strong . OR6P1 47 . NM_001160325 exon1 c.T176G p.M59R AAGTACATGGGAC . PASS Atlas-SNP GALNT12 79695 hgsc.bcm.edu 37 9 101594219 101594219 + Silent SNP A A G rs16917929 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 89.0 56.0 98.0 0.0 0.629214 0 A|0.954;G|0.046 0.046 strong . GALNT12 37 . NM_024642 exon4 c.A897G p.Q299Q GATGCAATCCCCC . PASS Atlas-SNP HIST3H3 8290 hgsc.bcm.edu 37 1 228612994 228612994 + Silent SNP T T C rs61741017 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 143.0 64.0 160.0 0.0 0.447552 0 T|0.984;C|0.016 0.016 strong . HIST3H3 20 . NM_003493 exon1 c.A33G p.S11S ACCCGTTGACTTG . PASS Atlas-SNP CYTB 0 hgsc.bcm.edu 37 MT 14911 14911 + Silent SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 40.0 40.0 45.0 0.0 1 0 . . none . . . . ENST00000361789 exon1 c.C165T p.Y55Y GCACTACTCACCA . PASS Atlas-SNP GALNT2 2590 hgsc.bcm.edu 37 1 230391058 230391058 + Silent SNP G G A rs75919037 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 115.0 69.0 133.0 0.0 0.6 0 G|0.996;A|0.004 0.004 strong GALNT2,ear,carcinoma,+1,1 GALNT2 83 1 NM_004481 exon11 c.G1104A p.T368T CTACACGTTCCCG . PASS Atlas-SNP MST1L 11223 hgsc.bcm.edu 37 1 17084057 17084057 + Missense_Mutation SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 1363.0 118.0 1115.0 0.0 0.0865737 0 . . none . . . . NM_001271733 exon14 c.G1864A p.E622K ACATCTCGCTCTC . PASS Atlas-SNP CAPN12 147968 hgsc.bcm.edu 37 19 39234723 39234723 + Missense_Mutation SNP C C T rs112433506 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 63.0 30.0 65.0 0.0 0.47619 0 C|0.998;T|0.002 0.002 strong . CAPN12 43 . NM_144691 exon1 c.G83A p.R28Q TGGCCCCGAAAAA . PASS Atlas-SNP TRANK1 9881 hgsc.bcm.edu 37 3 36887863 36887863 + Silent SNP G G A rs142584752 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 224.0 92.0 175.0 0.0 0.410714 0 G|0.998;A|0.002 0.002 strong . TRANK1 398 . NM_014831 exon16 c.C4935T p.T1645T GATGGCGGTGTAC . PASS Atlas-SNP ND5 0 hgsc.bcm.edu 37 MT 12540 12540 + Silent SNP A A G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 18.0 18.0 8.0 0.0 1 0 . . none . . . . ENST00000361567 exon1 c.A204G p.W68W ACACTGAGCCACA . PASS Atlas-SNP PADI6 353238 hgsc.bcm.edu 37 1 17727847 17727847 + Silent SNP T T C rs183565903 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 121.0 52.0 128.0 0.0 0.429752 0 T|1.000;C|0.000 0.000 strong . PADI6 51 . NM_207421 exon17 c.T1998C p.C666C TGACTGTTACCTG . PASS Atlas-SNP XCL1 6375 hgsc.bcm.edu 37 1 168549325 168549325 + Missense_Mutation SNP A A G rs61546281 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 170.0 68.0 292.0 0.0 0.4 0 A|0.981;G|0.019 0.019 strong . XCL1 16 . NM_002995 exon2 c.A86G p.K29R CAGATAAGAGGAC . PASS Atlas-SNP C1orf127 148345 hgsc.bcm.edu 37 1 11009703 11009703 + Missense_Mutation SNP C C T rs1281012 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 121.0 60.0 118.0 0.0 0.495868 0 C|0.907;T|0.093 0.093 strong . C1orf127 134 . NM_001170754 exon11 c.G1268A p.R423Q GAAGGCCGGTGCA . PASS Atlas-SNP SPAG17 200162 hgsc.bcm.edu 37 1 118598362 118598362 + Missense_Mutation SNP A A G rs138706127 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 60.0 38.0 64.0 1.0 0.633333 0.015625 A|0.993;G|0.007 0.007 strong SPAG17,NS,haematopoietic_neoplasm,0,1 SPAG17 263 1 NM_206996 exon19 c.T2716C p.S906P TTTTAGATTCTTT . scavenged Atlas-SNP ALMS1 7840 hgsc.bcm.edu 37 2 73676189 73676189 + Silent SNP C C T rs77517267 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 157.0 79.0 141.0 0.0 0.503185 0 C|0.976;T|0.024 0.024 strong ALMS1,NS,carcinoma,+2,1 ALMS1 384 1 NM_015120 exon8 c.C2532T p.D844D AGCTGACGGAAAG . PASS Atlas-SNP ZNF814 730051 hgsc.bcm.edu 37 19 58386314 58386314 + Silent SNP G G A rs111313171 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 779.0 332.0 744.0 1.0 0.426187 0.00134409 G|0.941;A|0.059 0.059 strong . ZNF814 93 . NM_001144989 exon3 c.C444T p.Y148Y CCCTCTGTAGGGT . PASS Atlas-SNP SEC61A2 55176 hgsc.bcm.edu 37 10 12200092 12200092 + Silent SNP A A G rs61731911 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 142.0 82.0 141.0 0.0 0.577465 0 A|0.974;G|0.026 0.026 strong . SEC61A2 48 . NM_001142627 exon9 c.A963G p.L321L TTTACTAGGACAG . PASS Atlas-SNP ALMS1 7840 hgsc.bcm.edu 37 2 73786188 73786188 + Missense_Mutation SNP A A G rs34071195 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 143.0 70.0 131.0 0.0 0.48951 0 A|0.991;G|0.009 0.009 strong . ALMS1 384 . NM_015120 exon15 c.A10300G p.K3434E ACACAGAAAGAGG . PASS Atlas-SNP SORBS2 8470 hgsc.bcm.edu 37 4 186545346 186545346 + Missense_Mutation SNP A A T rs61736043 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 253.0 121.0 249.0 1.0 0.478261 0.00401606 A|0.977;T|0.023 0.023 strong . SORBS2 300 . NM_001270771 exon16 c.T1525A p.L509I CACATAACAGGGA . PASS Atlas-SNP TLR5 7100 hgsc.bcm.edu 37 1 223285042 223285042 + Silent SNP G G A rs5744169 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 143.0 63.0 136.0 0.0 0.440559 0 G|0.976;A|0.024 0.024 strong . TLR5 86 . NM_003268 exon6 c.C1332T p.L444L CCGTAGGAGAAAG . PASS Atlas-SNP PKD1L1 168507 hgsc.bcm.edu 37 7 47933494 47933494 + Missense_Mutation SNP C C T rs17131915 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 37.0 16.0 46.0 0.0 0.432432 0 C|0.974;T|0.026 0.026 strong . PKD1L1 328 . NM_138295 exon15 c.G2434A p.D812N CAGGGTCGTCAGG . PASS Atlas-SNP KIAA0196 9897 hgsc.bcm.edu 37 8 126087351 126087351 + Silent SNP T T G rs79464415 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 71.0 39.0 116.0 0.0 0.549296 0 T|0.994;G|0.006 0.006 strong . KIAA0196 90 . NM_014846 exon8 c.A867C p.V289V ACTAATTACCTGA . PASS Atlas-SNP KIF19 124602 hgsc.bcm.edu 37 17 72340965 72340965 + Silent SNP G G A rs34914485 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 156.0 80.0 127.0 0.0 0.512821 0 G|0.965;A|0.035 0.035 strong . KIF19 102 . NM_153209 exon7 c.G648A p.T216T CCAGACGTCCTCC . PASS Atlas-SNP KDM1A 23028 hgsc.bcm.edu 37 1 23409674 23409674 + Silent SNP G G A rs137940710 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 279.0 140.0 318.0 1.0 0.501792 0.00314465 G|0.999;A|0.001 0.001 strong . KDM1A 49 . NM_001009999 exon21 c.G2448A p.P816P ATAGCCGATTCCA . PASS Atlas-SNP RNF213 57674 hgsc.bcm.edu 37 17 78263634 78263634 + Silent SNP A A G rs141921176 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 81.0 40.0 102.0 0.0 0.493827 0 A|0.995;G|0.005 0.005 strong . RNF213 766 . NM_001256071 exon6 c.A1110G p.A370A GAAGGCAAGGTAG . PASS Atlas-SNP AR 367 hgsc.bcm.edu 37 X 66765164 66765164 + Missense_Mutation SNP A A T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 68.0 4.0 64.0 0.0 0.0588235 0 . . none . AR 249 . NM_000044 exon1 c.A176T p.Q59L TGCAGCAGCAGCA . PASS Atlas-SNP PTPN2 5771 hgsc.bcm.edu 37 18 12817348 12817348 + Missense_Mutation SNP G G T rs78174797 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 252.0 109.0 254.0 0.0 0.43254 0 G|0.981;T|0.019 0.019 strong . PTPN2 37 . NM_001207013 exon7 c.C581A p.T194K GATATTGTTCTGG . PASS Atlas-SNP EXOC4 60412 hgsc.bcm.edu 37 7 133749077 133749077 + Silent SNP C C T rs139944066 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 118.0 52.0 94.0 0.0 0.440678 0 C|0.997;T|0.003 0.003 strong . EXOC4 118 . NM_021807 exon18 c.C2721T p.D907D AGCTGACGAGCTC . PASS Atlas-SNP CYP3A43 64816 hgsc.bcm.edu 37 7 99463556 99463556 + Missense_Mutation SNP A A T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 75.0 12.0 113.0 0.0 0.16 0 . . none . CYP3A43 52 . NM_022820 exon13 c.A1447T p.I483F CTACCAATTCTTC . PASS Atlas-SNP DHRS2 10202 hgsc.bcm.edu 37 14 24114483 24114483 + Missense_Mutation SNP T T C rs7156794 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 74.0 41.0 64.0 0.0 0.554054 0 T|0.941;C|0.059 0.059 strong . DHRS2 78 . NM_182908 exon9 c.T875C p.V292A GCTGCGTAGCTGT . PASS Atlas-SNP RBM42 79171 hgsc.bcm.edu 37 19 36124822 36124822 + Silent SNP C C A rs147020112 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 40.0 18.0 26.0 0.0 0.45 0 C|0.990;A|0.010 0.010 strong . RBM42 40 . NM_024321 exon7 c.C918A p.R306R CGTCCGCGGCCTC . PASS Atlas-SNP SLC35A5 55032 hgsc.bcm.edu 37 3 112292765 112292765 + Silent SNP C C T rs61732187 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 183.0 183.0 168.0 0.0 1 0 C|0.976;T|0.024 0.024 strong . SLC35A5 40 . NM_017945 exon5 c.C390T p.S130S TTTTAGCATTATA . PASS Atlas-SNP EXD3 54932 hgsc.bcm.edu 37 9 140247103 140247103 + Missense_Mutation SNP C C T rs115998217 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 78.0 29.0 47.0 0.0 0.371795 0 C|0.960;T|0.040 0.040 strong . EXD3 86 . NM_017820 exon11 c.G1006A p.V336M GTTCCACAGCCAC . PASS Atlas-SNP FKBP11 51303 hgsc.bcm.edu 37 12 49315821 49315821 + Silent SNP T T C rs148302547 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 60.0 29.0 75.0 0.0 0.483333 0 T|0.999;C|0.001 0.001 strong FKBP11,colon,carcinoma,-1,1 FKBP11 12 1 NM_016594 exon6 c.A552G p.K184K GGAGACTTTGGGT . PASS Atlas-SNP TNFRSF10C 8794 hgsc.bcm.edu 37 8 22960654 22960654 + Missense_Mutation SNP C C T rs10107826 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 82.0 40.0 75.0 0.0 0.487805 0 C|0.958;T|0.042 0.042 strong . TNFRSF10C 30 . NM_003841 exon1 c.C20T p.T7I CCAAGACCCTAAA . PASS Atlas-SNP TMC3 342125 hgsc.bcm.edu 37 15 81625028 81625028 + Missense_Mutation SNP C C T rs8031046 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 168.0 93.0 158.0 0.0 0.553571 0 C|0.811;T|0.189 0.189 strong . TMC3 112 . NM_001080532 exon22 c.G3035A p.R1012K GGCTTTCTGGGCA . PASS Atlas-SNP TMPRSS11B 132724 hgsc.bcm.edu 37 4 69100200 69100200 + Silent SNP A A G rs4431295 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 108.0 56.0 83.0 0.0 0.518519 0 A|0.970;G|0.030 0.030 strong . TMPRSS11B 66 . NM_182502 exon5 c.T450C p.P150P GGAAGCAGGAACT . PASS Atlas-SNP C5orf20 140947 hgsc.bcm.edu 37 5 134782443 134782443 + Missense_Mutation SNP T T C rs113429044 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 83.0 37.0 83.0 0.0 0.445783 0 T|0.902;C|0.098 0.098 strong . C5orf20 16 . NM_130848 exon1 c.A356G p.K119R CCTGTCTTCCTTC . PASS Atlas-SNP WDR93 56964 hgsc.bcm.edu 37 15 90274756 90274756 + Silent SNP C C T rs35502270 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 147.0 72.0 131.0 0.0 0.489796 0 C|0.973;T|0.027 0.027 strong . WDR93 63 . NM_020212 exon12 c.C1293T p.C431C GGCCTGCGAGGAT . PASS Atlas-SNP REEP6 92840 hgsc.bcm.edu 37 19 1495327 1495327 + Silent SNP C C T rs79574672 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 182.0 85.0 169.0 0.0 0.467033 0 C|0.974;T|0.026 0.026 strong REEP6_ENST00000395484,NS,carcinoma,-2,1 REEP6 21 1 NM_138393 exon2 c.C150T p.F50F GCTGTTCGGCTAC . PASS Atlas-SNP CD83 9308 hgsc.bcm.edu 37 6 14135394 14135394 + Missense_Mutation SNP G G A rs2230193 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 106.0 48.0 104.0 0.0 0.45283 0 G|0.982;A|0.018 0.018 strong . CD83 23 . NM_004233 exon5 c.G545A p.R182Q TGGAACGAGCTTT . PASS Atlas-SNP SGK223 0 hgsc.bcm.edu 37 8 8176051 8176051 + Silent SNP G G A rs114220337 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 44.0 27.0 44.0 0.0 0.613636 0 G|0.980;A|0.020 0.020 strong SgK223,caecum,carcinoma,0,2 . . 2 NM_001080826 exon5 c.C3834T p.Y1278Y CTGCCGGTAGTCT . PASS Atlas-SNP EPB41L4B 54566 hgsc.bcm.edu 37 9 112017883 112017883 + Silent SNP A A G rs73529389 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 116.0 34.0 107.0 0.0 0.293103 0 A|0.997;G|0.003 0.003 strong . EPB41L4B 111 . NM_019114 exon11 c.T1077C p.V359V GTGCTCAACTGCA . PASS Atlas-SNP COL1A2 1278 hgsc.bcm.edu 37 7 94057007 94057007 + Silent SNP C C T rs34691365 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 132.0 67.0 106.0 0.0 0.507576 0 C|0.995;T|0.005 0.005 strong . COL1A2 240 . NM_000089 exon49 c.C3336T p.Y1112Y TGGTTACGATGGA . PASS Atlas-SNP AHNAK 79026 hgsc.bcm.edu 37 11 62295149 62295149 + Missense_Mutation SNP T T G rs61524789 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 274.0 131.0 210.0 0.0 0.478102 0 T|0.965;G|0.035 0.035 strong . AHNAK 532 . NM_001620 exon5 c.A6740C p.K2247T GGCATTTTCATCT . PASS Atlas-SNP FKBPL 63943 hgsc.bcm.edu 37 6 32096528 32096528 + Silent SNP G G A rs61747172 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 160.0 83.0 144.0 0.0 0.51875 0 G|0.998;A|0.002 0.002 strong . FKBPL 25 . NM_022110 exon2 c.C1030T p.L344L TGCGCAGACCCTG . PASS Atlas-SNP ST3GAL1 6482 hgsc.bcm.edu 37 8 134478178 134478178 + Silent SNP A A G rs112787936 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 160.0 82.0 146.0 0.0 0.5125 0 A|0.984;G|0.016 0.016 strong . ST3GAL1 39 . NM_173344 exon6 c.T462C p.S154S ATAAGAAGACTCC . PASS Atlas-SNP NUP188 23511 hgsc.bcm.edu 37 9 131755891 131755891 + Silent SNP C C T rs17485583 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 218.0 140.0 234.0 0.0 0.642202 0 C|0.962;T|0.038 0.038 strong . NUP188 140 . NM_015354 exon27 c.C2935T p.L979L CCACCCCTGCTGC . PASS Atlas-SNP CDYL2 124359 hgsc.bcm.edu 37 16 80642076 80642076 + Silent SNP C C T rs117351184 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 130.0 59.0 117.0 0.0 0.453846 0 C|0.990;T|0.010 0.010 strong . CDYL2 66 . NM_152342 exon6 c.G1275A p.R425R CAGCCCCCTGCTG . PASS Atlas-SNP KRT33B 3884 hgsc.bcm.edu 37 17 39521517 39521517 + Silent SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 254.0 23.0 191.0 0.0 0.0905512 0 . . none KRT33B,caecum,carcinoma,0,1 KRT33B 46 1 NM_002279 exon5 c.G786A p.S262S CTGCTCCGAGCTG . scavenged Atlas-SNP LRP2 4036 hgsc.bcm.edu 37 2 170034473 170034473 + Silent SNP G G A rs139363553 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 268.0 116.0 346.0 1.0 0.432836 0.00289017 G|0.999;A|0.001 0.001 strong . LRP2 751 . NM_004525 exon53 c.C10233T p.F3411F AATAGCGAAAGGG . PASS Atlas-SNP ABCA4 24 hgsc.bcm.edu 37 1 94505604 94505604 + Missense_Mutation SNP A A C rs61750126 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 89.0 39.0 92.0 0.0 0.438202 0 A|0.968;C|0.032 0.032 strong . ABCA4 275 . NM_000350 exon24 c.T3602G p.L1201R CCATCCAGGACTT . PASS Atlas-SNP CACNA1G 8913 hgsc.bcm.edu 37 17 48653144 48653144 + Missense_Mutation SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 78.0 44.0 56.0 0.0 0.564103 0 . . none . CACNA1G 659 . NM_001256360 exon8 c.C1381T p.R461W GGTGTGCGGGTTG . PASS Atlas-SNP USP40 55230 hgsc.bcm.edu 37 2 234398065 234398065 + Missense_Mutation SNP G G A rs34026756 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 200.0 102.0 218.0 1.0 0.51 0.00458716 G|0.985;A|0.015 0.015 strong USP40_ENST00000450966,NS,carcinoma,+1,2 USP40 174 2 NM_018218 exon26 c.C3110T p.T1037M TCCACCGTCCAGG . PASS Atlas-SNP PIGB 9488 hgsc.bcm.edu 37 15 55647617 55647617 + Missense_Mutation SNP A A C rs2444042 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 103.0 47.0 94.0 0.0 0.456311 0 A|0.977;C|0.023 0.023 strong . PIGB 36 . NM_004855 exon12 c.A1652C p.K551T ACATGAAGATGAA . PASS Atlas-SNP ASB15 142685 hgsc.bcm.edu 37 7 123267200 123267200 + Missense_Mutation SNP C C T rs73718440 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 315.0 149.0 277.0 0.0 0.473016 0 C|0.993;T|0.007 0.007 strong . ASB15 94 . NM_080928 exon7 c.C734T p.S245L GGGCGTCGGTGCT . PASS Atlas-SNP UBASH3B 84959 hgsc.bcm.edu 37 11 122678778 122678778 + Missense_Mutation SNP A A G rs35343548 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 130.0 49.0 176.0 0.0 0.376923 0 A|0.992;G|0.008 0.008 strong . UBASH3B 73 . NM_032873 exon13 c.A1706G p.N569S CAGGAAATAACAT . PASS Atlas-SNP DMKN 93099 hgsc.bcm.edu 37 19 36002394 36002394 + Silent SNP G G A rs146822312 by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 89.0 30.0 92.0 0.0 0.337079 0 G|0.933;A|0.067 0.067 strong . DMKN 116 . NM_001126058 exon5 c.C837T p.G279G GCTGCCGCCACTG . PASS Atlas-SNP NCAPD3 23310 hgsc.bcm.edu 37 11 134055275 134055275 + Missense_Mutation SNP C C T rs61744119 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 134.0 74.0 114.0 0.0 0.552239 0 C|0.995;T|0.005 0.005 strong . NCAPD3 141 . NM_015261 exon17 c.G2192A p.R731K TCCAGCCTGGGTG . PASS Atlas-SNP CYBB 1536 hgsc.bcm.edu 37 X 37663234 37663234 + Silent SNP G G A rs2228117 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 367.0 190.0 324.0 1.0 0.517711 0.00308642 0|0.006;A|0.061 0.061 strong . CYBB 62 . NM_000397 exon9 c.G1002A p.K334K GTCCAAGCTGGAG . PASS Atlas-SNP MICALL2 79778 hgsc.bcm.edu 37 7 1488317 1488317 + Silent SNP G G A rs78897087 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 122.0 122.0 123.0 0.0 1 0 G|0.968;A|0.032 0.032 strong . MICALL2 63 . NM_182924 exon3 c.C273T p.D91D CAGCCGGTCAGGC . PASS Atlas-SNP SPAG4 6676 hgsc.bcm.edu 37 20 34205080 34205080 + Silent SNP C C T rs116016997 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 83.0 35.0 65.0 0.0 0.421687 0 C|0.982;T|0.018 0.018 strong . SPAG4 36 . NM_003116 exon2 c.C327T p.V109V AGTAGTCTCTGAG . PASS Atlas-SNP CLCN6 1185 hgsc.bcm.edu 37 1 11876692 11876692 + Silent SNP G G A rs57044879 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 192.0 111.0 158.0 0.0 0.578125 0 G|0.971;A|0.029 0.029 strong . CLCN6 77 . NM_001286 exon4 c.G234A p.A78A TGAGGCGGTGAAG . PASS Atlas-SNP FAT3 120114 hgsc.bcm.edu 37 11 92624276 92624276 + Silent SNP G G A rs371790138 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 48.0 24.0 60.0 0.0 0.5 0 . . weak . FAT3 1822 . NM_001008781 exon25 c.G13671A p.V4557V TCAAGTGTAGACA . PASS Atlas-SNP GFM2 84340 hgsc.bcm.edu 37 5 74037369 74037369 + Silent SNP C C T rs35565659 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 247.0 110.0 279.0 0.0 0.445344 0 C|0.976;T|0.024 0.024 strong . GFM2 38 . NM_032380 exon11 c.G915A p.L305L TGGTAACAAATCA . PASS Atlas-SNP ZNF366 167465 hgsc.bcm.edu 37 5 71740073 71740073 + Missense_Mutation SNP A A T rs116305374 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 102.0 42.0 108.0 0.0 0.411765 0 A|0.999;T|0.001 0.001 strong . ZNF366 108 . NM_152625 exon5 c.T1745A p.L582Q CTCCTCAGGACAC . PASS Atlas-SNP MCM8 84515 hgsc.bcm.edu 37 20 5935303 5935303 + Missense_Mutation SNP A A C rs6117014 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 103.0 50.0 94.0 0.0 0.485437 0 A|0.936;C|0.064 0.064 strong . MCM8 125 . NM_032485 exon4 c.A303C p.K101N TGAAAAATTTTTC . PASS Atlas-SNP ECM1 1893 hgsc.bcm.edu 37 1 150484016 150484016 + Silent SNP G G A rs78194273 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 99.0 54.0 88.0 0.0 0.545455 0 G|0.984;A|0.016 0.016 strong . ECM1 96 . NM_001202858 exon7 c.G873A p.E291E GGGGGAGGCTCGG . PASS Atlas-SNP LRP2 4036 hgsc.bcm.edu 37 2 170038097 170038097 + Missense_Mutation SNP C C T rs137983840 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 183.0 82.0 197.0 0.0 0.448087 0 C|0.999;T|0.001 0.001 strong LRP2,NS,carcinoma,0,1 LRP2 751 1 NM_004525 exon52 c.G10030A p.A3344T TGTATGCGCGGTG . PASS Atlas-SNP TCEB3 6924 hgsc.bcm.edu 37 1 24077554 24077554 + Silent SNP T T C rs35397069 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 159.0 68.0 148.0 0.0 0.427673 0 T|0.913;C|0.087 0.087 strong . TCEB3 61 . NM_003198 exon4 c.T537C p.D179D GAGAGATGAGAGA . PASS Atlas-SNP VCAN 1462 hgsc.bcm.edu 37 5 82836912 82836912 + Missense_Mutation SNP G G A rs61733389 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 87.0 51.0 92.0 0.0 0.586207 0 G|0.967;A|0.033 0.033 strong . VCAN 498 . NM_004385 exon8 c.G8090A p.R2697H TTCCTCGTAAGTC . PASS Atlas-SNP C12orf43 64897 hgsc.bcm.edu 37 12 121442833 121442833 + Missense_Mutation SNP C C T rs34543757 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 57.0 84.0 0.0 0.57 0 C|0.990;G|0.000;T|0.009 0.009 strong . C12orf43 30 . NM_022895 exon5 c.G425A p.R142H TTTCGGCGGGGTT . PASS Atlas-SNP PRSS27 83886 hgsc.bcm.edu 37 16 2762637 2762637 + Missense_Mutation SNP A A G rs61734617 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 171.0 82.0 164.0 0.0 0.479532 0 A|0.948;G|0.052 0.052 strong . PRSS27 20 . NM_031948 exon6 c.T857C p.L286S CCGCCCAACCTCG . PASS Atlas-SNP SLC4A2 6522 hgsc.bcm.edu 37 7 150768849 150768849 + Silent SNP C C T rs11542749 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 160.0 81.0 104.0 0.0 0.50625 0 C|0.927;T|0.073 0.073 strong . SLC4A2 98 . NM_003040 exon15 c.C2265T p.C755C CTTCTGCCTGCTG . PASS Atlas-SNP LIPE 3991 hgsc.bcm.edu 37 19 42931004 42931004 + Missense_Mutation SNP A A G rs16975750 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 434.0 193.0 434.0 1.0 0.4447 0.00230415 A|0.915;G|0.085 0.085 strong . LIPE 83 . NM_005357 exon1 c.T298C p.Y100H GGATGTAAGGTGA . PASS Atlas-SNP ZNF71 58491 hgsc.bcm.edu 37 19 57132879 57132879 + Missense_Mutation SNP G G A rs79950845 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 77.0 43.0 72.0 0.0 0.558442 0 G|0.976;A|0.024 0.024 strong . ZNF71 69 . NM_021216 exon3 c.G224A p.C75Y CCGCATGTCATGA . PASS Atlas-SNP ND5 0 hgsc.bcm.edu 37 MT 13105 13105 + Missense_Mutation SNP A A G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 7.0 7.0 6.0 0.0 1 0 . . none . . . . ENST00000361567 exon1 c.A769G p.I257V GCAGGAATCTTCT . PASS Atlas-SNP LILRA6 79168 hgsc.bcm.edu 37 19 54745659 54745659 + Missense_Mutation SNP G G C rs200657736 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 875.0 120.0 500.0 1.0 0.137143 0.002 G|0.999;C|0.001 0.001 weak LILRA6,NS,carcinoma,0,2 LILRA6 75 2 NM_024318 exon4 c.C451G p.H151D AATGGTGATATCC . scavenged Atlas-SNP CPB1 1360 hgsc.bcm.edu 37 3 148545789 148545789 + Silent SNP C C T rs80013498 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 146.0 71.0 111.0 0.0 0.486301 0 C|0.986;T|0.014 0.014 strong . CPB1 74 . NM_001871 exon2 c.C72T p.G24G ATTCAGCGAGAAG . PASS Atlas-SNP TEKT5 146279 hgsc.bcm.edu 37 16 10769873 10769873 + Silent SNP G G A rs115325161 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 101.0 56.0 86.0 0.0 0.554455 0 G|0.995;A|0.005 0.005 strong . TEKT5 66 . NM_144674 exon5 c.C1029T p.N343N GCGGGCGTTGAAG . PASS Atlas-SNP ZKSCAN4 387032 hgsc.bcm.edu 37 6 28219695 28219695 + Missense_Mutation SNP G G A rs62638680 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 102.0 101.0 82.0 0.0 0.990196 0 G|0.968;A|0.032 0.032 strong . ZKSCAN4 42 . NM_019110 exon1 c.C64T p.L22F TCAGGAGCCCCGT . PASS Atlas-SNP PKD1L1 168507 hgsc.bcm.edu 37 7 47927650 47927650 + Missense_Mutation SNP G G A rs79105203 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 98.0 54.0 125.0 1.0 0.55102 0.008 G|0.945;A|0.055 0.055 strong PKD1L1,colon,carcinoma,0,1 PKD1L1 328 1 NM_138295 exon17 c.C2774T p.P925L AGATTCGGTATTT . scavenged Atlas-SNP RRAGC 64121 hgsc.bcm.edu 37 1 39325136 39325136 + Silent SNP C C T rs112925356 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 56.0 29.0 53.0 0.0 0.517857 0 C|0.978;T|0.022 0.022 strong . RRAGC 28 . NM_001271851 exon1 c.G183A p.K61K CCTCGGCTTGGAG . PASS Atlas-SNP ARSG 22901 hgsc.bcm.edu 37 17 66416511 66416511 + Silent SNP C C T rs35268505 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 240.0 125.0 238.0 0.0 0.520833 0 C|0.981;T|0.019 0.019 strong . ARSG 55 . NM_001267727 exon12 c.C1485T p.N495N TGCCAACGACAAC . PASS Atlas-SNP ACTN4 81 hgsc.bcm.edu 37 19 39212226 39212226 + Missense_Mutation SNP C C T rs140271107 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 90.0 43.0 68.0 0.0 0.477778 0 C|1.000;T|0.000 0.000 strong . ACTN4 69 . NM_004924 exon12 c.C1340T p.S447L CACTATCGGACAT . PASS Atlas-SNP TMEM19 55266 hgsc.bcm.edu 37 12 72094627 72094627 + Missense_Mutation SNP C C G rs74104122 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 188.0 95.0 157.0 0.0 0.505319 0 C|0.976;G|0.024 0.024 strong . TMEM19 35 . NM_018279 exon6 c.C863G p.T288S AAAGCACTGGCAT . PASS Atlas-SNP TMC2 117532 hgsc.bcm.edu 37 20 2582839 2582839 + Missense_Mutation SNP T T A rs140733869 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 245.0 137.0 226.0 0.0 0.559184 0 T|0.997;A|0.003 0.003 strong . TMC2 121 . NM_080751 exon11 c.T1305A p.F435L CAACTTTCTCATC . PASS Atlas-SNP TRPV6 55503 hgsc.bcm.edu 37 7 142573332 142573332 + Silent SNP C C T rs4987664 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 49.0 28.0 47.0 0.0 0.571429 0 C|0.971;T|0.029 0.029 strong . TRPV6 108 . NM_018646 exon8 c.G1011A p.L337L GTACAGCAGATAT . PASS Atlas-SNP PARVG 64098 hgsc.bcm.edu 37 22 44586519 44586519 + Missense_Mutation SNP C C A rs3842780 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 83.0 32.0 71.0 0.0 0.385542 0 C|0.985;A|0.015 0.015 strong PARVG,NS,carcinoma,0,1 PARVG 41 1 NM_001137606 exon7 c.C477A p.N159K AACCAACGTCCAG . PASS Atlas-SNP CKAP2L 150468 hgsc.bcm.edu 37 2 113509891 113509891 + Missense_Mutation SNP T T C rs36046436 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 382.0 184.0 396.0 0.0 0.481675 0 T|0.983;C|0.017 0.017 strong . CKAP2L 54 . NM_152515 exon5 c.A1555G p.S519G TTTTACTGGACAG . PASS Atlas-SNP TRAPPC10 7109 hgsc.bcm.edu 37 21 45518396 45518396 + Silent SNP G G A rs115989144 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 68.0 39.0 62.0 0.0 0.573529 0 G|0.996;A|0.004 0.004 strong TRAPPC10,colon,carcinoma,+1,1 TRAPPC10 109 1 NM_003274 exon21 c.G3327A p.S1109S TTTTTCGACAAAG . PASS Atlas-SNP GRHL3 57822 hgsc.bcm.edu 37 1 24664220 24664220 + Missense_Mutation SNP G G A rs145470039 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 79.0 37.0 93.0 0.0 0.468354 0 G|0.997;A|0.003 0.003 strong GRHL3_ENST00000350501,NS,carcinoma,0,4 GRHL3 69 4 NM_021180 exon6 c.G796A p.V266I TACCCCGTCACCC . PASS Atlas-SNP C4A 720 hgsc.bcm.edu 37 6 31963780 31963780 + Silent SNP A A G rs371801898 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 867.0 299.0 927.0 2.0 0.344867 0.0021575 . . weak . C4A 15 . NM_007293 exon26 c.A3279G p.V1093V GCAGGTAGGAGGC . PASS Atlas-SNP IGSF10 285313 hgsc.bcm.edu 37 3 151155197 151155197 + Silent SNP T T C rs141741834 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 129.0 71.0 130.0 0.0 0.550388 0 T|0.993;C|0.007 0.007 strong . IGSF10 279 . NM_178822 exon6 c.A7152G p.Q2384Q ATAACTTTGTGGT . PASS Atlas-SNP CRAMP1L 57585 hgsc.bcm.edu 37 16 1706480 1706480 + Silent SNP C C G rs80154657 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 24.0 9.0 30.0 0.0 0.375 0 C|0.979;G|0.021 0.021 strong . CRAMP1L 60 . NM_020825 exon9 c.C1722G p.P574P TGTCCCCGAGCAG . PASS Atlas-SNP MUC16 94025 hgsc.bcm.edu 37 19 9070186 9070186 + Missense_Mutation SNP C C T rs1559171 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 282.0 132.0 273.0 0.0 0.468085 0 C|0.987;T|0.013 0.013 strong . MUC16 4315 . NM_024690 exon3 c.G17260A p.A5754T CCATGGCGAAGGT . PASS Atlas-SNP MCTP2 55784 hgsc.bcm.edu 37 15 94858808 94858808 + Silent SNP G G A rs146431277 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 203.0 105.0 191.0 0.0 0.517241 0 G|0.998;A|0.002 0.002 strong MCTP2,NS,adenoma,0,1 MCTP2 122 1 NM_001159643 exon3 c.G579A p.A193A TTTTGCGTACCTC . PASS Atlas-SNP ADCK2 90956 hgsc.bcm.edu 37 7 140374482 140374482 + Silent SNP G G C rs142577491 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 124.0 71.0 113.0 0.0 0.572581 0 G|0.999;C|0.001 0.001 strong . ADCK2 37 . NM_052853 exon2 c.G1005C p.L335L AGTCCTGGGAGTT . PASS Atlas-SNP C15orf43 145645 hgsc.bcm.edu 37 15 45250685 45250685 + Missense_Mutation SNP T T G rs147135555 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 132.0 63.0 98.0 0.0 0.477273 0 T|0.997;G|0.003 0.003 strong . C15orf43 19 . NM_152448 exon3 c.T261G p.I87M TTTCATTCTTCCT . PASS Atlas-SNP DUPD1 338599 hgsc.bcm.edu 37 10 76797660 76797660 + Silent SNP C C T rs1868624 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 75.0 34.0 69.0 0.0 0.453333 0 C|0.959;T|0.041 0.041 strong . DUPD1 30 . NM_001003892 exon3 c.G597A p.Q199Q CACCAGCTGCTTG . PASS Atlas-SNP AMPD3 272 hgsc.bcm.edu 37 11 10526179 10526179 + Silent SNP C C T rs375685508 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 120.0 43.0 98.0 0.0 0.358333 0 . . weak . AMPD3 68 . NM_000480 exon14 c.C2127T p.S709S GAACAGCGTGCTG . PASS Atlas-SNP POLQ 10721 hgsc.bcm.edu 37 3 121207083 121207083 + Missense_Mutation SNP C C A rs3218639 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 57.0 24.0 78.0 0.0 0.421053 0 C|0.993;A|0.007 0.007 strong . POLQ 273 . NM_199420 exon16 c.G4695T p.Q1565H AACCATCTGAACA . PASS Atlas-SNP CTU2 348180 hgsc.bcm.edu 37 16 88780603 88780603 + Silent SNP C C G rs73262673 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 41.0 145.0 0.0 0.44086 0 C|0.960;G|0.040 0.040 strong . CTU2 66 . NM_001012759 exon10 c.C1065G p.T355T GCAGACCCAGTTC . PASS Atlas-SNP FREM2 341640 hgsc.bcm.edu 37 13 39263646 39263646 + Missense_Mutation SNP G G A rs58363253 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 127.0 58.0 97.0 0.0 0.456693 0 G|0.949;A|0.051 0.051 strong . FREM2 385 . NM_207361 exon1 c.G2165A p.R722K CACTGAGGAAGAA . PASS Atlas-SNP ZNF205 7755 hgsc.bcm.edu 37 16 3169321 3169321 + Silent SNP C C T rs59049520 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 83.0 52.0 88.0 0.0 0.626506 0 C|0.944;T|0.056 0.056 strong . ZNF205 42 . NM_003456 exon7 c.C660T p.P220P GAAGCCCTTCAGA . PASS Atlas-SNP ATP9A 10079 hgsc.bcm.edu 37 20 50310559 50310559 + Silent SNP G G A rs2031344 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 188.0 82.0 218.0 0.0 0.43617 0 G|0.985;A|0.015 0.015 strong . ATP9A 135 . NM_006045 exon7 c.C630T p.L210L CGTGGGGAGCCTC . PASS Atlas-SNP CENPE 1062 hgsc.bcm.edu 37 4 104080217 104080217 + Missense_Mutation SNP A A C rs75568479 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 204.0 107.0 174.0 0.0 0.52451 0 A|0.985;C|0.015 0.015 strong . CENPE 253 . NM_001813 exon22 c.T2551G p.S851A CTTTAGAGAGATT . PASS Atlas-SNP SLC35G6 643664 hgsc.bcm.edu 37 17 7385661 7385661 + Missense_Mutation SNP A A G rs192630658 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 220.0 119.0 214.0 1.0 0.540909 0.0046729 A|0.977;G|0.023 0.023 strong . . . . NM_001102614 exon2 c.A358G p.S120G GCCTACAGTGCGG . PASS Atlas-SNP SF3B1 23451 hgsc.bcm.edu 37 2 198266834 198266834 + Missense_Mutation SNP T T C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 214.0 70.0 173.0 0.0 0.327103 0 . . none SF3B1,NS,haematopoietic_neoplasm,0,263 SF3B1 1038 263 NM_012433 exon15 c.A2098G p.K700E GAACTTTCTGCTG . PASS Atlas-SNP FTHL17 53940 hgsc.bcm.edu 37 X 31089873 31089873 + Missense_Mutation SNP A A T rs73617043 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 186.0 87.0 180.0 0.0 0.467742 0 A|0.996;T|0.004 0.004 strong . FTHL17 99 . NM_031894 exon1 c.T198A p.H66Q CTGGGCATGCTCC . PASS Atlas-SNP ALDH1L1 10840 hgsc.bcm.edu 37 3 125854404 125854404 + Silent SNP C C T rs114109734 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 79.0 35.0 75.0 0.0 0.443038 0 C|0.996;T|0.004 0.004 strong . ALDH1L1 138 . NM_001270364 exon12 c.G1476A p.A492A GTCCCGCGCACTG . PASS Atlas-SNP PVR 5817 hgsc.bcm.edu 37 19 45161070 45161070 + Missense_Mutation SNP G G A rs35365841 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 42.0 84.0 0.0 0.451613 0 G|0.951;A|0.049 0.049 strong . PVR 23 . NM_001135769 exon5 c.G883A p.A295T CAGGGCGCCCAGC . PASS Atlas-SNP ZNF804B 219578 hgsc.bcm.edu 37 7 88964162 88964162 + Missense_Mutation SNP T T G rs150870900 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 102.0 46.0 83.0 0.0 0.45098 0 T|0.996;G|0.004 0.004 strong . ZNF804B 322 . NM_181646 exon4 c.T1866G p.D622E TATAGATGAGGAC . PASS Atlas-SNP DNAH10 196385 hgsc.bcm.edu 37 12 124360037 124360037 + Missense_Mutation SNP C C T rs61732737 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 103.0 49.0 88.0 0.0 0.475728 0 C|0.976;T|0.024 0.024 strong . DNAH10 888 . NM_207437 exon46 c.C7844T p.S2615L ACACCTCGGTAAC . PASS Atlas-SNP SLC9A4 389015 hgsc.bcm.edu 37 2 103142761 103142761 + Missense_Mutation SNP A A T rs115217520 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 131.0 59.0 123.0 0.0 0.450382 0 A|0.997;T|0.003 0.003 strong . SLC9A4 115 . NM_001011552 exon11 c.A1994T p.N665I ACGGGAATCCTCA . PASS Atlas-SNP KRT14 3861 hgsc.bcm.edu 37 17 39741280 39741280 + Silent SNP A A G rs35849957 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 102.0 55.0 87.0 0.0 0.539216 0 A|0.944;G|0.056 0.056 strong . KRT14 65 . NM_000526 exon2 c.T555C p.N185N AAGGACATTGGCA . PASS Atlas-SNP NKX3-2 579 hgsc.bcm.edu 37 4 13545610 13545610 + Silent SNP C C T rs10032202 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 26.0 13.0 24.0 0.0 0.5 0 C|0.964;T|0.036 0.036 strong . NKX3-2 15 . NM_001189 exon1 c.G429A p.A143A CCGGCCCGCGGCT . PASS Atlas-SNP UBR4 23352 hgsc.bcm.edu 37 1 19518855 19518855 + Silent SNP T T C rs147313932 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 78.0 37.0 76.0 0.0 0.474359 0 T|0.999;C|0.001 0.001 strong . UBR4 415 . NM_020765 exon11 c.A1221G p.Q407Q CAGCAATTGGAAA . PASS Atlas-SNP PER3 8863 hgsc.bcm.edu 37 1 7887234 7887234 + Missense_Mutation SNP C C T rs35687686 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 74.0 34.0 80.0 0.0 0.459459 0 C|0.993;T|0.007 0.007 strong PER3,colon,carcinoma,0,1 PER3 95 1 NM_016831 exon17 c.C2221T p.R741W CACAAGCGGAAGA . PASS Atlas-SNP C17orf105 284067 hgsc.bcm.edu 37 17 41857869 41857869 + Silent SNP C C T rs73987086 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 139.0 67.0 98.0 0.0 0.482014 0 C|0.953;T|0.047 0.047 strong . C17orf105 3 . NM_001136483 exon1 c.C39T p.I13I TGTTATCGTCTCT . PASS Atlas-SNP DNAH9 1770 hgsc.bcm.edu 37 17 11583245 11583245 + Silent SNP G G A rs8070788 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 80.0 37.0 82.0 0.0 0.4625 0 G|0.988;A|0.012 0.012 strong . DNAH9 695 . NM_001372 exon18 c.G3525A p.L1175L TGAATTGCTGAAG . PASS Atlas-SNP CSPG5 10675 hgsc.bcm.edu 37 3 47619025 47619025 + Missense_Mutation SNP G G C rs35863063 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 57.0 26.0 60.0 0.0 0.45614 0 G|0.981;C|0.019 0.019 strong . CSPG5 46 . NM_006574 exon2 c.C491G p.A164G TCAGAAGCTGGGC . PASS Atlas-SNP TSHZ1 10194 hgsc.bcm.edu 37 18 73000131 73000131 + Silent SNP G G A rs35073557 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 68.0 37.0 69.0 0.0 0.544118 0 G|0.981;A|0.019 0.019 strong . TSHZ1 104 . NM_005786 exon2 c.G2634A p.P878P GGGCCCGCAGGAG . PASS Atlas-SNP KRTAP4-8 728224 hgsc.bcm.edu 37 17 39254184 39254184 + Silent SNP T T C rs7217470 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 146.0 83.0 101.0 1.0 0.568493 0.00990099 T|0.820;C|0.180 0.180 strong KRTAP4-8,NS,carcinoma,0,1 KRTAP4-8 57 1 NM_031960 exon1 c.A153G p.R51R CTGGGGTCTGCAG . scavenged Atlas-SNP ADAM18 8749 hgsc.bcm.edu 37 8 39537616 39537616 + Silent SNP C C T rs28454772 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 127.0 67.0 126.0 0.0 0.527559 0 C|0.914;T|0.086 0.086 strong ADAM18,colon,carcinoma,0,1 ADAM18 169 1 NM_014237 exon16 c.C1692T p.D564D AAGTGACGCTCAA . PASS Atlas-SNP NDUFAF7 55471 hgsc.bcm.edu 37 2 37459308 37459308 + Missense_Mutation SNP C C G rs2714473 bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 133.0 64.0 123.0 0.0 0.481203 0 C|0.931;G|0.069 0.069 strong . . . . NM_001083946 exon2 c.C115G p.P39A GAAAACCCGGTGA . PASS Atlas-SNP ERC2 26059 hgsc.bcm.edu 37 3 56026204 56026204 + Silent SNP C C T rs61732592 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 231.0 118.0 217.0 0.0 0.510823 0 C|0.988;T|0.012 0.012 strong ERC2_ENST00000288221,caecum,carcinoma,-1,2 ERC2 221 2 NM_015576 exon11 c.G2136A p.A712A GTAAGACGCCTCT . PASS Atlas-SNP FAM193A 8603 hgsc.bcm.edu 37 4 2661342 2661342 + Missense_Mutation SNP A A G rs17164077 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 89.0 42.0 98.0 0.0 0.47191 0 A|0.937;G|0.063 0.063 strong FAM193A,colon,carcinoma,0,1 FAM193A 103 1 NM_001256667 exon8 c.A646G p.M216V AGGCACATGTTAT . PASS Atlas-SNP NOL11 25926 hgsc.bcm.edu 37 17 65735054 65735054 + Silent SNP A A G rs151002760 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 117.0 53.0 103.0 0.0 0.452991 0 A|0.997;G|0.003 0.003 strong . NOL11 48 . NM_015462 exon15 c.A1770G p.A590A TAATGCAATTCTT . PASS Atlas-SNP C6orf70 55780 hgsc.bcm.edu 37 6 170155460 170155460 + Missense_Mutation SNP C C A rs61735516 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 297.0 149.0 268.0 0.0 0.501683 0 C|0.987;A|0.013 0.013 strong . C6orf70 63 . NM_018341 exon3 c.C257A p.T86N CTCTGACCAAGGG . PASS Atlas-SNP MYO7B 4648 hgsc.bcm.edu 37 2 128367556 128367556 + Missense_Mutation SNP G G A rs199654311 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 108.0 58.0 100.0 0.0 0.537037 0 G|0.999;A|0.001 0.001 strong . MYO7B 359 . NM_001080527 exon24 c.G3157A p.G1053S GAGCACGGTGCCC . PASS Atlas-SNP FBXW8 26259 hgsc.bcm.edu 37 12 117387465 117387465 + Missense_Mutation SNP A A G rs36021180 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 153.0 85.0 163.0 0.0 0.555556 0 A|0.983;G|0.017 0.017 strong . FBXW8 53 . NM_153348 exon4 c.A631G p.T211A CCTGACACAGTTT . PASS Atlas-SNP PACS2 23241 hgsc.bcm.edu 37 14 105821457 105821457 + Silent SNP G G A rs61738367 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 97.0 48.0 105.0 0.0 0.494845 0 G|0.986;A|0.014 0.014 strong . PACS2 75 . NM_001100913 exon4 c.G366A p.K122K CTACAAGAACAGA . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195515199 195515199 + Silent SNP A A C rs201720234 byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 384.0 45.0 197.0 0.0 0.117188 0 A|0.994;C|0.006 0.006 strong . MUC4 1505 . NM_018406 exon2 c.T3252G p.G1084G GGTGTCACCTGTG . PASS Atlas-SNP TM9SF3 56889 hgsc.bcm.edu 37 10 98282083 98282083 + Silent SNP C C T rs35359279 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 95.0 35.0 80.0 0.0 0.368421 0 C|0.990;T|0.010 0.010 strong . TM9SF3 45 . NM_020123 exon15 c.G1707A p.A569A ACCAATCGCTCCT . PASS Atlas-SNP TBC1D9B 23061 hgsc.bcm.edu 37 5 179297262 179297262 + Silent SNP T T C rs407437 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 70.0 30.0 104.0 0.0 0.428571 0 T|0.882;C|0.118 0.118 strong . TBC1D9B 157 . NM_198868 exon16 c.A2718G p.T906T CATCCCTGTCACG . PASS Atlas-SNP PALD1 27143 hgsc.bcm.edu 37 10 72324139 72324139 + Missense_Mutation SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 135.0 60.0 127.0 0.0 0.444444 0 . . none KIAA1274,NS,carcinoma,-1,1 . . 1 NM_014431 exon19 c.C2282T p.A761V AAGAGGCGCAAGA . PASS Atlas-SNP ZNF135 7694 hgsc.bcm.edu 37 19 58579464 58579464 + Missense_Mutation SNP A A G rs75381380 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 67.0 31.0 66.0 0.0 0.462687 0 . . weak . ZNF135 159 . NM_007134 exon4 c.A1684G p.I562V CCCCTCATTCAGC . PASS Atlas-SNP SYTL4 94121 hgsc.bcm.edu 37 X 99955925 99955925 + Silent SNP T T C rs16983588 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 269.0 269.0 318.0 0.0 1 0 0|0.004;C|0.166 0.166 strong . SYTL4 72 . NM_001129896 exon6 c.A507G p.R169R GATCTTTCTTCCT . PASS Atlas-SNP XIRP1 165904 hgsc.bcm.edu 37 3 39225549 39225549 + Silent SNP G G C rs36091974 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 214.0 107.0 187.0 0.0 0.5 0 G|0.973;C|0.027 0.027 strong . XIRP1 173 . NM_194293 exon2 c.C5388G p.P1796P GTTCCTGGGTGGC . PASS Atlas-SNP RIF1 55183 hgsc.bcm.edu 37 2 152321618 152321618 + Missense_Mutation SNP G G A rs2444258 bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 97.0 29.0 84.0 0.0 0.298969 0 G|0.918;A|0.082 0.082 strong . RIF1 244 . NM_018151 exon30 c.G5584A p.V1862I AAAACTGTTGGCC . PASS Atlas-SNP DCHS2 54798 hgsc.bcm.edu 37 4 155156875 155156875 + Missense_Mutation SNP T T G rs61746101 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 97.0 48.0 74.0 0.0 0.494845 0 T|0.959;G|0.041 0.041 strong . DCHS2 594 . NM_017639 exon25 c.A7564C p.N2522H ACACATTCACAAA . PASS Atlas-SNP OR5L2 26338 hgsc.bcm.edu 37 11 55595401 55595401 + Missense_Mutation SNP A A G rs148148644 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 159.0 73.0 166.0 0.0 0.459119 0 A|0.997;G|0.003 0.003 strong . OR5L2 135 . NM_001004739 exon1 c.A707G p.K236R GGCACAAAGCTTT . PASS Atlas-SNP IQSEC2 23096 hgsc.bcm.edu 37 X 53263764 53263764 + Silent SNP C C T rs184087864 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 222.0 97.0 225.0 0.0 0.436937 0 C|0.937;T|0.063 0.063 strong . IQSEC2 195 . NM_001111125 exon15 c.G4104A p.L1368L CAGGGGCAGTGGG . PASS Atlas-SNP TERF2 7014 hgsc.bcm.edu 37 16 69401085 69401085 + Missense_Mutation SNP G G T rs34014829 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 74.0 36.0 69.0 0.0 0.486486 0 G|0.991;T|0.009 0.009 strong . TERF2 24 . NM_005652 exon7 c.C965A p.P322Q GTGGTTGGAGGAT . PASS Atlas-SNP MYOM3 127294 hgsc.bcm.edu 37 1 24383873 24383873 + Missense_Mutation SNP T T C rs59805085 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 158.0 83.0 147.0 0.0 0.525316 0 T|0.975;C|0.025 0.025 strong . MYOM3 131 . NM_152372 exon37 c.A4295G p.K1432R AGCTCCTTGGGCT . PASS Atlas-SNP MCM8 84515 hgsc.bcm.edu 37 20 5943985 5943985 + Silent SNP G G A rs35102646 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 54.0 23.0 58.0 0.0 0.425926 0 G|0.992;A|0.008 0.008 strong . MCM8 125 . NM_032485 exon8 c.G855A p.T285T AGTTACGATGGAC . PASS Atlas-SNP C6orf201 404220 hgsc.bcm.edu 37 6 4122279 4122279 + Silent SNP A A G rs17137678 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 210.0 114.0 209.0 0.0 0.542857 0 A|0.978;G|0.022 0.022 strong . C6orf201 17 . NM_001085401 exon4 c.A381G p.T127T ACAAACAGGTACA . PASS Atlas-SNP IL1R2 7850 hgsc.bcm.edu 37 2 102626187 102626187 + Silent SNP G G A rs2230401 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 81.0 34.0 81.0 0.0 0.419753 0 G|0.958;A|0.042 0.042 strong . IL1R2 58 . NM_001261419 exon3 c.G231A p.T77T TAGGACGGTCCCA . PASS Atlas-SNP AZU1 566 hgsc.bcm.edu 37 19 831811 831811 + Silent SNP C C T rs588442 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 121.0 54.0 105.0 0.0 0.446281 0 C|0.897;T|0.103 0.103 strong . AZU1 31 . NM_001700 exon5 c.C690T p.T230T CTTCACCCGAGTG . PASS Atlas-SNP KIAA0020 9933 hgsc.bcm.edu 37 9 2811522 2811522 + Missense_Mutation SNP T T A rs60717199 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 102.0 42.0 107.0 0.0 0.411765 0 T|0.980;A|0.020 0.020 strong . KIAA0020 56 . NM_014878 exon15 c.A1474T p.S492C GGTAGCTTAACAA . PASS Atlas-SNP HELQ 113510 hgsc.bcm.edu 37 4 84361071 84361071 + Missense_Mutation SNP G G A rs6817280 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 376.0 192.0 335.0 1.0 0.510638 0.00298507 G|0.916;A|0.084 0.084 strong . HELQ 95 . NM_133636 exon8 c.C1753T p.P585S TACTAGGACAAAA . PASS Atlas-SNP DCAF8L2 347442 hgsc.bcm.edu 37 X 27766474 27766474 + Missense_Mutation SNP G G A rs375048390 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 250.0 138.0 295.0 1.0 0.552 0.00338983 . . weak . DCAF8L2 79 . NM_001136533 exon1 c.G1462A p.G488S GTGAGCGGTAGTG . PASS Atlas-SNP C3orf43 255798 hgsc.bcm.edu 37 3 196235191 196235191 + Missense_Mutation SNP A A G rs73891273 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 54.0 22.0 37.0 0.0 0.407407 0 A|0.971;G|0.029 0.029 strong C3orf43,NS,carcinoma,+1,1 C3orf43 25 1 NM_001077657 exon3 c.T212C p.M71T AATTCCATTGAAG . PASS Atlas-SNP ZNF142 7701 hgsc.bcm.edu 37 2 219515109 219515109 + Missense_Mutation SNP T T G rs61733648 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 191.0 96.0 175.0 0.0 0.502618 0 T|0.990;G|0.010 0.010 strong . ZNF142 190 . NM_001105537 exon5 c.A421C p.K141Q GGCCTTTATCCAC . PASS Atlas-SNP PRICKLE4 29964 hgsc.bcm.edu 37 6 41753136 41753136 + Missense_Mutation SNP G G A rs35880970 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 79.0 77.0 89.0 0.0 0.974684 0 G|0.982;A|0.018 0.018 strong . PRICKLE4 29 . NM_013397 exon6 c.G440A p.R147H AACAGCGCTGCTG . PASS Atlas-SNP KIF26B 55083 hgsc.bcm.edu 37 1 245775265 245775265 + Silent SNP C C T rs61741293 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 111.0 43.0 94.0 0.0 0.387387 0 C|0.989;T|0.011 0.011 strong . KIF26B 343 . NM_018012 exon9 c.C2085T p.S695S GAAGAGCGGGAAA . PASS Atlas-SNP DPH1 1801 hgsc.bcm.edu 37 17 1943525 1943525 + Missense_Mutation SNP A A G rs200693145 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 51.0 34.0 55.0 0.0 0.666667 0 A|1.000;G|0.000 0.000 strong . DPH1 32 . NM_001383 exon8 c.A778G p.S260G CCATATAGCAAAG . PASS Atlas-SNP DHX40 79665 hgsc.bcm.edu 37 17 57652789 57652789 + Silent SNP C C T rs77178464 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 386.0 201.0 392.0 1.0 0.520725 0.00255102 C|0.957;T|0.043 0.043 strong . DHX40 40 . NM_024612 exon7 c.C930T p.L310L CACCCTCGATGGC . PASS Atlas-SNP EPPK1 83481 hgsc.bcm.edu 37 8 144942934 144942934 + Silent SNP C C T rs114155737 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 25.0 16.0 33.0 0.0 0.64 0 C|0.987;T|0.013 0.013 strong . EPPK1 199 . NM_031308 exon1 c.G4488A p.A1496A CAGGGCCGCAGCC . PASS Atlas-SNP BRDT 676 hgsc.bcm.edu 37 1 92467626 92467626 + Missense_Mutation SNP A A G rs78267346 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 297.0 159.0 275.0 0.0 0.535354 0 A|0.988;G|0.012 0.012 strong . BRDT 133 . NM_001242806 exon16 c.A2320G p.N774D CTCTCAAATGGCA . PASS Atlas-SNP CLDN14 23562 hgsc.bcm.edu 37 21 37833361 37833361 + Silent SNP G G A rs61745291 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 419.0 228.0 332.0 0.0 0.544153 0 G|0.976;A|0.024 0.024 strong . CLDN14 25 . NM_144492 exon3 c.C633T p.Y211Y TGGCTGGTAGGCA . PASS Atlas-SNP CEP250 11190 hgsc.bcm.edu 37 20 34084415 34084415 + Silent SNP G G C rs224376 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 64.0 32.0 60.0 0.0 0.5 0 G|0.991;C|0.009 0.009 strong . CEP250 141 . NM_007186 exon25 c.G3177C p.L1059L GACTCTGTCACTG . PASS Atlas-SNP NSUN3 63899 hgsc.bcm.edu 37 3 93845062 93845062 + Missense_Mutation SNP A A G rs61730354 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 150.0 82.0 124.0 0.0 0.546667 0 A|0.982;G|0.018 0.018 strong . NSUN3 33 . NM_022072 exon6 c.A751G p.I251V TCTGCAATTAAGG . PASS Atlas-SNP PRICKLE1 144165 hgsc.bcm.edu 37 12 42862431 42862431 + Silent SNP G G A rs74081707 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 81.0 45.0 90.0 0.0 0.555556 0 G|0.967;A|0.033 0.033 strong . PRICKLE1 105 . NM_001144882 exon5 c.C585T p.D195D TACCTCGTCACAT . PASS Atlas-SNP C5orf42 65250 hgsc.bcm.edu 37 5 37244669 37244669 + Silent SNP C C T rs73750958 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 136.0 49.0 157.0 0.0 0.360294 0 C|0.980;T|0.020 0.020 strong . C5orf42 422 . NM_023073 exon5 c.G378A p.G126G TCTTTTCCCATTT . PASS Atlas-SNP PPCS 79717 hgsc.bcm.edu 37 1 42925501 42925501 + Silent SNP A A G rs142078638 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 123.0 56.0 139.0 0.0 0.455285 0 A|0.998;G|0.002 0.002 strong . PPCS 30 . NM_024664 exon3 c.A840G p.L280L ATTGCTATCAGAG . PASS Atlas-SNP NSUN5 55695 hgsc.bcm.edu 37 7 72719048 72719048 + Missense_Mutation SNP G G A rs34913552 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 496.0 155.0 568.0 0.0 0.3125 0 G|0.971;A|0.029 0.029 strong . NSUN5 47 . NM_148956 exon5 c.C547T p.P183S TCAAGGGGTCCAG . PASS Atlas-SNP SLC37A1 54020 hgsc.bcm.edu 37 21 43954850 43954850 + Missense_Mutation SNP G G A rs115669950 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 118.0 68.0 101.0 0.0 0.576271 0 G|0.984;A|0.016 0.016 strong . SLC37A1 48 . NM_018964 exon5 c.G181A p.V61I GCTGACGTCAGGT . PASS Atlas-SNP RBM19 9904 hgsc.bcm.edu 37 12 114374887 114374887 + Missense_Mutation SNP T T A rs2290787 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 188.0 85.0 205.0 0.0 0.452128 0 A|0.076;C|0.019;T|0.905 0.076 strong RBM19,NS,carcinoma,0,1 RBM19 117 1 NM_001146699 exon16 c.A1993T p.T665S GGGCTGTGCTGGA . PASS Atlas-SNP KIAA1731 85459 hgsc.bcm.edu 37 11 93412587 93412587 + Missense_Mutation SNP C C T rs111783199 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 132.0 75.0 134.0 0.0 0.568182 0 C|0.995;T|0.005 0.005 strong . KIAA1731 173 . NM_033395 exon7 c.C634T p.R212C GATGCTCGTTTGG . PASS Atlas-SNP TG 7038 hgsc.bcm.edu 37 8 134108459 134108459 + Missense_Mutation SNP G G C rs61730222 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 181.0 85.0 159.0 0.0 0.469613 0 G|0.978;C|0.022 0.022 strong TG,colon,carcinoma,0,2 TG 416 2 NM_003235 exon43 c.G7414C p.V2472L CTGGCCGTGAGTG . PASS Atlas-SNP ALOX15B 247 hgsc.bcm.edu 37 17 7942785 7942785 + Missense_Mutation SNP C C G rs78230493 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 22.0 15.0 29.0 0.0 0.681818 0 C|0.966;G|0.034 0.034 strong . ALOX15B 66 . NM_001141 exon2 c.C229G p.P77A GTGCTGCCCCTGC . PASS Atlas-SNP TMEM104 54868 hgsc.bcm.edu 37 17 72784931 72784931 + Silent SNP C C T rs62638676 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 41.0 15.0 35.0 0.0 0.365854 0 C|0.968;T|0.032 0.032 strong . TMEM104 49 . NM_017728 exon4 c.C171T p.F57F CAGCTTCGTGACC . PASS Atlas-SNP LMTK2 22853 hgsc.bcm.edu 37 7 97822990 97822990 + Silent SNP G G A rs56064038 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 54.0 25.0 49.0 0.0 0.462963 0 G|0.985;A|0.015 0.015 strong . LMTK2 228 . NM_014916 exon11 c.G3213A p.P1071P CAACCCGGTCATT . PASS Atlas-SNP SARDH 1757 hgsc.bcm.edu 37 9 136595253 136595253 + Silent SNP C C T rs35457000 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 113.0 40.0 128.0 0.0 0.353982 0 C|0.985;T|0.015 0.015 strong . SARDH 112 . NM_007101 exon5 c.G747A p.V249V CCGCCGCACCCCA . PASS Atlas-SNP EMCN 51705 hgsc.bcm.edu 37 4 101386643 101386643 + Missense_Mutation SNP C C T rs78403369 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 132.0 65.0 127.0 0.0 0.492424 0 C|0.980;T|0.020 0.020 strong . EMCN 37 . NM_001159694 exon4 c.G313A p.V105I CTGTTACGTTTGA . PASS Atlas-SNP FBN1 2200 hgsc.bcm.edu 37 15 48734008 48734008 + Missense_Mutation SNP C C A rs113577372 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 68.0 34.0 59.0 0.0 0.5 0 C|0.998;A|0.002 0.002 strong . FBN1 310 . NM_000138 exon50 c.G6073T p.A2025S CCAGGGCACAAAT . PASS Atlas-SNP INADL 10207 hgsc.bcm.edu 37 1 62393420 62393420 + Missense_Mutation SNP C C T rs61743112 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 90.0 45.0 84.0 0.0 0.5 0 C|0.959;T|0.041 0.041 strong . INADL 179 . NM_176877 exon27 c.C3589T p.P1197S GCTCCACCGCCAA . PASS Atlas-SNP ZNF594 84622 hgsc.bcm.edu 37 17 5085806 5085806 + Silent SNP G G A rs114624606 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 112.0 47.0 124.0 0.0 0.419643 0 G|0.990;A|0.010 0.010 strong . ZNF594 89 . NM_032530 exon2 c.C1746T p.D582D GATGAGGTCTGAG . PASS Atlas-SNP ADAMTSL3 57188 hgsc.bcm.edu 37 15 84683428 84683428 + Missense_Mutation SNP A A G rs17158450 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 159.0 63.0 122.0 0.0 0.396226 0 A|0.943;G|0.057 0.057 strong . ADAMTSL3 290 . NM_207517 exon24 c.A4108G p.T1370A ATAGCCACCAATG . PASS Atlas-SNP CWF19L1 55280 hgsc.bcm.edu 37 10 101993024 101993024 + Missense_Mutation SNP C C T rs7922946 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 77.0 33.0 105.0 0.0 0.428571 0 C|0.993;T|0.007 0.007 strong . CWF19L1 39 . NM_018294 exon14 c.G1577A p.R526Q TCTTTCCGGAAGC . PASS Atlas-SNP SRF 6722 hgsc.bcm.edu 37 6 43146105 43146105 + Silent SNP G G T rs140883192 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 63.0 28.0 57.0 0.0 0.444444 0 G|0.997;T|0.003 0.003 strong . SRF 24 . NM_003131 exon5 c.G1236T p.P412P TAGCCCGCATGCG . PASS Atlas-SNP CARD14 79092 hgsc.bcm.edu 37 17 78176193 78176193 + Silent SNP G G A rs35692270 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 78.0 35.0 70.0 0.0 0.448718 0 G|0.992;A|0.008 0.008 strong . CARD14 98 . NM_024110 exon15 c.G2193A p.A731A TGCCGCGCACGGC . PASS Atlas-SNP CXXC11 285093 hgsc.bcm.edu 37 2 242815157 242815157 + Missense_Mutation SNP C C T rs77317868 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 73.0 36.0 76.0 0.0 0.493151 0 C|0.973;T|0.027 0.027 strong . . . . NM_173821 exon2 c.C1450T p.R484C ATAAAGCGCAAGG . PASS Atlas-SNP ZNF20 7568 hgsc.bcm.edu 37 19 12244624 12244624 + Missense_Mutation SNP G G A rs61743205 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 182.0 88.0 182.0 0.0 0.483516 0 G|0.981;A|0.019 0.019 strong . ZNF20 86 . NM_021143 exon4 c.C377T p.A126V GTGTCAGCTCTGA . PASS Atlas-SNP VWA3B 200403 hgsc.bcm.edu 37 2 98779418 98779418 + Missense_Mutation SNP G G A rs77092382 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 139.0 60.0 133.0 0.0 0.431655 0 G|0.981;A|0.019 0.019 strong . VWA3B 138 . NM_144992 exon8 c.G1093A p.D365N AAGCCCGACGTGG . PASS Atlas-SNP CSNK1G1 53944 hgsc.bcm.edu 37 15 64592522 64592522 + Silent SNP T T C rs7163558 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 190.0 91.0 147.0 0.0 0.478947 0 T|0.968;C|0.032 0.032 strong . CSNK1G1 56 . NM_022048 exon2 c.A177G p.R59R ACCTAATCTGAGC . PASS Atlas-SNP SEC14L3 266629 hgsc.bcm.edu 37 22 30864545 30864545 + Missense_Mutation SNP T T A rs115380280 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 113.0 57.0 112.0 0.0 0.504425 0 T|0.998;A|0.002 0.002 strong . SEC14L3 46 . NM_174975 exon5 c.A373T p.M125L CCCTCATCTTGGT . PASS Atlas-SNP KRTAP29-1 100533177 hgsc.bcm.edu 37 17 39458200 39458200 + Missense_Mutation SNP C C T rs115643796 byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 152.0 73.0 142.0 0.0 0.480263 0 C|0.987;T|0.013 0.013 strong . KRTAP29-1 2 . NM_001257309 exon1 c.G904A p.G302S TGCAGCCACTCTG . PASS Atlas-SNP DZIP1L 199221 hgsc.bcm.edu 37 3 137787173 137787173 + Missense_Mutation SNP G G A rs11917468 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 166.0 77.0 209.0 0.0 0.463855 0 G|0.948;A|0.052 0.052 strong . DZIP1L 88 . NM_173543 exon13 c.C1652T p.A551V GGCTGGGCCTCTC . PASS Atlas-SNP TSPAN18 90139 hgsc.bcm.edu 37 11 44931308 44931308 + Missense_Mutation SNP C C T rs34282417 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 87.0 44.0 96.0 0.0 0.505747 0 C|0.995;T|0.005 0.005 strong . TSPAN18 38 . NM_130783 exon4 c.C116T p.T39I ACCCCACCGGCTT . PASS Atlas-SNP ATP13A4 84239 hgsc.bcm.edu 37 3 193120459 193120459 + Silent SNP G G A rs9863164 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 108.0 49.0 99.0 0.0 0.453704 0 G|0.974;A|0.026 0.026 strong . ATP13A4 154 . NM_032279 exon30 c.C3573T p.S1191S TTCATTGCTCTCA . PASS Atlas-SNP PTOV1 53635 hgsc.bcm.edu 37 19 50361874 50361874 + Silent SNP A A G rs35389621 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 85.0 43.0 99.0 0.0 0.505882 0 A|0.990;G|0.010 0.010 strong . PTOV1 41 . NM_017432 exon10 c.A1005G p.T335T GGAGACACTGAAG . PASS Atlas-SNP SSPO 23145 hgsc.bcm.edu 37 7 149485987 149485987 + Nonsense_Mutation SNP T T A rs893597 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 190.0 90.0 146.0 0.0 0.473684 0 T|0.977;A|0.023 0.023 strong . . . . NM_198455 exon29 c.T4206A p.C1402X CGACTGTGGCGAT . PASS Atlas-SNP IPPK 64768 hgsc.bcm.edu 37 9 95411816 95411816 + Silent SNP G G A rs16908484 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 116.0 69.0 113.0 0.0 0.594828 0 G|0.986;A|0.014 0.014 strong . IPPK 34 . NM_022755 exon5 c.C333T p.Y111Y CATAGCGTAACCA . PASS Atlas-SNP C16orf58 64755 hgsc.bcm.edu 37 16 31519174 31519174 + Silent SNP G G C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 99.0 51.0 64.0 0.0 0.515152 0 . . none . C16orf58 28 . NM_022744 exon2 c.G326G p.G109G GCTAGGGAGCCGG . PASS Atlas-SNP ZC3H12D 340152 hgsc.bcm.edu 37 6 149777914 149777914 + Missense_Mutation SNP G G T rs200917878 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 53.0 23.0 61.0 0.0 0.433962 0 . . weak . ZC3H12D 21 . NM_207360 exon4 c.C568A p.Q190K CGTCCTGCTCGTA . PASS Atlas-SNP EIF2S3 1968 hgsc.bcm.edu 37 X 24073785 24073785 + Silent SNP A A G rs56229020 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 370.0 169.0 364.0 0.0 0.456757 0 A|0.998;G|0.002 0.002 strong . EIF2S3 31 . NM_001415 exon2 c.A123G p.T41T AGCCACAATTAAC . PASS Atlas-SNP UCN3 114131 hgsc.bcm.edu 37 10 5416027 5416027 + Missense_Mutation SNP C C G rs201708420 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 57.0 25.0 45.0 0.0 0.438596 0 . . weak . UCN3 13 . NM_053049 exon2 c.C344G p.P115R AGAGTCCCCACCG . PASS Atlas-SNP RAD51B 5890 hgsc.bcm.edu 37 14 68292187 68292187 + Silent SNP T T C rs114131734 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 70.0 29.0 81.0 0.0 0.414286 0 T|0.991;C|0.009 0.009 strong . RAD51B 80 . NM_133509 exon3 c.T91C p.L31L GACTTTTTATGTC . PASS Atlas-SNP SRPX 8406 hgsc.bcm.edu 37 X 38033415 38033415 + Missense_Mutation SNP T T C rs35474361 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 112.0 56.0 120.0 0.0 0.5 0 T|0.921;C|0.079 0.079 strong . SRPX 53 . NM_001170751 exon3 c.A347G p.K116R TCACGTTTGCAGA . PASS Atlas-SNP ZC3H4 23211 hgsc.bcm.edu 37 19 47584869 47584869 + Silent SNP C C T rs73943616 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 144.0 84.0 139.0 0.0 0.583333 0 C|0.986;T|0.014 0.014 strong . ZC3H4 96 . NM_015168 exon11 c.G1341A p.P447P CTTACACGGGAAA . PASS Atlas-SNP ZNF695 57116 hgsc.bcm.edu 37 1 247150631 247150631 + Missense_Mutation SNP T T C rs77178548 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 54.0 24.0 46.0 0.0 0.444444 0 T|0.968;C|0.032 0.032 strong . ZNF695 55 . NM_020394 exon4 c.A1186G p.I396V GCTGAATAAGGTA . PASS Atlas-SNP ZNF883 169834 hgsc.bcm.edu 37 9 115760381 115760381 + Silent SNP G G A rs113877750 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 34.0 100.0 0.0 0.365591 0 G|0.991;A|0.009 0.009 strong . . . . NM_001101338 exon5 c.C159T p.N53N ATTACTGTTCCGG . PASS Atlas-SNP ZDHHC2 51201 hgsc.bcm.edu 37 8 17067959 17067959 + Missense_Mutation SNP C C G rs190630185 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 37.0 58.0 0.0 0.486842 0 C|0.997;G|0.003 0.003 strong . ZDHHC2 25 . NM_016353 exon10 c.C920G p.T307S CATCTACTCCTGC . PASS Atlas-SNP CWC25 54883 hgsc.bcm.edu 37 17 36963226 36963226 + Silent SNP G G T rs3785452 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 131.0 131.0 137.0 0.0 1 0 G|0.860;T|0.140 0.140 strong . CWC25 24 . NM_017748 exon7 c.C694A p.R232R AGTTCCGGACCTA . PASS Atlas-SNP CCSER1 401145 hgsc.bcm.edu 37 4 91230407 91230407 + Silent SNP T T C rs34445159 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 218.0 92.0 178.0 0.0 0.422018 0 T|0.995;C|0.005 0.005 strong . . . . NM_001145065 exon2 c.T972C p.Y324Y GAAATATAGGTTA . PASS Atlas-SNP ALDH16A1 126133 hgsc.bcm.edu 37 19 49967996 49967996 + Silent SNP G G A rs10421522 bycluster;byfrequency;by2hit2allele;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 79.0 40.0 67.0 0.0 0.506329 0 G|0.964;A|0.036 0.036 strong . ALDH16A1 54 . NM_153329 exon12 c.G1545A p.P515P CCTGCCGGCTGGG . PASS Atlas-SNP ENDOD1 23052 hgsc.bcm.edu 37 11 94862340 94862340 + Missense_Mutation SNP A A T rs188091415 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 145.0 89.0 165.0 0.0 0.613793 0 A|0.998;T|0.002 0.002 strong . ENDOD1 26 . NM_015036 exon2 c.A1100T p.Q367L CCAAGCAGGTGAT . PASS Atlas-SNP OR8K1 390157 hgsc.bcm.edu 37 11 56113703 56113703 + Silent SNP C C T rs145394503 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 189.0 94.0 216.0 1.0 0.497355 0.00462963 C|0.993;T|0.007 0.007 strong . OR8K1 93 . NM_001002907 exon1 c.C189T p.T63T ACACACCCCCATG . PASS Atlas-SNP PGAM4 441531 hgsc.bcm.edu 37 X 77225099 77225099 + Missense_Mutation SNP C C T rs6622613 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 488.0 248.0 470.0 1.0 0.508197 0.00212766 C|0.990;T|0.010 0.010 strong . PGAM4 28 . NM_001029891 exon1 c.G37A p.E13K TGCTCTCGCCGTG . PASS Atlas-SNP RPGR 6103 hgsc.bcm.edu 37 X 38145918 38145918 + Silent SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 294.0 15.0 459.0 0.0 0.0510204 0 . . none . RPGR 175 . NM_001034853 exon15 c.G2334A p.E778E TCTTTCCTCCTTT . PASS Atlas-SNP UBE3A 7337 hgsc.bcm.edu 37 15 25616844 25616844 + Silent SNP T T A rs28528079 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 341.0 169.0 295.0 0.0 0.495601 0 T|0.958;A|0.042 0.042 strong . UBE3A 109 . NM_000462 exon7 c.A486T p.A162A TACCAATGCCTCA . PASS Atlas-SNP FAM178B 51252 hgsc.bcm.edu 37 2 97543701 97543701 + Missense_Mutation SNP G G A rs34013660 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 84.0 44.0 120.0 0.0 0.52381 0 G|0.979;A|0.021 0.021 strong FAM178B_ENST00000417561,colon,carcinoma,+1,2 FAM178B 35 2 NM_001122646 exon16 c.C1933T p.R645C TGGTGCGGTGCAT . PASS Atlas-SNP C16orf58 64755 hgsc.bcm.edu 37 16 31505252 31505252 + Silent SNP C C T rs34231527 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 124.0 63.0 78.0 0.0 0.508065 0 C|0.991;T|0.009 0.009 strong . C16orf58 28 . NM_022744 exon7 c.C708A p.S236S CACCAGCGTCTCC . PASS Atlas-SNP CMPK2 129607 hgsc.bcm.edu 37 2 7005236 7005236 + Missense_Mutation SNP G G T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 12.0 6.0 6.0 0.0 0.5 0 . . none . CMPK2 30 . NM_001256478 exon1 c.C592A p.P198T GCGGGGGCTCCGG . PASS Atlas-SNP IFLTD1 160492 hgsc.bcm.edu 37 12 25673001 25673001 + Silent SNP C C G rs76419032 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 112.0 65.0 108.0 0.0 0.580357 0 C|0.981;G|0.019 0.019 strong . IFLTD1 121 . NM_001145728 exon7 c.G807C p.A269A GTACCACGCAATG . PASS Atlas-SNP ARFGAP3 26286 hgsc.bcm.edu 37 22 43195134 43195134 + Missense_Mutation SNP C C T rs36003980 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 43.0 65.0 0.0 0.565789 0 C|0.983;T|0.017 0.017 strong . ARFGAP3 48 . NM_014570 exon15 c.G1444A p.A482T CGGGGGCGTTGGG . PASS Atlas-SNP HIST1H2BE 8344 hgsc.bcm.edu 37 6 26184082 26184082 + Missense_Mutation SNP C C G rs61978632 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 213.0 105.0 225.0 0.0 0.492958 0 C|0.965;G|0.035 0.035 strong . HIST1H2BE 10 . NM_003523 exon1 c.C59G p.T20S CCGTGACCAAGGC . PASS Atlas-SNP TNR 7143 hgsc.bcm.edu 37 1 175306758 175306758 + Missense_Mutation SNP G G A rs61731114 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 131.0 71.0 143.0 0.0 0.541985 0 G|0.989;A|0.011 0.011 strong . TNR 399 . NM_003285 exon19 c.C3440T p.T1147I CTCAAAGTGTCTC . PASS Atlas-SNP DYNC1H1 1778 hgsc.bcm.edu 37 14 102469273 102469273 + Silent SNP T T C rs75094258 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 79.0 32.0 92.0 0.0 0.405063 0 T|0.994;C|0.006 0.006 strong . DYNC1H1 395 . NM_001376 exon23 c.T4854C p.Y1618Y AGAATATCTGGAA . PASS Atlas-SNP ABTB2 25841 hgsc.bcm.edu 37 11 34226140 34226140 + Silent SNP G G T rs77165558 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 33.0 17.0 45.0 0.0 0.515152 0 G|0.972;T|0.028 0.028 strong ABTB2,NS,carcinoma,-2,1 ABTB2 101 1 NM_145804 exon2 c.C981A p.T327T CTCCAGGGTTCGG . PASS Atlas-SNP KIF17 57576 hgsc.bcm.edu 37 1 21030956 21030956 + Missense_Mutation SNP G G T rs56750936 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 126.0 121.0 107.0 0.0 0.960317 0 G|0.968;T|0.032 0.032 strong . KIF17 130 . NM_001122819 exon5 c.C1107A p.S369R GCTGGGGCTCATC . PASS Atlas-SNP FRAS1 80144 hgsc.bcm.edu 37 4 79396610 79396610 + Silent SNP G G A rs79849142 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 220.0 110.0 220.0 1.0 0.5 0.00454545 G|0.984;A|0.016 0.016 strong . FRAS1 779 . NM_025074 exon54 c.G7701A p.K2567K TGAGAAGGCAGGG . PASS Atlas-SNP PCDHA8 56140 hgsc.bcm.edu 37 5 140222430 140222430 + Missense_Mutation SNP T T G rs6873763 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 287.0 156.0 303.0 0.0 0.543554 0 T|0.933;G|0.067 0.067 strong . PCDHA8 366 . NM_031856 exon1 c.T1524G p.I508M CTACATTTCGGTG . PASS Atlas-SNP DUOX2 50506 hgsc.bcm.edu 37 15 45392382 45392382 + Missense_Mutation SNP T T C rs79393107 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 79.0 31.0 95.0 0.0 0.392405 0 T|0.960;C|0.040 0.040 strong . DUOX2 137 . NM_014080 exon24 c.A3050G p.E1017G ATCTTCTCTTGCA . PASS Atlas-SNP ESX1 80712 hgsc.bcm.edu 37 X 103495007 103495007 + Missense_Mutation SNP G G C rs78191648 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 53.0 29.0 53.0 0.0 0.54717 0 G|0.948;C|0.052 0.052 strong . ESX1 57 . NM_153448 exon4 c.C1123G p.L375V GTGGCAGAGGCGC . PASS Atlas-SNP CYP1B1 1545 hgsc.bcm.edu 37 2 38301803 38301803 + Silent SNP C C G rs9341249 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 148.0 148.0 107.0 0.0 1 0 C|0.934;G|0.066 0.066 strong . CYP1B1 39 . NM_000104 exon2 c.G729C p.V243V GGGCATCACGTCC . PASS Atlas-SNP PLIN4 729359 hgsc.bcm.edu 37 19 4511913 4511913 + Missense_Mutation SNP C C T rs199927982 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 359.0 137.0 323.0 0.0 0.381616 0 C|0.988;T|0.012 0.012 strong . PLIN4 191 . NM_001080400 exon3 c.G2017A p.D673N CCGTGTCTACACC . PASS Atlas-SNP CBX2 84733 hgsc.bcm.edu 37 17 77755894 77755894 + Missense_Mutation SNP C C G rs9912676 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 116.0 42.0 92.0 0.0 0.362069 0 C|0.976;G|0.024 0.024 strong . CBX2 50 . NM_032647 exon4 c.C582G p.F194L ACTCTTCCCTCCC . PASS Atlas-SNP SLC45A4 57210 hgsc.bcm.edu 37 8 142228386 142228386 + Silent SNP C C T rs61995881 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 46.0 28.0 32.0 0.0 0.608696 0 C|0.986;T|0.014 0.014 strong . SLC45A4 71 . NM_001080431 exon4 c.G1200A p.P400P GCGCGACGGCTTG . PASS Atlas-SNP POMT2 29954 hgsc.bcm.edu 37 14 77786864 77786864 + Missense_Mutation SNP G G T rs8177536 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 41.0 27.0 32.0 0.0 0.658537 0 G|0.920;T|0.080 0.080 strong . POMT2 47 . NM_013382 exon1 c.C161A p.A54E CCGACCGCCTCGA . PASS Atlas-SNP FGFR3 2261 hgsc.bcm.edu 37 4 1803704 1803704 + Silent SNP T T C rs2234909 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 97.0 50.0 112.0 0.0 0.515464 0 T|0.799;C|0.201 0.201 strong FGFR3_ENST00000340107,caecum,carcinoma,+2,11 FGFR3 3320 11 NM_001163213 exon7 c.T882C p.N294N GGTGAATGGCAGC . PASS Atlas-SNP KRTAP13-3 337960 hgsc.bcm.edu 37 21 31797919 31797919 + Silent SNP G G A rs73356706 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 107.0 47.0 132.0 0.0 0.439252 0 G|0.975;A|0.025 0.025 strong . KRTAP13-3 47 . NM_181622 exon1 c.C312T p.S104S GCTATTGGATCCA . PASS Atlas-SNP CCDC134 79879 hgsc.bcm.edu 37 22 42209767 42209767 + Silent SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 96.0 45.0 99.0 0.0 0.46875 0 . . none . CCDC134 19 . NM_024821 exon6 c.C505T p.L169L CAGGAGCTGGGGA . PASS Atlas-SNP GFAP 2670 hgsc.bcm.edu 37 17 42985453 42985453 + Silent SNP G G T rs146298944 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 149.0 70.0 155.0 0.0 0.469799 0 G|0.999;T|0.001 0.001 strong GFAP,colon,carcinoma,0,1 GFAP 88 1 NM_002055 exon8 c.C1236A p.T412T CTCCACGGTCTTC . PASS Atlas-SNP PCDHA3 56145 hgsc.bcm.edu 37 5 140180964 140180964 + Missense_Mutation SNP C C A rs7731327 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 84.0 32.0 75.0 0.0 0.380952 0 C|0.949;A|0.051 0.051 strong PCDHA3_ENST00000522353,NS,carcinoma,-1,2 PCDHA3 396 2 NM_031497 exon1 c.C182A p.P61Q TGGTGCCGCGCCT . PASS Atlas-SNP NOL7 51406 hgsc.bcm.edu 37 6 13615767 13615767 + Silent SNP T T C rs75029999 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 67.0 32.0 48.0 0.0 0.477612 0 T|0.994;C|0.006 0.006 strong . NOL7 18 . NM_016167 exon1 c.T177C p.F59F TGAGTTTGACGAT . PASS Atlas-SNP VWDE 221806 hgsc.bcm.edu 37 7 12414314 12414314 + Splice_Site SNP C C G rs138469050 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 171.0 81.0 178.0 0.0 0.473684 0 C|0.994;G|0.006 0.006 strong . VWDE 123 . NM_001135924 exon10 c.1316+1G>C . AAATTACCTGCCA . PASS Atlas-SNP ADAMDEC1 27299 hgsc.bcm.edu 37 8 24256512 24256512 + Silent SNP T T C rs7005258 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 133.0 56.0 114.0 0.0 0.421053 0 T|0.977;C|0.023 0.023 strong . ADAMDEC1 69 . NM_014479 exon9 c.T888C p.S296S CAGTTCTAACCTG . PASS Atlas-SNP GAS2L3 283431 hgsc.bcm.edu 37 12 101018061 101018061 + Missense_Mutation SNP C C T rs61748063 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 57.0 30.0 40.0 0.0 0.526316 0 C|0.995;T|0.005 0.005 strong . GAS2L3 76 . NM_174942 exon10 c.C1478T p.S493L CACATTCAAATTC . PASS Atlas-SNP OBSCN 84033 hgsc.bcm.edu 37 1 228461055 228461055 + Silent SNP T T C rs113996842 byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 290.0 140.0 283.0 0.0 0.482759 0 T|0.997;C|0.003 0.003 strong . OBSCN 2142 . NM_001271223 exon21 c.T6069C p.C2023C GAGCTGTGAGGTG . PASS Atlas-SNP PKDREJ 10343 hgsc.bcm.edu 37 22 46656562 46656562 + Silent SNP A A G rs7287371 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 139.0 74.0 142.0 0.0 0.532374 0 A|0.942;G|0.058 0.058 strong . PKDREJ 195 . NM_006071 exon1 c.T2658C p.Y886Y TGTTGGATAAAAA . PASS Atlas-SNP TAF1 6872 hgsc.bcm.edu 37 X 70586196 70586196 + Missense_Mutation SNP C C T rs139510844 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 351.0 183.0 303.0 1.0 0.521368 0.00330033 C|0.989;T|0.011 0.011 strong . TAF1 439 . NM_004606 exon1 c.C32T p.T11I TGCGGACAGCAGC . PASS Atlas-SNP MASP2 10747 hgsc.bcm.edu 37 1 11087687 11087687 + Missense_Mutation SNP C C T rs12085877 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 44.0 104.0 0.0 0.44 0 C|0.971;T|0.029 0.029 strong MASP2,NS,carcinoma,-1,1 MASP2 71 1 NM_006610 exon11 c.G1316A p.R439H GTTGTGCGGGCTG . PASS Atlas-SNP TMEM82 388595 hgsc.bcm.edu 37 1 16069664 16069664 + Missense_Mutation SNP T T C rs61740067 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 80.0 29.0 67.0 0.0 0.3625 0 T|0.982;C|0.018 0.018 strong . TMEM82 30 . NM_001013641 exon3 c.T311C p.V104A GGGCCGTGTCCAC . PASS Atlas-SNP ZNF286B 729288 hgsc.bcm.edu 37 17 18566422 18566422 + Missense_Mutation SNP C C T rs146829975 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 381.0 149.0 416.0 0.0 0.391076 0 C|0.975;T|0.025 0.025 strong . ZNF286B 75 . NM_001145045 exon5 c.G397A p.E133K ATGATTCTGCTTT . PASS Atlas-SNP MYBL2 4605 hgsc.bcm.edu 37 20 42310449 42310449 + Missense_Mutation SNP G G A rs150704861 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 122.0 49.0 135.0 0.0 0.401639 0 G|0.998;A|0.002 0.002 strong . MYBL2 82 . NM_002466 exon3 c.G140A p.R47K TGGTGAGGCAGTT . PASS Atlas-SNP OR10AG1 282770 hgsc.bcm.edu 37 11 55735091 55735091 + Silent SNP C C T rs12292026 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 106.0 55.0 115.0 0.0 0.518868 0 C|0.974;T|0.026 0.026 strong . OR10AG1 100 . NM_001005491 exon1 c.G849A p.L283L GTTCCTCAGGGTA . PASS Atlas-SNP ST7L 54879 hgsc.bcm.edu 37 1 113068651 113068651 + Missense_Mutation SNP C C T rs12069022 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 73.0 38.0 61.0 0.0 0.520548 0 C|0.963;T|0.037 0.037 strong . ST7L 31 . NM_017744 exon15 c.G1712A p.G571D CTCAAACCTAGGT . PASS Atlas-SNP OSBPL6 114880 hgsc.bcm.edu 37 2 179226431 179226431 + Silent SNP A A G rs145291582 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 289.0 144.0 290.0 0.0 0.49827 0 A|0.995;G|0.005 0.005 strong OSBPL6,NS,carcinoma,+1,1 OSBPL6 178 1 NM_001201480 exon14 c.A1251G p.A417A GTCTGCATTTAAT . PASS Atlas-SNP CD33 945 hgsc.bcm.edu 37 19 51742839 51742839 + Missense_Mutation SNP A A G rs35632246 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 116.0 57.0 133.0 0.0 0.491379 0 A|0.986;G|0.014 0.014 strong . CD33 55 . NM_001772 exon7 c.A991G p.T331A GCCCCTACTGTGG . PASS Atlas-SNP EPS8 2059 hgsc.bcm.edu 37 12 15776095 15776095 + Silent SNP C C T rs1126786 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 158.0 76.0 148.0 0.0 0.481013 0 T|0.130;G|0.153;C|0.674;A|0.042 0.130 strong . EPS8 70 . NM_004447 exon20 c.G2352A p.L784L TACCTCCAATGCA . PASS Atlas-SNP TRAF2 7186 hgsc.bcm.edu 37 9 139814931 139814931 + Silent SNP G G T rs17244166 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 77.0 29.0 61.0 0.0 0.376623 0 G|0.989;T|0.011 0.011 strong . TRAF2 46 . NM_021138 exon8 c.G924T p.R308R GCACCGGCTGGAC . PASS Atlas-SNP RP1L1 94137 hgsc.bcm.edu 37 8 10464474 10464474 + Silent SNP G G T rs113172380 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 68.0 46.0 56.0 0.0 0.676471 0 G|0.996;T|0.004 0.004 strong RP1L1,NS,carcinoma,-2,1 RP1L1 453 1 NM_178857 exon4 c.C7134A p.L2378L ACTTCCGAGTGCC . PASS Atlas-SNP LCN15 389812 hgsc.bcm.edu 37 9 139657900 139657900 + Silent SNP C C G rs11145872 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 32.0 20.0 36.0 0.0 0.625 0 C|0.994;G|0.006 0.006 strong . LCN15 11 . NM_203347 exon4 c.G327C p.V109V GATGCGCACGTCC . PASS Atlas-SNP OR13C5 138799 hgsc.bcm.edu 37 9 107361009 107361009 + Missense_Mutation SNP C C G rs73508187 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 210.0 132.0 183.0 0.0 0.628571 0 C|0.990;G|0.010 0.010 strong . OR13C5 60 . NM_001004482 exon1 c.G686C p.S229T GAAGAGCTAATTT . PASS Atlas-SNP AQP2 359 hgsc.bcm.edu 37 12 50344958 50344958 + Silent SNP C C T rs60629501 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 83.0 43.0 69.0 0.0 0.518072 0 C|0.988;T|0.012 0.012 strong . AQP2 34 . NM_000486 exon1 c.C345T p.D115D CGGGGACCTGGCT . PASS Atlas-SNP RPL31 6160 hgsc.bcm.edu 37 2 101619211 101619211 + Silent SNP C C T rs141007382 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 219.0 114.0 183.0 0.0 0.520548 0 C|0.999;T|0.001 0.001 strong . RPL31 12 . NM_001098577 exon2 c.C48T p.A16A TTCTGCCATCAAC . PASS Atlas-SNP MOK 5891 hgsc.bcm.edu 37 14 102700028 102700028 + Missense_Mutation SNP T T C rs34965156 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 225.0 113.0 216.0 0.0 0.502222 0 T|0.940;C|0.060 0.060 strong . . . . NM_014226 exon8 c.A689G p.K230R TACTGTTTGAACT . PASS Atlas-SNP FHL2 2274 hgsc.bcm.edu 37 2 106002854 106002854 + Silent SNP G G A rs11537578 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 138.0 72.0 116.0 0.0 0.521739 0 G|0.989;A|0.011 0.011 strong . FHL2 18 . NM_001039492 exon3 c.C120T p.C40C CTCCTCGCAGGTG . PASS Atlas-SNP AK8 158067 hgsc.bcm.edu 37 9 135601126 135601126 + Silent SNP G G A rs28477720 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 117.0 89.0 127.0 0.0 0.760684 0 G|0.966;A|0.034 0.034 strong . AK8 45 . NM_152572 exon13 c.C1389T p.F463F GTATTCGAAGACT . PASS Atlas-SNP MIP 4284 hgsc.bcm.edu 37 12 56847384 56847384 + Silent SNP G G A rs36032520 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 84.0 40.0 85.0 0.0 0.47619 0 G|0.998;A|0.002 0.002 strong . MIP 39 . NM_012064 exon2 c.C516T p.H172H AAAGAGGTGCCCC . PASS Atlas-SNP ARNTL2 56938 hgsc.bcm.edu 37 12 27543141 27543141 + Missense_Mutation SNP G G C rs74988383 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 83.0 43.0 100.0 0.0 0.518072 0 G|0.991;C|0.009 0.009 strong . ARNTL2 54 . NM_020183 exon9 c.G888C p.E296D AGAAGAGCATGGA . PASS Atlas-SNP CAPZA1 829 hgsc.bcm.edu 37 1 113202386 113202386 + Silent SNP C C T rs12074157 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 86.0 35.0 77.0 0.0 0.406977 0 C|0.968;T|0.032 0.032 strong CAPZA1,colon,carcinoma,0,1 CAPZA1 16 1 NM_006135 exon7 c.C570T p.G190G GGTTGGCGTGCTT . PASS Atlas-SNP WWOX 51741 hgsc.bcm.edu 37 16 78458807 78458807 + Missense_Mutation SNP C C G rs7201683 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 196.0 100.0 176.0 0.0 0.510204 0 C|0.956;G|0.044 0.044 strong . WWOX 98 . NM_016373 exon7 c.C646G p.L216V TTTGCTCTACCCT . PASS Atlas-SNP CD109 135228 hgsc.bcm.edu 37 6 74524757 74524757 + Silent SNP T T G rs58562849 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 56.0 33.0 73.0 0.0 0.589286 0 T|0.971;G|0.029 0.029 strong . CD109 170 . NM_133493 exon30 c.T3822G p.S1274S AAGATCTATCCAA . PASS Atlas-SNP FHOD1 29109 hgsc.bcm.edu 37 16 67266065 67266065 + Silent SNP T T C rs34888644 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 452.0 223.0 418.0 1.0 0.493363 0.00239234 T|0.919;C|0.081 0.081 strong . FHOD1 86 . NM_013241 exon14 c.A2079G p.T693T CAGCACTGTGGTC . PASS Atlas-SNP RHBDD1 84236 hgsc.bcm.edu 37 2 227860232 227860232 + Silent SNP C C T rs61745917 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 188.0 95.0 179.0 0.0 0.505319 0 C|0.996;T|0.004 0.004 strong . RHBDD1 34 . NM_001167608 exon9 c.C942T p.S314S CGATAGCCAGTGA . PASS Atlas-SNP C1orf112 55732 hgsc.bcm.edu 37 1 169796197 169796197 + Missense_Mutation SNP T T C rs142988055 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 242.0 125.0 242.0 0.0 0.516529 0 T|0.984;C|0.016 0.016 strong . C1orf112 74 . NM_018186 exon11 c.T854C p.F285S GCAAGTTTCCTCC . PASS Atlas-SNP BCAR1 9564 hgsc.bcm.edu 37 16 75269730 75269730 + Missense_Mutation SNP G G A rs61729593 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 33.0 15.0 22.0 0.0 0.454545 0 G|0.991;A|0.009 0.009 strong . BCAR1 184 . NM_001170714 exon6 c.C1205T p.P402L GCCGGCGGGGAGT . PASS Atlas-SNP OR10H4 126541 hgsc.bcm.edu 37 19 16060453 16060453 + Silent SNP T T C rs115548355 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 390.0 196.0 389.0 1.0 0.502564 0.00257069 T|0.988;C|0.012 0.012 strong . OR10H4 48 . NM_001004465 exon1 c.T636C p.C212C AGGCTGTTTATTC . PASS Atlas-SNP ZNF254 9534 hgsc.bcm.edu 37 19 24310074 24310074 + Silent SNP T T C rs61737179 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 68.0 28.0 59.0 0.0 0.411765 0 T|0.979;C|0.021 0.021 strong . ZNF254 88 . NM_203282 exon4 c.T1272C p.H424H TACACATAAGATA . PASS Atlas-SNP KRTAP4-3 85290 hgsc.bcm.edu 37 17 39324190 39324190 + Missense_Mutation SNP A A G rs377224840 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 166.0 73.0 392.0 1.0 0.439759 0.00255102 . . weak . KRTAP4-3 40 . NM_033187 exon1 c.T235C p.C79R TGCAGCAACTGGA . PASS Atlas-SNP VWDE 221806 hgsc.bcm.edu 37 7 12443312 12443312 + Missense_Mutation SNP C C T rs139879021 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 28.0 14.0 14.0 0.0 0.5 0 C|0.996;T|0.004 0.004 strong . VWDE 123 . NM_001135924 exon1 c.G31A p.A11T TCAGCGCGATCAC . PASS Atlas-SNP TNXB 7148 hgsc.bcm.edu 37 6 32046832 32046832 + Silent SNP C C T rs61998180 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 137.0 71.0 86.0 0.0 0.518248 0 C|0.987;T|0.013 0.013 weak TNXB_ENST00000375247,NS,carcinoma,0,1 TNXB 553 1 NM_019105 exon11 c.G4353A p.P1451P GGACACCGGGCCC . PASS Atlas-SNP INTS3 65123 hgsc.bcm.edu 37 1 153740285 153740285 + Silent SNP G G A rs61736048 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 38.0 74.0 0.0 0.5 0 G|0.983;A|0.017 0.017 strong . INTS3 83 . NM_023015 exon21 c.G2226A p.T742T CCTCACGCCCTCC . PASS Atlas-SNP PTRF 284119 hgsc.bcm.edu 37 17 40556951 40556951 + Silent SNP C C T rs112332573 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 172.0 92.0 135.0 0.0 0.534884 0 C|0.981;T|0.019 0.019 strong . PTRF 48 . NM_012232 exon2 c.G927A p.A309A GGAGCGCGCGTAC . PASS Atlas-SNP TTC16 158248 hgsc.bcm.edu 37 9 130485476 130485476 + Missense_Mutation SNP A A C rs115363266 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 62.0 118.0 0.0 0.62 0 A|0.962;C|0.038 0.038 strong . TTC16 55 . NM_144965 exon7 c.A736C p.K246Q CTCCAGAAGATGG . PASS Atlas-SNP TAS1R3 83756 hgsc.bcm.edu 37 1 1269488 1269488 + Missense_Mutation SNP G G A rs112507608 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 61.0 29.0 71.0 0.0 0.47541 0 G|0.933;A|0.067 0.067 strong . TAS1R3 39 . NM_152228 exon6 c.G2203A p.A735T GCGCACGCCACCA . PASS Atlas-SNP PABPC1 26986 hgsc.bcm.edu 37 8 101721705 101721705 + Missense_Mutation SNP G G T rs201017624 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 264.0 48.0 200.0 0.0 0.181818 0 G|0.944;T|0.057 0.057 strong . PABPC1 76 . NM_002568 exon8 c.C1227A p.F409L TGCCATGAAGTAA . PASS Atlas-SNP RFX4 5992 hgsc.bcm.edu 37 12 107114548 107114548 + Silent SNP G G A rs73391388 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 156.0 66.0 165.0 0.0 0.423077 0 G|0.988;A|0.012 0.012 strong . RFX4 218 . NM_001206691 exon13 c.G1272A p.K424K TGCCAAGAGACAA . PASS Atlas-SNP SUPV3L1 6832 hgsc.bcm.edu 37 10 70940052 70940052 + Missense_Mutation SNP C C T rs33998366 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 52.0 24.0 52.0 0.0 0.461538 0 C|0.961;T|0.039 0.039 strong . SUPV3L1 61 . NM_003171 exon1 c.C5T p.S2F CGATGTCCTTCTC . PASS Atlas-SNP BAIAP3 8938 hgsc.bcm.edu 37 16 1391419 1391419 + Silent SNP T T C rs73485660 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 126.0 65.0 124.0 0.0 0.515873 0 T|0.989;C|0.011 0.011 strong . BAIAP3 88 . NM_003933 exon8 c.T765C p.P255P CCTGCCTGCCAAG . PASS Atlas-SNP ND4 0 hgsc.bcm.edu 37 MT 10792 10792 + Silent SNP A A G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 9.0 9.0 6.0 0.0 1 0 . . none . . . . ENST00000361381 exon1 c.A33G p.L11L TATATTACTACCA . PASS Atlas-SNP KCNK15 60598 hgsc.bcm.edu 37 20 43374694 43374694 + Missense_Mutation SNP T T C rs144556326 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 37.0 15.0 41.0 0.0 0.405405 0 T|0.981;C|0.019 0.019 strong . KCNK15 19 . NM_022358 exon1 c.T143C p.L48P GCGCTCTCCGGAG . PASS Atlas-SNP ZNF286B 729288 hgsc.bcm.edu 37 17 18565915 18565915 + Missense_Mutation SNP G G A rs73291461 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 299.0 130.0 330.0 0.0 0.434783 0 G|0.943;A|0.057 0.057 strong . ZNF286B 75 . NM_001145045 exon5 c.C904T p.R302C ATTCACGGCATTC . PASS Atlas-SNP UBXN6 80700 hgsc.bcm.edu 37 19 4446164 4446164 + Missense_Mutation SNP G G A rs34179017 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 102.0 50.0 97.0 0.0 0.490196 0 G|0.992;A|0.008 0.008 strong . UBXN6 27 . NM_025241 exon10 c.C1082T p.A361V TACACCGCCCCCA . PASS Atlas-SNP OR51F1 256892 hgsc.bcm.edu 37 11 4791012 4791012 + Missense_Mutation SNP C C T rs146706676 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 75.0 34.0 80.0 0.0 0.453333 0 C|0.999;T|0.001 0.001 strong . OR51F1 60 . NM_001004752 exon1 c.G136A p.V46M GGATCACGCTGTT . PASS Atlas-SNP KIRREL2 84063 hgsc.bcm.edu 37 19 36349721 36349721 + Silent SNP G G A rs57079408 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 215.0 104.0 246.0 1.0 0.483721 0.00406504 G|0.994;A|0.006 0.006 strong . KIRREL2 170 . NM_199180 exon4 c.G477A p.L159L ATTGCTGTGGTTC . PASS Atlas-SNP MBOAT2 129642 hgsc.bcm.edu 37 2 9013424 9013424 + Missense_Mutation SNP C C T rs34573615 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 95.0 61.0 97.0 0.0 0.642105 0 C|0.994;T|0.006 0.006 strong . MBOAT2 36 . NM_138799 exon8 c.G697A p.V233I GAACAACCGCAGT . PASS Atlas-SNP SMARCA2 6595 hgsc.bcm.edu 37 9 2029196 2029196 + Silent SNP G G A rs10964470 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 111.0 56.0 91.0 0.0 0.504505 0 G|0.950;A|0.050 0.050 strong . SMARCA2 313 . NM_139045 exon2 c.G174A p.P58P TATGCCGACGATG . PASS Atlas-SNP IRF4 3662 hgsc.bcm.edu 37 6 393330 393330 + Missense_Mutation SNP C C A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 75.0 31.0 69.0 0.0 0.413333 0 . . none IRF4_ENST00000380956,NS,lymphoid_neoplasm,-2,2 IRF4 65 2 NM_001195286 exon2 c.C178A p.Q60K GGCAAGCAGGACT . PASS Atlas-SNP ACOT1 641371 hgsc.bcm.edu 37 14 74008304 74008304 + Missense_Mutation SNP G G A rs146335256 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 258.0 257.0 241.0 0.0 0.996124 0 G|0.989;A|0.011 0.011 strong . ACOT1 12 . NM_001037161 exon2 c.G565A p.A189T GCTCTGGCTTACT . PASS Atlas-SNP SIGLEC9 27180 hgsc.bcm.edu 37 19 51628622 51628622 + Missense_Mutation SNP A A C rs16988910 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 54.0 28.0 60.0 0.0 0.518519 0 A|0.895;C|0.105 0.105 strong . SIGLEC9 85 . NM_001198558 exon1 c.A391C p.K131Q AATTATAAACATC . PASS Atlas-SNP RSBN1L 222194 hgsc.bcm.edu 37 7 77325919 77325919 + Missense_Mutation SNP G G A rs79095281 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 67.0 39.0 60.0 0.0 0.58209 0 G|0.973;A|0.027 0.027 strong . RSBN1L 74 . NM_198467 exon1 c.G133A p.V45I AAGAAGGTCCGGA . PASS Atlas-SNP LRPPRC 10128 hgsc.bcm.edu 37 2 44172496 44172496 + Silent SNP T T C rs145963884 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 130.0 54.0 96.0 0.0 0.415385 0 T|0.999;C|0.001 0.001 strong . LRPPRC 105 . NM_133259 exon22 c.A2271G p.V757V TGCCAATACTCTT . PASS Atlas-SNP FBXW9 84261 hgsc.bcm.edu 37 19 12805525 12805525 + Silent SNP G G C rs10416965 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 82.0 41.0 70.0 0.0 0.5 0 G|0.921;C|0.079 0.079 strong . FBXW9 30 . NM_032301 exon3 c.C561G p.L187L CAGACAGAGTGAC . PASS Atlas-SNP MYOM2 9172 hgsc.bcm.edu 37 8 2050564 2050564 + Silent SNP G G A rs34460811 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 53.0 21.0 53.0 0.0 0.396226 0 G|0.991;A|0.009 0.009 strong . MYOM2 251 . NM_003970 exon21 c.G2727A p.A909A AGAGGCGAGACCA . PASS Atlas-SNP ADAM28 10863 hgsc.bcm.edu 37 8 24184088 24184088 + Silent SNP G G T rs113950884 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 216.0 106.0 217.0 0.0 0.490741 0 G|0.998;T|0.002 0.002 strong . ADAM28 100 . NM_014265 exon10 c.G912T p.T304T TGGAACGACTGTG . PASS Atlas-SNP CACNA1H 8912 hgsc.bcm.edu 37 16 1255206 1255206 + Silent SNP C C T rs28365123 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 65.0 38.0 67.0 0.0 0.584615 0 C|0.953;T|0.047 0.047 strong . CACNA1H 317 . NM_021098 exon11 c.C2544T p.G848G CTGCGGCCCTCTG . PASS Atlas-SNP EPHA7 2045 hgsc.bcm.edu 37 6 93982100 93982100 + Silent SNP C C T rs34302170 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 174.0 92.0 224.0 0.0 0.528736 0 C|0.963;T|0.037 0.037 strong . EPHA7 251 . NM_004440 exon6 c.G1365A p.L455L CCGCTGCAGTACT . PASS Atlas-SNP TREML1 340205 hgsc.bcm.edu 37 6 41117586 41117586 + Missense_Mutation SNP T T G rs34254490 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 148.0 77.0 138.0 0.0 0.52027 0 T|0.975;G|0.025 0.025 strong . TREML1 20 . NM_178174 exon6 c.A692C p.H231P CTAATGTGTGGTA . PASS Atlas-SNP CCT8L2 150160 hgsc.bcm.edu 37 22 17071899 17071899 + Silent SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 173.0 94.0 148.0 0.0 0.543353 0 . . none CCT8L2,NS,carcinoma,-2,2 CCT8L2 150 2 NM_014406 exon1 c.C1542T p.L514L AGTCACGAGCTGT . PASS Atlas-SNP ZNF354C 30832 hgsc.bcm.edu 37 5 178505831 178505831 + Missense_Mutation SNP A A G rs57271258 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 179.0 99.0 187.0 0.0 0.553073 0 A|0.974;G|0.026 0.026 strong ZNF354C,caecum,carcinoma,0,1 ZNF354C 77 1 NM_014594 exon5 c.A398G p.E133G AGAGCGAGATAGA . PASS Atlas-SNP ZNF444 55311 hgsc.bcm.edu 37 19 56671359 56671359 + Missense_Mutation SNP C C G rs145075834 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 6.0 6.0 21.0 0.0 1 0 C|0.987;G|0.013 0.013 strong . ZNF444 15 . NM_018337 exon5 c.C773G p.T258S GCAAGACCTTCTA . PASS Atlas-SNP C16orf88 400506 hgsc.bcm.edu 37 16 19726124 19726124 + Silent SNP G G A rs58543897 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 107.0 54.0 91.0 0.0 0.504673 0 G|0.972;A|0.028 0.028 strong . C16orf88 41 . NM_001012991 exon2 c.C234T p.C78C CTCCTCGCAAAGG . PASS Atlas-SNP TDP1 55775 hgsc.bcm.edu 37 14 90429858 90429858 + Missense_Mutation SNP G G A rs28365054 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 99.0 54.0 80.0 0.0 0.545455 0 G|0.892;A|0.108 0.108 strong . TDP1 47 . NM_018319 exon3 c.G400A p.A134T GCTCCCGCCTGCC . PASS Atlas-SNP HOXD9 3235 hgsc.bcm.edu 37 2 176988765 176988765 + Silent SNP C C T rs35649704 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 170.0 86.0 162.0 0.0 0.505882 0 C|0.987;T|0.013 0.013 strong . HOXD9 49 . NM_014213 exon2 c.C921T p.N307N CTTCAACATGTAC . PASS Atlas-SNP CR1L 1379 hgsc.bcm.edu 37 1 207890818 207890818 + Missense_Mutation SNP G G A rs113806677 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 210.0 112.0 262.0 0.0 0.533333 0 G|0.976;A|0.024 0.024 strong CR1L_ENST00000508064,NS,carcinoma,-1,1 CR1L 97 1 NM_175710 exon11 c.G1424A p.C475Y TCTTTTGTCCAAA . PASS Atlas-SNP C1orf168 199920 hgsc.bcm.edu 37 1 57186000 57186000 + Silent SNP G G A rs76493848 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 86.0 41.0 103.0 0.0 0.476744 0 G|0.987;A|0.013 0.013 strong . C1orf168 102 . NM_001004303 exon18 c.C1977T p.Y659Y TTTGTCGTACTGA . PASS Atlas-SNP SRP68 6730 hgsc.bcm.edu 37 17 74060168 74060168 + Silent SNP T T C rs58471646 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 273.0 115.0 222.0 1.0 0.421245 0.0045045 T|0.925;C|0.075 0.075 strong SRP68,rectum,carcinoma,-1,1 SRP68 61 1 NM_014230 exon4 c.A450G p.R150R CCGTTTTCGGGGT . scavenged Atlas-SNP HMHA1 23526 hgsc.bcm.edu 37 19 1079968 1079968 + Silent SNP G G A rs34047143 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 84.0 42.0 78.0 0.0 0.5 0 G|0.962;A|0.038 0.038 strong . HMHA1 78 . NM_001258328 exon13 c.G1602A p.A534A GACGGCGCCGCTG . PASS Atlas-SNP GNMT 27232 hgsc.bcm.edu 37 6 42930877 42930877 + Silent SNP G G A rs147291064 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 82.0 39.0 65.0 0.0 0.47561 0 G|0.993;A|0.007 0.007 strong . GNMT 13 . NM_018960 exon4 c.G519A p.L173L CCTACTGGTCATT . PASS Atlas-SNP LPP 4026 hgsc.bcm.edu 37 3 188327555 188327555 + Missense_Mutation SNP T T C rs7645635 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 111.0 52.0 116.0 0.0 0.468468 0 T|0.786;C|0.214 0.214 strong . LPP 72 . NM_005578 exon6 c.T1036C p.Y346H GGGATGTATCCAG . PASS Atlas-SNP MYO7B 4648 hgsc.bcm.edu 37 2 128378009 128378009 + Missense_Mutation SNP G G A rs199900811 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 236.0 120.0 205.0 0.0 0.508475 0 G|0.997;A|0.003 0.003 strong . MYO7B 359 . NM_001080527 exon26 c.G3415A p.G1139S TGCCTCGGCTGCT . PASS Atlas-SNP SPTA1 6708 hgsc.bcm.edu 37 1 158623092 158623092 + Missense_Mutation SNP T T A rs145054175 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 124.0 62.0 137.0 2.0 0.5 0.0145985 T|0.996;A|0.004 0.004 strong SPTA1,NS,carcinoma,+1,1 SPTA1 720 1 NM_003126 exon22 c.A3160T p.T1054S GCTGGGTGATGTT . scavenged Atlas-SNP SIGLEC12 89858 hgsc.bcm.edu 37 19 51994926 51994926 + Missense_Mutation SNP T T C rs7245807 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 124.0 71.0 113.0 0.0 0.572581 0 T|0.956;C|0.044 0.044 strong . SIGLEC12 243 . NM_053003 exon8 c.A1757G p.Y586C TACTCATAGCCGA . PASS Atlas-SNP PTGFR 5737 hgsc.bcm.edu 37 1 78959081 78959081 + Missense_Mutation SNP T T C rs115994459 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 142.0 61.0 126.0 0.0 0.429577 0 T|0.995;C|0.005 0.005 strong . PTGFR 121 . NM_000959 exon2 c.T653C p.L218S CATTGTTGTGCAA . PASS Atlas-SNP CEMP1 752014 hgsc.bcm.edu 37 16 2580912 2580912 + Missense_Mutation SNP T T C rs13331643 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 85.0 85.0 79.0 0.0 1 0 T|0.955;C|0.045 0.045 strong . CEMP1 17 . NM_001048212 exon1 c.A163G p.K55E ACCCCTTAGGAAG . PASS Atlas-SNP CGN 57530 hgsc.bcm.edu 37 1 151496718 151496718 + Missense_Mutation SNP C C T rs16833336 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 85.0 34.0 67.0 0.0 0.4 0 C|0.961;T|0.039 0.039 strong CGN,colon,carcinoma,-1,2 CGN 106 2 NM_020770 exon7 c.C1285T p.R429C ATGAAGCGCCTCT . PASS Atlas-SNP CD109 135228 hgsc.bcm.edu 37 6 74521948 74521948 + Silent SNP G G T rs61063525 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 193.0 84.0 187.0 0.0 0.435233 0 G|0.971;T|0.029 0.029 strong . CD109 170 . NM_133493 exon29 c.G3723T p.T1241T GCCAACGGCAGTT . PASS Atlas-SNP OGT 8473 hgsc.bcm.edu 37 X 70777435 70777435 + Silent SNP G G A rs34739713 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 185.0 90.0 156.0 0.0 0.486486 0 G|0.947;A|0.053 0.053 strong . OGT 207 . NM_181672 exon12 c.G1515A p.V505V TTCTGTGCATCCT . PASS Atlas-SNP FLG 2312 hgsc.bcm.edu 37 1 152276603 152276603 + Missense_Mutation SNP C C T rs111939167 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 581.0 297.0 609.0 0.0 0.511188 0 T|1.000;|0.000 1.000 weak FLG,NS,carcinoma,0,1 FLG 900 1 NM_002016 exon3 c.G10759A p.G3587S CGTGACCGGCTCT . PASS Atlas-SNP BRD4 23476 hgsc.bcm.edu 37 19 15355540 15355540 + Missense_Mutation SNP G G A rs149185763 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 142.0 71.0 107.0 0.0 0.5 0 A|0.001;G|0.999 0.001 strong . BRD4 172 . NM_058243 exon12 c.C2192T p.P731L CTCCCGGGGTGCC . PASS Atlas-SNP CSMD2 114784 hgsc.bcm.edu 37 1 34174737 34174737 + Silent SNP A A G rs10914765 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 105.0 52.0 94.0 0.0 0.495238 0 A|0.972;G|0.028 0.028 strong . CSMD2 946 . NM_052896 exon22 c.T3408C p.I1136I CAGCTGAATTCCC . PASS Atlas-SNP CYP2C8 1558 hgsc.bcm.edu 37 10 96818106 96818106 + Missense_Mutation SNP T T A rs11572103 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 136.0 73.0 138.0 0.0 0.536765 0 T|0.950;A|0.050 0.050 strong . CYP2C8 73 . NM_000770 exon5 c.A805T p.I269F TTTTGATCAGGAA . PASS Atlas-SNP RREB1 6239 hgsc.bcm.edu 37 6 7231736 7231736 + Missense_Mutation SNP G G T rs116295722 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 110.0 58.0 104.0 0.0 0.527273 0 G|0.997;T|0.003 0.003 strong . RREB1 242 . NM_001003700 exon10 c.G3404T p.S1135I CCAGCAGCCCAGA . PASS Atlas-SNP SCARB2 950 hgsc.bcm.edu 37 4 77102148 77102148 + Missense_Mutation SNP G G C rs143558324 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 61.0 33.0 61.0 0.0 0.540984 0 G|0.999;C|0.001 0.001 strong . SCARB2 47 . NM_005506 exon3 c.C382G p.P128A TTTTAGGGTCTCC . PASS Atlas-SNP TCHHL1 126637 hgsc.bcm.edu 37 1 152060495 152060495 + Missense_Mutation SNP C C T rs76137589 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 120.0 51.0 127.0 0.0 0.425 0 C|0.985;T|0.015 0.015 strong . TCHHL1 132 . NM_001008536 exon2 c.G125A p.G42E AAGTCCCCAAACT . PASS Atlas-SNP GPATCH4 54865 hgsc.bcm.edu 37 1 156565389 156565389 + Silent SNP C C T rs145851878 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 284.0 130.0 237.0 0.0 0.457746 0 C|0.988;T|0.012 0.012 strong . GPATCH4 34 . NM_015590 exon8 c.G744A p.K248K CCTTTTCTTCTTC . PASS Atlas-SNP TRIB1 10221 hgsc.bcm.edu 37 8 126448674 126448674 + Missense_Mutation SNP G G T rs16900603 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 134.0 75.0 114.0 0.0 0.559702 0 G|0.974;T|0.026 0.026 strong . TRIB1 73 . NM_025195 exon3 c.G1080T p.E360D TCCAGAGTACCAG . PASS Atlas-SNP NAPG 8774 hgsc.bcm.edu 37 18 10539774 10539774 + Missense_Mutation SNP C C T rs2228300 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 115.0 48.0 132.0 0.0 0.417391 0 C|0.965;T|0.035 0.035 strong . NAPG 18 . NM_003826 exon6 c.C274T p.P92S AAACTACCAGAGG . PASS Atlas-SNP GPRASP2 114928 hgsc.bcm.edu 37 X 101970662 101970662 + Missense_Mutation SNP A A G rs113336462 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 157.0 64.0 130.0 0.0 0.407643 0 A|0.986;G|0.014 0.014 strong . GPRASP2 89 . NM_138437 exon4 c.A865G p.S289G GAGGCCAGCAACC . PASS Atlas-SNP ADCY7 113 hgsc.bcm.edu 37 16 50344627 50344627 + Silent SNP C C T rs140505854 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 142.0 71.0 127.0 0.0 0.5 0 C|1.000;T|0.000 0.000 weak . ADCY7 90 . NM_001114 exon18 c.C2190T p.F730F GGGCTTCATCGCC . PASS Atlas-SNP KRTAP4-5 85289 hgsc.bcm.edu 37 17 39305775 39305775 + Missense_Mutation SNP T T C rs141265645 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 87.0 53.0 137.0 0.0 0.609195 0 . . weak KRTAP4-5,NS,carcinoma,+1,1 KRTAP4-5 34 1 NM_033188 exon1 c.A245G p.Q82R GTGGTCTGGCAGC . PASS Atlas-SNP OR8H3 390152 hgsc.bcm.edu 37 11 55890066 55890066 + Missense_Mutation SNP G G A rs61732941 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 390.0 160.0 368.0 0.0 0.410256 0 G|0.986;A|0.014 0.014 weak . OR8H3 92 . NM_001005201 exon1 c.G218A p.S73N ACCTCAGTTACTC . PASS Atlas-SNP JAK1 3716 hgsc.bcm.edu 37 1 65300305 65300305 + Silent SNP T T C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 166.0 78.0 142.0 0.0 0.46988 0 . . none . JAK1 209 . NM_002227 exon25 c.A3405G p.Q1135Q GGATGGTTGGAAT . PASS Atlas-SNP ARHGAP23 57636 hgsc.bcm.edu 37 17 36623157 36623157 + Silent SNP G G A rs12326006 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 74.0 74.0 70.0 0.0 1 0 G|0.964;A|0.036 0.036 strong . ARHGAP23 48 . NM_001199417 exon7 c.G1233A p.L411L GGGCCTGGATGAC . PASS Atlas-SNP PRR25 388199 hgsc.bcm.edu 37 16 855732 855732 + Missense_Mutation SNP C C T rs115484509 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 68.0 68.0 53.0 0.0 1 0 C|0.977;T|0.023 0.023 strong PRR25,NS,carcinoma,+1,1 PRR25 27 1 NM_001013638 exon1 c.C290T p.A97V GAACAGCGCAGCC . PASS Atlas-SNP CTSG 1511 hgsc.bcm.edu 37 14 25045386 25045386 + Missense_Mutation SNP C C G rs61737123 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 83.0 37.0 77.0 0.0 0.445783 0 C|0.969;G|0.031 0.031 strong . CTSG 63 . NM_001911 exon1 c.G44C p.G15A TCAGCCCCAGTGG . PASS Atlas-SNP FREM2 341640 hgsc.bcm.edu 37 13 39264083 39264083 + Missense_Mutation SNP C C G rs7329939 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 114.0 64.0 112.0 0.0 0.561404 0 C|0.947;G|0.053 0.053 strong . FREM2 385 . NM_207361 exon1 c.C2602G p.L868V TTCACTCTCACTC . PASS Atlas-SNP OR8B2 26595 hgsc.bcm.edu 37 11 124253042 124253042 + Silent SNP G G A rs79763748 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 175.0 87.0 242.0 0.0 0.497143 0 . . weak . OR8B2 42 . NM_001005468 exon1 c.C198T p.L66L GAAGGAGAGATTG . PASS Atlas-SNP RHBDF1 64285 hgsc.bcm.edu 37 16 113027 113027 + Missense_Mutation SNP G G A rs78541046 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 140.0 80.0 96.0 0.0 0.571429 0 G|0.996;A|0.004 0.004 strong . RHBDF1 54 . NM_022450 exon5 c.C616T p.R206C GCTTGCGCCGCCG . PASS Atlas-SNP OR51V1 283111 hgsc.bcm.edu 37 11 5221132 5221132 + Missense_Mutation SNP G G A rs61736992 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 104.0 58.0 117.0 0.0 0.557692 0 G|0.975;A|0.025 0.025 strong . OR51V1 77 . NM_001004760 exon1 c.C799T p.L267F TTGTGAGGCTAAT . PASS Atlas-SNP UBE2L3 7332 hgsc.bcm.edu 37 22 21965298 21965298 + Silent SNP C C G rs61133050 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 459.0 203.0 446.0 0.0 0.442266 0 C|0.964;G|0.036 0.036 strong . UBE2L3 11 . NM_001256355 exon3 c.C450G p.A150A TAGTGCCGAAAAC . PASS Atlas-SNP CYP11B1 1584 hgsc.bcm.edu 37 8 143958291 143958291 + Silent SNP C C T rs6419 byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 184.0 24.0 140.0 1.0 0.130435 0.00714286 C|0.025;T|0.975 0.975 strong CYP11B1,right_lower_lobe,carcinoma,0,1 CYP11B1 128 1 NM_000497 exon4 c.G606A p.L202L AAGAGCCAAGTTG . scavenged Atlas-SNP RNF151 146310 hgsc.bcm.edu 37 16 2018580 2018580 + Missense_Mutation SNP G G A rs62038784 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 77.0 44.0 73.0 0.0 0.571429 0 G|0.970;A|0.030 0.030 strong . RNF151 12 . NM_174903 exon4 c.G392A p.R131Q AGCACCGGCAGCA . PASS Atlas-SNP DNAI2 64446 hgsc.bcm.edu 37 17 72306239 72306239 + Silent SNP C C G rs144035254 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 72.0 30.0 69.0 0.0 0.416667 0 C|0.996;G|0.004 0.004 strong . DNAI2 102 . NM_023036 exon11 c.C1431G p.T477T AACCACCCTGCTG . PASS Atlas-SNP CACNA1H 8912 hgsc.bcm.edu 37 16 1245062 1245062 + Silent SNP C C T rs59794024 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 77.0 34.0 80.0 0.0 0.441558 0 C|0.967;T|0.033 0.033 strong . CACNA1H 317 . NM_021098 exon3 c.C390T p.S130S CGGCTCCGAGCGC . PASS Atlas-SNP GPR176 11245 hgsc.bcm.edu 37 15 40094431 40094431 + Silent SNP C C T rs76578471 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 47.0 21.0 39.0 0.0 0.446809 0 C|0.989;T|0.011 0.011 strong . GPR176 41 . NM_007223 exon3 c.G450A p.L150L CCTCTCCAGTGGA . PASS Atlas-SNP DHRS1 115817 hgsc.bcm.edu 37 14 24768220 24768220 + Silent SNP G G T rs150092528 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 69.0 25.0 59.0 0.0 0.362319 0 G|1.000;T|0.000 0.000 weak . DHRS1 21 . NM_138452 exon2 c.C93A p.G31G TGTGGCGCCTGCT . PASS Atlas-SNP FER 2241 hgsc.bcm.edu 37 5 108281862 108281862 + Missense_Mutation SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 70.0 4.0 77.0 0.0 0.0571429 0 . . none . FER 100 . NM_005246 exon11 c.C1268T p.S423F TTGAATCTATTCG . PASS Atlas-SNP CEBPZ 10153 hgsc.bcm.edu 37 2 37454998 37454998 + Silent SNP A A G rs1803251 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 68.0 36.0 61.0 0.0 0.529412 0 A|0.912;G|0.088 0.088 strong . CEBPZ 68 . NM_005760 exon2 c.T1338C p.N446N CATTTGATTTAAA . PASS Atlas-SNP NELFA 7469 hgsc.bcm.edu 37 4 1985668 1985668 + Silent SNP G G A rs2234574 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 126.0 66.0 70.0 0.0 0.52381 0 G|0.977;A|0.023 0.023 strong . . . . NM_005663 exon9 c.C1242T p.V414V AGGGGCGACAGCC . PASS Atlas-SNP CLDN23 137075 hgsc.bcm.edu 37 8 8559917 8559917 + Silent SNP G G A rs61754917 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 7.0 6.0 6.0 0.0 0.857143 0 G|0.995;A|0.005 0.005 strong . CLDN23 5 . NM_194284 exon1 c.G9A p.T3T GCGGACGCCGGTG . PASS Atlas-SNP ELP2 55250 hgsc.bcm.edu 37 18 33744465 33744465 + Missense_Mutation SNP A A G rs73428967 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 176.0 80.0 143.0 0.0 0.454545 0 A|0.997;G|0.003 0.003 strong . ELP2 70 . NM_001242875 exon19 c.A1984G p.I662V GCTATCATTCTTT . PASS Atlas-SNP SHC2 25759 hgsc.bcm.edu 37 19 422229 422229 + Missense_Mutation SNP C C T rs61750917 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 136.0 62.0 128.0 0.0 0.455882 0 C|0.981;T|0.019 0.019 strong SHC2,colon,carcinoma,0,1 SHC2 47 1 NM_012435 exon11 c.G1537A p.V513I TGGTGACGCTGTC . PASS Atlas-SNP DCAF4L2 138009 hgsc.bcm.edu 37 8 88885256 88885256 + Missense_Mutation SNP G G A rs146716352 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 185.0 87.0 199.0 0.0 0.47027 0 G|0.997;A|0.003 0.003 strong . DCAF4L2 187 . NM_152418 exon1 c.C944T p.S315F TAGGCGGAGTTAT . PASS Atlas-SNP KIAA1671 85379 hgsc.bcm.edu 37 22 25570285 25570285 + Silent SNP C C T rs56351192 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 156.0 155.0 184.0 0.0 0.99359 0 C|0.981;T|0.019 0.019 strong . KIAA1671 28 . NM_001145206 exon6 c.C4728T p.S1576S TCTGTCCTCCCAA . PASS Atlas-SNP DDX24 57062 hgsc.bcm.edu 37 14 94526812 94526812 + Silent SNP C C T rs11845400 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 228.0 118.0 197.0 0.0 0.517544 0 C|0.952;T|0.048 0.048 strong . DDX24 82 . NM_020414 exon5 c.G1545A p.Q515Q AGGAGCCTGATGC . PASS Atlas-SNP NCOA3 8202 hgsc.bcm.edu 37 20 46264805 46264805 + Missense_Mutation SNP C C T rs2230781 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 155.0 87.0 134.0 0.0 0.56129 0 C|0.981;T|0.019 0.019 strong . NCOA3 156 . NM_001174088 exon12 c.C1705T p.P569S ACCCAACCAAGTA . PASS Atlas-SNP LGALS16 148003 hgsc.bcm.edu 37 19 40148584 40148584 + Missense_Mutation SNP T T C rs10403702 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 123.0 71.0 107.0 0.0 0.577236 0 T|0.912;C|0.088 0.088 strong . LGALS16 6 . NM_001190441 exon2 c.T77C p.L26P GGACACTGATCGA . PASS Atlas-SNP ANKRD24 170961 hgsc.bcm.edu 37 19 4216829 4216829 + Missense_Mutation SNP G G A rs61738959 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 29.0 14.0 35.0 0.0 0.482759 0 G|0.982;A|0.018 0.018 strong . ANKRD24 180 . NM_133475 exon18 c.G1672A p.G558R GTTAACGGAGCCG . PASS Atlas-SNP CASS4 57091 hgsc.bcm.edu 37 20 55027509 55027509 + Missense_Mutation SNP C C T rs34899200 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 87.0 45.0 82.0 0.0 0.517241 0 C|0.984;T|0.016 0.016 strong CASS4,rectum,adenoma,-1,1 CASS4 121 1 NM_020356 exon5 c.C1277T p.S426L CTTCCTCGGAGGA . PASS Atlas-SNP ARNTL2 56938 hgsc.bcm.edu 37 12 27543028 27543028 + Splice_Site SNP G G A rs113615248 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 151.0 78.0 172.0 0.0 0.516556 0 G|0.991;A|0.009 0.009 strong . ARNTL2 54 . NM_001248005 exon7 c.665-1G>A . ACGAAAGCTGGTT . PASS Atlas-SNP PELI2 57161 hgsc.bcm.edu 37 14 56763743 56763743 + Silent SNP G G T rs112097284 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 71.0 34.0 76.0 0.0 0.478873 0 G|0.979;T|0.021 0.021 strong . PELI2 55 . NM_021255 exon6 c.G1122T p.S374S GTGCTCGGAGAAG . PASS Atlas-SNP OR10T2 128360 hgsc.bcm.edu 37 1 158369025 158369025 + Missense_Mutation SNP T T C rs6662597 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 91.0 53.0 96.0 0.0 0.582418 0 T|0.985;C|0.015 0.015 strong . OR10T2 76 . NM_001004475 exon1 c.A232G p.I78V GGATGATGACAAA . PASS Atlas-SNP IFLTD1 160492 hgsc.bcm.edu 37 12 25672945 25672945 + Missense_Mutation SNP T T C rs34326830 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 155.0 81.0 169.0 0.0 0.522581 0 T|0.980;C|0.020 0.020 strong . IFLTD1 121 . NM_001145728 exon7 c.A863G p.E288G TTAAATTCAACGT . PASS Atlas-SNP CYP4F12 66002 hgsc.bcm.edu 37 19 15793238 15793238 + Silent SNP C C T rs144258147 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 342.0 74.0 270.0 0.0 0.216374 0 C|0.990;T|0.010 0.010 strong . CYP4F12 89 . NM_023944 exon6 c.C565T p.L189L AGTTGTCTGGACA . PASS Atlas-SNP ZNF211 10520 hgsc.bcm.edu 37 19 58152182 58152182 + Missense_Mutation SNP G G A rs34897843 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 242.0 115.0 251.0 0.0 0.475207 0 G|0.991;A|0.009 0.009 strong . ZNF211 78 . NM_001265597 exon5 c.G523A p.D175N AATGCCGACTCCT . PASS Atlas-SNP CDH19 28513 hgsc.bcm.edu 37 18 64235877 64235877 + Missense_Mutation SNP G G A rs114375304 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 107.0 49.0 107.0 0.0 0.457944 0 G|0.980;A|0.020 0.020 strong CDH19,NS,carcinoma,-1,1 CDH19 141 1 NM_021153 exon3 c.C266T p.T89I ATAAAAGTACTTC . PASS Atlas-SNP ADD1 118 hgsc.bcm.edu 37 4 2896419 2896419 + Silent SNP G G A rs112813723 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 294.0 148.0 240.0 0.0 0.503401 0 G|0.988;A|0.012 0.012 strong . ADD1 56 . NM_014190 exon6 c.G702A p.V234V GGACGTGAAGTGC . PASS Atlas-SNP DNAH17 8632 hgsc.bcm.edu 37 17 76447617 76447617 + Silent SNP A A G rs34002770 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 267.0 125.0 237.0 0.0 0.468165 0 A|0.969;G|0.031 0.031 strong . DNAH17 347 . NM_173628 exon66 c.T10668C p.D3556D GAGTCCATCCCTG . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195515726 195515726 + Missense_Mutation SNP G G C rs55697302 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 275.0 136.0 226.0 0.0 0.494545 0 G|0.942;C|0.058 0.058 strong . MUC4 1505 . NM_018406 exon2 c.C2725G p.Q909E GAGTCTGGGCCAT . PASS Atlas-SNP ZNF230 7773 hgsc.bcm.edu 37 19 44514859 44514859 + Missense_Mutation SNP C C T rs147553354 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 120.0 50.0 110.0 0.0 0.416667 0 C|0.998;T|0.002 0.002 strong . ZNF230 44 . NM_006300 exon5 c.C668T p.P223L AGAAACCATTCAA . PASS Atlas-SNP OR4D9 390199 hgsc.bcm.edu 37 11 59282960 59282960 + Missense_Mutation SNP C C G rs113146895 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 169.0 82.0 176.0 0.0 0.485207 0 C|0.979;G|0.021 0.021 strong . OR4D9 47 . NM_001004711 exon1 c.C575G p.T192S CTGACACCTTCAC . PASS Atlas-SNP PRAMEF2 65122 hgsc.bcm.edu 37 1 12919145 12919145 + Missense_Mutation SNP G G A rs149655365 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 195.0 100.0 156.0 0.0 0.512821 0 G|0.957;A|0.043 0.043 strong . PRAMEF2 85 . NM_023014 exon2 c.G281A p.R94H AGGATCGCCCCAG . PASS Atlas-SNP SEPT9 10801 hgsc.bcm.edu 37 17 75471762 75471762 + Silent SNP G G A rs312821 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 83.0 44.0 66.0 0.0 0.53012 0 G|0.937;A|0.063 0.063 strong . SEPT9 105 . NM_001113495 exon1 c.G162A p.T54T GCCCACGCTGGGC . PASS Atlas-SNP FAT3 120114 hgsc.bcm.edu 37 11 92616006 92616006 + Silent SNP C C T rs58474174 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 115.0 47.0 140.0 0.0 0.408696 0 C|0.976;T|0.024 0.024 strong . FAT3 1822 . NM_001008781 exon23 c.C12384T p.Y4128Y GGGCTACGTGGGC . PASS Atlas-SNP CDH23 64072 hgsc.bcm.edu 37 10 73551088 73551088 + Silent SNP G G A rs55964031 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 90.0 44.0 80.0 1.0 0.488889 0.0125 G|0.974;A|0.026 0.026 strong CDH23,NS,carcinoma,0,1 CDH23 365 1 NM_022124 exon45 c.G6249A p.P2083P CTGCCCGCCTGGT . scavenged Atlas-SNP LPA 4018 hgsc.bcm.edu 37 6 160977167 160977167 + Silent SNP G G T rs375904594 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 361.0 33.0 342.0 2.0 0.0914127 0.00584795 . . weak LPA,right_upper_lobe,carcinoma,-1,1 LPA 237 1 NM_005577 exon31 c.C4863A p.G1621G ACTCTGGCCATTA . scavenged Atlas-SNP APTX 54840 hgsc.bcm.edu 37 9 32984803 32984803 + Missense_Mutation SNP C C T rs150886026 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 112.0 63.0 108.0 0.0 0.5625 0 C|0.994;T|0.006 0.006 strong . APTX 44 . NM_001195248 exon6 c.G638A p.R213H TGGTAACGGGCCT . PASS Atlas-SNP SMTN 6525 hgsc.bcm.edu 37 22 31478942 31478942 + Silent SNP G G A rs73408133 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 38.0 76.0 0.0 0.38 0 G|0.963;A|0.037 0.037 strong . SMTN 219 . NM_001207017 exon1 c.G36A p.A12A ACTGGCGGCCAAG . PASS Atlas-SNP PKD1L2 114780 hgsc.bcm.edu 37 16 81242184 81242184 + Silent SNP T T C rs9927930 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 47.0 21.0 37.0 0.0 0.446809 0 T|0.951;C|0.049 0.049 strong . PKD1L2 361 . NM_001076780 exon4 c.A672G p.S224S CTGGCATGACTGT . PASS Atlas-SNP AIP 9049 hgsc.bcm.edu 37 11 67258362 67258362 + Silent SNP C C A rs35665586 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 148.0 70.0 149.0 0.0 0.472973 0 C|0.995;A|0.005 0.005 strong . AIP 26 . NM_003977 exon6 c.C891A p.A297A CCCAGCCCTGGCG . PASS Atlas-SNP OR52E2 119678 hgsc.bcm.edu 37 11 5080523 5080523 + Missense_Mutation SNP A A G rs144077173 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 91.0 47.0 87.0 0.0 0.516484 0 A|0.999;G|0.001 0.001 strong . OR52E2 63 . NM_001005164 exon1 c.T335C p.M112T GACTCCATAAGTG . PASS Atlas-SNP ANKRD45 339416 hgsc.bcm.edu 37 1 173596257 173596257 + Missense_Mutation SNP A A T rs12059066 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 54.0 53.0 67.0 0.0 0.981481 0 A|0.814;T|0.186 0.186 strong . ANKRD45 36 . NM_198493 exon4 c.T538A p.L180I CAGCTAAAGAGAC . PASS Atlas-SNP SIGLEC1 6614 hgsc.bcm.edu 37 20 3672746 3672746 + Silent SNP G G A rs34921899 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 41.0 22.0 39.0 0.0 0.536585 0 G|0.979;A|0.021 0.021 strong . SIGLEC1 210 . NM_023068 exon16 c.C4134T p.A1378A AGATAGGGCCAGC . PASS Atlas-SNP KDM1A 23028 hgsc.bcm.edu 37 1 23395037 23395037 + Silent SNP T T C rs145865107 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 130.0 71.0 98.0 0.0 0.546154 0 T|0.998;C|0.002 0.002 strong . KDM1A 49 . NM_001009999 exon11 c.T1185C p.P395P GGTTCCTAAAGAG . PASS Atlas-SNP CCDC157 550631 hgsc.bcm.edu 37 22 30765502 30765502 + Silent SNP G G C rs5749080 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 107.0 69.0 96.0 0.0 0.64486 0 A|0.198;C|0.000;G|0.802 0.000 strong . CCDC157 86 . NM_001017437 exon4 c.G330C p.A110A GGCTGCGGGGCCC . PASS Atlas-SNP ZDHHC20 253832 hgsc.bcm.edu 37 13 21987823 21987823 + Missense_Mutation SNP G G A rs151151710 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 51.0 25.0 58.0 0.0 0.490196 0 G|0.994;A|0.006 0.006 strong ZDHHC20_ENST00000382466,NS,carcinoma,0,2 ZDHHC20 36 2 NM_153251 exon4 c.C338T p.A113V GGTAAAGCTCTTG . PASS Atlas-SNP TEP1 7011 hgsc.bcm.edu 37 14 20873695 20873695 + Missense_Mutation SNP A A G rs148090256 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 57.0 29.0 64.0 0.0 0.508772 0 A|0.994;G|0.006 0.006 strong TEP1,caecum,carcinoma,0,1 TEP1 224 1 NM_007110 exon4 c.T785C p.M262T TTGTTCATGTTTA . PASS Atlas-SNP WDR87 83889 hgsc.bcm.edu 37 19 38377417 38377417 + Silent SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 74.0 11.0 82.0 0.0 0.148649 0 . . none . WDR87 191 . NM_031951 exon6 c.G6777A p.E2259E CTCCTCCTCCTCC . PASS Atlas-SNP SHROOM3 57619 hgsc.bcm.edu 37 4 77660550 77660550 + Silent SNP T T C rs61745983 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 132.0 58.0 136.0 0.0 0.439394 0 T|0.978;C|0.022 0.022 strong . SHROOM3 134 . NM_020859 exon5 c.T1224C p.D408D CCTTGATCAGAAA . PASS Atlas-SNP TRAPPC12 51112 hgsc.bcm.edu 37 2 3425731 3425731 + Missense_Mutation SNP G G A rs35775829 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 176.0 87.0 133.0 0.0 0.494318 0 G|0.992;A|0.008 0.008 strong . . . . NM_016030 exon4 c.G1244A p.G415E AGAGCGGGCTGCT . PASS Atlas-SNP DNAH10 196385 hgsc.bcm.edu 37 12 124288213 124288213 + Missense_Mutation SNP G G A rs77726895 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 37.0 23.0 61.0 0.0 0.621622 0 G|0.980;A|0.020 0.020 strong . DNAH10 888 . NM_207437 exon16 c.G2266A p.G756S GGTATCGGTGACT . PASS Atlas-SNP LZTS1 11178 hgsc.bcm.edu 37 8 20107325 20107325 + Missense_Mutation SNP G G C rs114929298 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 121.0 71.0 135.0 0.0 0.586777 0 G|0.995;C|0.005 0.005 strong . LZTS1 72 . NM_021020 exon3 c.C1699G p.L567V GTGCCAGCTGCTG . PASS Atlas-SNP RFPL3 10738 hgsc.bcm.edu 37 22 32756807 32756807 + Silent SNP G G C rs78565810 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 216.0 86.0 198.0 0.0 0.398148 0 G|0.978;C|0.022 0.022 strong . RFPL3 91 . NM_001098535 exon2 c.G942C p.G314G TCCTGGGGAGGCC . PASS Atlas-SNP RGS8 85397 hgsc.bcm.edu 37 1 182640848 182640848 + Silent SNP G G A rs115960776 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 215.0 80.0 286.0 0.0 0.372093 0 G|0.981;A|0.019 0.019 strong . RGS8 51 . NM_033345 exon2 c.C24T p.S8S AGAGAGGCTTCGG . PASS Atlas-SNP HERC6 55008 hgsc.bcm.edu 37 4 89338691 89338691 + Missense_Mutation SNP A A G rs190243300 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 59.0 24.0 53.0 0.0 0.40678 0 A|0.998;G|0.002 0.002 strong . HERC6 104 . NM_017912 exon13 c.A1673G p.N558S ACTGTAATGTTAA . PASS Atlas-SNP SERPINB3 6317 hgsc.bcm.edu 37 18 61323228 61323228 + Missense_Mutation SNP C C G rs61748838 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 230.0 121.0 232.0 0.0 0.526087 0 C|0.940;G|0.060 0.060 strong SERPINB3,caecum,carcinoma,0,1 SERPINB3 90 1 NM_006919 exon8 c.G836C p.R279P TCGACACGTGTCT . PASS Atlas-SNP UGGT1 56886 hgsc.bcm.edu 37 2 128870784 128870784 + Silent SNP A A G rs149605444 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 290.0 132.0 243.0 0.0 0.455172 0 A|0.995;G|0.005 0.005 strong . UGGT1 126 . NM_020120 exon6 c.A648G p.S216S TATATCAAAAAGC . PASS Atlas-SNP AGL 178 hgsc.bcm.edu 37 1 100353654 100353654 + Silent SNP A A C rs34230588 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 50.0 21.0 61.0 0.0 0.42 0 A|0.994;C|0.006 0.006 strong . AGL 137 . NM_000644 exon21 c.A2802C p.A934A ATATGCAGGTCTT . PASS Atlas-SNP LAIR2 3904 hgsc.bcm.edu 37 19 55019379 55019379 + Missense_Mutation SNP T T A rs34429135 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 127.0 55.0 107.0 0.0 0.433071 0 T|0.943;A|0.057 0.057 strong . LAIR2 30 . NM_002288 exon3 c.T344A p.F115Y GTGACTTCCTGGA . PASS Atlas-SNP PRKAR2B 5577 hgsc.bcm.edu 37 7 106791447 106791447 + Silent SNP G G A rs3729878 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 209.0 95.0 201.0 0.0 0.454545 0 G|0.953;A|0.047 0.047 strong . PRKAR2B 34 . NM_002736 exon7 c.G822A p.L274L GTCACTGCCATTC . PASS Atlas-SNP FAM135A 57579 hgsc.bcm.edu 37 6 71234960 71234960 + Missense_Mutation SNP A A G rs9455142 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 60.0 22.0 65.0 0.0 0.366667 0 A|0.974;G|0.026 0.026 strong . FAM135A 181 . NM_001162529 exon13 c.A2173G p.I725V CTTTCTATTGGAG . PASS Atlas-SNP PANX1 24145 hgsc.bcm.edu 37 11 93913392 93913392 + Missense_Mutation SNP G G T rs74549886 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 129.0 56.0 136.0 0.0 0.434109 0 G|0.968;T|0.032 0.032 strong . PANX1 38 . NM_015368 exon4 c.G1170T p.E390D GAGAGAGGAGCAG . PASS Atlas-SNP ILDR1 286676 hgsc.bcm.edu 37 3 121712271 121712271 + Missense_Mutation SNP C C T rs34883204 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 102.0 56.0 85.0 1.0 0.54902 0.0117647 C|0.960;T|0.040 0.040 strong ILDR1_ENST00000344209,colon,carcinoma,-1,2 ILDR1 120 2 NM_001199799 exon7 c.G1325A p.R442H TGACAGCGGCTCC . scavenged Atlas-SNP SPTA1 6708 hgsc.bcm.edu 37 1 158623103 158623103 + Missense_Mutation SNP G G A rs116297260 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 130.0 65.0 134.0 0.0 0.5 0 G|0.995;A|0.005 0.005 strong . SPTA1 720 . NM_003126 exon22 c.C3149T p.P1050L TTTCCTGGCTCTT . PASS Atlas-SNP SEMA6A 57556 hgsc.bcm.edu 37 5 115827506 115827506 + Silent SNP G G A rs34096390 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 228.0 91.0 153.0 1.0 0.399123 0.00653595 G|0.979;A|0.021 0.021 strong SEMA6A,NS,carcinoma,-2,1 SEMA6A 93 1 NM_020796 exon7 c.C465T p.F155F ATCCCCGAATGGT . scavenged Atlas-SNP LY75 4065 hgsc.bcm.edu 37 2 160735775 160735775 + Missense_Mutation SNP C C T rs77761086 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 92.0 35.0 117.0 0.0 0.380435 0 C|0.994;T|0.006 0.006 strong . LY75 151 . NM_002349 exon9 c.G1510A p.D504N CCTCATCTGGAGG . PASS Atlas-SNP KRT7 3855 hgsc.bcm.edu 37 12 52636843 52636843 + Silent SNP G G A rs10564 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 85.0 44.0 95.0 0.0 0.517647 0 G|0.964;A|0.036 0.036 strong KRT7,colon,carcinoma,+1,1 KRT7 48 1 NM_005556 exon6 c.G906A p.R302R CCTCCGGAATACC . PASS Atlas-SNP DIS3L2 129563 hgsc.bcm.edu 37 2 232995462 232995462 + Silent SNP A A G rs75061164 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 135.0 72.0 121.0 0.0 0.533333 0 A|0.984;G|0.016 0.016 strong . DIS3L2 77 . NM_001257282 exon7 c.A735G p.Q245Q TGTCCAAATGGCT . PASS Atlas-SNP DROSHA 29102 hgsc.bcm.edu 37 5 31526531 31526531 + Missense_Mutation SNP G G A rs77034974 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 228.0 103.0 200.0 0.0 0.451754 0 G|0.974;A|0.026 0.026 strong . DROSHA 130 . NM_013235 exon4 c.C509T p.P170L TAGCCCGGAGGGT . PASS Atlas-SNP PPL 5493 hgsc.bcm.edu 37 16 4952511 4952511 + Missense_Mutation SNP C C T rs115478590 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 160.0 90.0 128.0 0.0 0.5625 0 C|0.996;T|0.004 0.004 strong . PPL 168 . NM_002705 exon4 c.G334A p.E112K CACGCTCCTTCAG . PASS Atlas-SNP PCDH7 5099 hgsc.bcm.edu 37 4 31144189 31144189 + Silent SNP C C T rs148629328 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 114.0 54.0 102.0 0.0 0.473684 0 C|0.997;T|0.003 0.003 strong . PCDH7 215 . NM_001173523 exon3 c.C3486T p.R1162R GGTCCGCACTTCT . PASS Atlas-SNP ROCK2 9475 hgsc.bcm.edu 37 2 11484212 11484212 + Silent SNP C C A rs368832806 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 53.0 35.0 28.0 0.0 0.660377 0 . . weak ROCK2_ENST00000315872,NS,carcinoma,-2,2 ROCK2 224 2 NM_004850 exon1 c.G51T p.A17A CCCCGGCGCGGTC . PASS Atlas-SNP FAT3 120114 hgsc.bcm.edu 37 11 92538351 92538351 + Silent SNP C C T rs56843577 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 178.0 81.0 172.0 0.0 0.455056 0 C|0.988;T|0.012 0.012 strong . FAT3 1822 . NM_001008781 exon10 c.C8929T p.L2977L CTGGGCCTGGTGC . PASS Atlas-SNP CCDC40 55036 hgsc.bcm.edu 37 17 78032677 78032677 + Silent SNP C C T rs61734950 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 103.0 60.0 122.0 0.0 0.582524 0 C|0.972;T|0.028 0.028 strong . CCDC40 198 . NM_017950 exon9 c.C1338T p.L446L CCAGCTCACCACT . PASS Atlas-SNP NEURL4 84461 hgsc.bcm.edu 37 17 7226082 7226082 + Silent SNP G G A rs116452797 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 52.0 72.0 0.0 0.52 0 G|0.999;A|0.001 0.001 strong . NEURL4 192 . NM_032442 exon16 c.C2697T p.T899T CTTCTCGGTGGCA . PASS Atlas-SNP RDX 5962 hgsc.bcm.edu 37 11 110118459 110118459 + Silent SNP T T C rs139953187 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 163.0 99.0 193.0 0.0 0.607362 0 T|0.989;C|0.011 0.011 strong . RDX 59 . NM_001260493 exon10 c.A1059G p.Q353Q TTCAATTTGTTTT . PASS Atlas-SNP CP 1356 hgsc.bcm.edu 37 3 148901300 148901300 + Missense_Mutation SNP C C T rs115552500 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 67.0 35.0 83.0 0.0 0.522388 0 C|0.987;T|0.013 0.013 strong . CP 112 . NM_000096 exon13 c.G2378A p.R793H GGAACACGGAATG . PASS Atlas-SNP MRPL46 26589 hgsc.bcm.edu 37 15 89002888 89002888 + Missense_Mutation SNP G G T rs146290179 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 122.0 53.0 114.0 0.0 0.434426 0 G|1.000;T|0.000 0.000 weak . MRPL46 13 . NM_022163 exon4 c.C796A p.P266T ATTTTGGTTTCAA . PASS Atlas-SNP MASP2 10747 hgsc.bcm.edu 37 1 11106648 11106648 + Missense_Mutation SNP G G A rs56392418 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 130.0 50.0 109.0 0.0 0.384615 0 G|0.964;A|0.036 0.036 strong . MASP2 71 . NM_139208 exon3 c.C377T p.P126L GTGAACGGCTTCT . PASS Atlas-SNP TCF7L1 83439 hgsc.bcm.edu 37 2 85510654 85510654 + Missense_Mutation SNP T T A rs115942112 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 131.0 57.0 106.0 0.0 0.435115 0 T|0.989;A|0.011 0.011 strong . TCF7L1 44 . NM_031283 exon4 c.T478A p.S160T GTCCCCTCCAGCG . PASS Atlas-SNP RNF207 388591 hgsc.bcm.edu 37 1 6267523 6267523 + Silent SNP C C T rs58587405 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 294.0 152.0 214.0 0.0 0.517007 0 C|0.966;T|0.034 0.034 strong . RNF207 45 . NM_207396 exon3 c.C276T p.G92G GGATGGCGTGGAG . PASS Atlas-SNP CCDC92 80212 hgsc.bcm.edu 37 12 124421764 124421764 + Silent SNP C C T rs34241686 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 22.0 10.0 13.0 0.0 0.454545 0 C|0.996;T|0.004 0.004 strong . CCDC92 18 . NM_025140 exon5 c.G837A p.P279P GCGGGCCGGGCTG . PASS Atlas-SNP MICALL1 85377 hgsc.bcm.edu 37 22 38302469 38302469 + Missense_Mutation SNP C C T rs146549351 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 4.0 4.0 5.0 0.0 1 0 C|0.942;T|0.058 0.058 strong . MICALL1 53 . NM_033386 exon1 c.C40T p.R14C TGCCGCCGCCAGT . PASS Atlas-SNP IGLL1 3543 hgsc.bcm.edu 37 22 23917176 23917176 + Silent SNP G G A rs115303391 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 154.0 72.0 110.0 0.0 0.467532 0 G|0.965;A|0.035 0.035 strong . IGLL1 27 . NM_020070 exon2 c.C300T p.S100S GGTCCCGCTGCCA . PASS Atlas-SNP MED14 9282 hgsc.bcm.edu 37 X 40551993 40551993 + Silent SNP G G A rs10127014 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 236.0 128.0 178.0 0.0 0.542373 0 G|0.966;A|0.034 0.034 strong . MED14 108 . NM_004229 exon14 c.C1812T p.T604T TTTCCCGGTTTTT . PASS Atlas-SNP HAPLN2 60484 hgsc.bcm.edu 37 1 156593928 156593928 + Missense_Mutation SNP G G T rs149573918 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 213.0 99.0 170.0 0.0 0.464789 0 G|0.986;T|0.014 0.014 strong . HAPLN2 20 . NM_021817 exon4 c.G415T p.V139L GAGAGCGTGGCGC . PASS Atlas-SNP GUCA1C 9626 hgsc.bcm.edu 37 3 108627024 108627024 + Missense_Mutation SNP T T C rs16854916 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 115.0 52.0 101.0 0.0 0.452174 0 T|0.982;C|0.018 0.018 strong . GUCA1C 39 . NM_005459 exon4 c.A475G p.M159V TTGCCATGCCATT . PASS Atlas-SNP C16orf82 162083 hgsc.bcm.edu 37 16 27078547 27078547 + Silent SNP G G C rs114049498 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 66.0 28.0 61.0 0.0 0.424242 0 G|0.968;C|0.032 0.032 strong . . . . NM_001145545 exon1 c.G231C p.P77P GCACCCGAGGCCA . PASS Atlas-SNP CDC42BPA 8476 hgsc.bcm.edu 37 1 227348245 227348245 + Missense_Mutation SNP G G A rs34614709 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 305.0 136.0 311.0 0.0 0.445902 0 G|0.995;A|0.005 0.005 strong . CDC42BPA 528 . NM_003607 exon6 c.C692T p.T231M TTTACCGTTCCAT . PASS Atlas-SNP PRRC2C 23215 hgsc.bcm.edu 37 1 171553209 171553209 + Silent SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 272.0 133.0 254.0 0.0 0.488971 0 . . none . . . . NM_015172 exon29 c.C7518T p.S2506S ACAATCCGGTCTT . PASS Atlas-SNP EFCAB12 90288 hgsc.bcm.edu 37 3 129137245 129137245 + Missense_Mutation SNP T T G rs116798859 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 68.0 41.0 72.0 0.0 0.602941 0 T|0.975;G|0.025 0.025 strong . . . . NM_207307 exon3 c.A533C p.Q178P TGGAGCTGGGGCA . PASS Atlas-SNP ZCCHC18 644353 hgsc.bcm.edu 37 X 103359334 103359334 + Missense_Mutation SNP C C T rs61745269 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 259.0 148.0 314.0 0.0 0.571429 0 C|0.962;T|0.038 0.038 strong . . . . NM_001143978 exon3 c.C532T p.L178F CAACAGCTTCTTT . PASS Atlas-SNP PPFIBP1 8496 hgsc.bcm.edu 37 12 27842052 27842052 + Silent SNP G G A rs61730962 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 167.0 84.0 137.0 0.0 0.502994 0 G|0.949;A|0.051 0.051 strong . PPFIBP1 153 . NM_177444 exon26 c.G2619A p.L873L CCTTCTGATTGGG . PASS Atlas-SNP ARMC1 55156 hgsc.bcm.edu 37 8 66517549 66517549 + Silent SNP T T C rs16932266 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 193.0 103.0 190.0 0.0 0.533679 0 T|0.984;C|0.016 0.016 strong . ARMC1 22 . NM_018120 exon6 c.A606G p.S202S CTTGGTTGATGCT . PASS Atlas-SNP UBR3 130507 hgsc.bcm.edu 37 2 170684548 170684548 + Silent SNP G G A rs79036304 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 16.0 9.0 26.0 0.0 0.5625 0 G|0.940;A|0.060 0.060 strong . UBR3 182 . NM_172070 exon1 c.G531A p.V177V CAACGTGATGCGG . PASS Atlas-SNP HSPA8 3312 hgsc.bcm.edu 37 11 122931337 122931337 + Silent SNP T T C rs147610984 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 132.0 56.0 118.0 0.0 0.424242 0 T|0.989;C|0.011 0.011 strong . HSPA8 168 . NM_006597 exon3 c.A375G p.T125T CATCTTTGTCAGA . PASS Atlas-SNP ZNF433 163059 hgsc.bcm.edu 37 19 12127370 12127370 + Silent SNP G G A rs79787738 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 161.0 72.0 167.0 0.0 0.447205 0 G|0.994;A|0.006 0.006 strong . ZNF433 49 . NM_001080411 exon4 c.C312T p.C104C GCTTTCGCATGAT . PASS Atlas-SNP ZNF585B 92285 hgsc.bcm.edu 37 19 37697988 37697988 + Missense_Mutation SNP T T C rs145040657 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 77.0 39.0 76.0 0.0 0.506494 0 T|1.000;C|0.000 0.000 strong . ZNF585B 91 . NM_152279 exon2 c.A26G p.Q9R GATTTCTGGGGTG . PASS Atlas-SNP EOMES 8320 hgsc.bcm.edu 37 3 27758756 27758756 + Silent SNP G G A rs6783101 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 212.0 99.0 197.0 0.0 0.466981 0 G|0.963;A|0.037 0.037 strong . EOMES 65 . NM_005442 exon6 c.C1866T p.P622P GGAAGGGGGTGTC . PASS Atlas-SNP COG7 91949 hgsc.bcm.edu 37 16 23403744 23403744 + Silent SNP A A G rs8057712 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 132.0 59.0 127.0 0.0 0.44697 0 A|0.910;G|0.090 0.090 strong COG7,NS,malignant_melanoma,-2,1 COG7 62 1 NM_153603 exon16 c.T2103C p.P701P CAGCTCAGGGATC . PASS Atlas-SNP PPIAL4G 644591 hgsc.bcm.edu 37 1 143767730 143767730 + Missense_Mutation SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 1225.0 155.0 1116.0 0.0 0.126531 0 . . none . PPIAL4G 22 . NM_001123068 exon1 c.G119A p.S40N CCAGTGCTCAGAG . PASS Atlas-SNP GRM8 2918 hgsc.bcm.edu 37 7 126173902 126173902 + Missense_Mutation SNP G G C rs61753365 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 111.0 54.0 99.0 1.0 0.486486 0.010101 G|0.968;C|0.032 0.032 strong GRM8,NS,carcinoma,+2,1 GRM8 377 1 NM_000845 exon8 c.C1534G p.P512A ACGCCGGGTGAGT . scavenged Atlas-SNP TMEM64 169200 hgsc.bcm.edu 37 8 91638019 91638019 + Silent SNP T T C rs61741096 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 151.0 68.0 156.0 0.0 0.450331 0 T|0.996;C|0.004 0.004 strong . TMEM64 31 . NM_001008495 exon3 c.A1023G p.V341V ACAAGCTACAATA . PASS Atlas-SNP SLX4 84464 hgsc.bcm.edu 37 16 3640893 3640893 + Missense_Mutation SNP C C A rs79448721 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 343.0 168.0 308.0 0.0 0.489796 0 C|0.990;A|0.010 0.010 strong . SLX4 173 . NM_032444 exon12 c.G2746T p.A916S TGGCGGCCTCATC . PASS Atlas-SNP CDH23 64072 hgsc.bcm.edu 37 10 73377069 73377069 + Silent SNP C C T rs7903475 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 108.0 52.0 112.0 0.0 0.481481 0 C|0.932;T|0.068 0.068 strong . CDH23 365 . NM_052836 exon11 c.C1053T p.S351S CAGCTCCGAGTAC . PASS Atlas-SNP STARD8 9754 hgsc.bcm.edu 37 X 67938392 67938392 + Missense_Mutation SNP C C T rs58255923 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 147.0 75.0 156.0 0.0 0.510204 0 C|0.955;T|0.045 0.045 strong . STARD8 282 . NM_001142503 exon6 c.C1636T p.P546S GCGGGGCCCCTGG . PASS Atlas-SNP SSPO 23145 hgsc.bcm.edu 37 7 149526071 149526071 + Missense_Mutation SNP G G A rs142321773 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 114.0 56.0 129.0 0.0 0.491228 0 G|0.997;A|0.003 0.003 strong . . . . NM_198455 exon107 c.G15125A p.R5042H CTTGCCGCAGGGA . PASS Atlas-SNP SYTL2 54843 hgsc.bcm.edu 37 11 85435742 85435742 + Silent SNP C C T rs146372321 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 117.0 47.0 117.0 0.0 0.401709 0 C|0.995;T|0.005 0.005 strong . SYTL2 231 . NM_206927 exon1 c.G1758A p.K586K CTCGGCCTTTTCT . PASS Atlas-SNP KIAA1683 80726 hgsc.bcm.edu 37 19 18368748 18368748 + Missense_Mutation SNP C C T rs61740685 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 84.0 40.0 99.0 0.0 0.47619 0 C|0.999;T|0.001 0.001 strong . KIAA1683 190 . NM_001145304 exon4 c.G3346A p.A1116T TCACTGCGAGGAT . PASS Atlas-SNP FAM47C 442444 hgsc.bcm.edu 37 X 37028762 37028762 + Missense_Mutation SNP C C G rs61730910 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 150.0 80.0 123.0 0.0 0.533333 0 C|0.993;G|0.007 0.007 strong . FAM47C 267 . NM_001013736 exon1 c.C2279G p.S760C GCGTATCTCATCT . PASS Atlas-SNP CAP1 10487 hgsc.bcm.edu 37 1 40535945 40535945 + Missense_Mutation SNP A A G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 154.0 82.0 128.0 0.0 0.532468 0 . . none . CAP1 38 . NM_006367 exon10 c.A1108G p.I370V AACTCCATTACAG . PASS Atlas-SNP KRTAP5-8 57830 hgsc.bcm.edu 37 11 71249532 71249532 + Missense_Mutation SNP C C G rs11234084 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 222.0 9.0 158.0 0.0 0.0405405 0 . . weak . KRTAP5-8 28 . NM_021046 exon1 c.C431G p.S144C GCTGTTCCCAGTC . PASS Atlas-SNP SLA2 84174 hgsc.bcm.edu 37 20 35242745 35242745 + Missense_Mutation SNP C C T rs34834764 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 205.0 105.0 176.0 0.0 0.512195 0 C|0.968;T|0.032 0.032 strong . SLA2 12 . NM_032214 exon7 c.G628A p.V210M TCTGCACAGTCAC . PASS Atlas-SNP ACP5 54 hgsc.bcm.edu 37 19 11685948 11685948 + Silent SNP A A G rs77911902 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 158.0 80.0 163.0 0.0 0.506329 0 A|0.967;G|0.033 0.033 strong . ACP5 30 . NM_001111034 exon6 c.T855C p.T285T GTCTTCAGTCCCA . PASS Atlas-SNP TSPEAR 54084 hgsc.bcm.edu 37 21 45929192 45929192 + Silent SNP G G A rs115847549 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 184.0 97.0 133.0 0.0 0.527174 0 G|0.988;A|0.012 0.012 strong . TSPEAR 110 . NM_144991 exon10 c.C1644T p.Y548Y CACATCGTAGCTG . PASS Atlas-SNP WNT9A 7483 hgsc.bcm.edu 37 1 228109696 228109696 + Silent SNP G G A rs112703157 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 84.0 30.0 69.0 0.0 0.357143 0 G|0.977;A|0.023 0.023 strong . WNT9A 39 . NM_003395 exon4 c.C621T p.I207I AGCCTTGATCACC . PASS Atlas-SNP MAST4 375449 hgsc.bcm.edu 37 5 66461583 66461583 + Silent SNP C C T rs56201012 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 89.0 40.0 75.0 0.0 0.449438 0 C|0.990;T|0.010 0.010 strong . MAST4 218 . NM_001164664 exon29 c.C6576T p.H2192H CAGCCACAAGCCC . PASS Atlas-SNP PCDHA1 56147 hgsc.bcm.edu 37 5 140167520 140167520 + Missense_Mutation SNP G G A rs61743799 byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 120.0 60.0 81.0 0.0 0.5 0 G|0.961;A|0.039 0.039 strong . PCDHA1 387 . NM_031410 exon1 c.G1645A p.V549M AGCAACGTGACGC . PASS Atlas-SNP SUPT20HL2 170067 hgsc.bcm.edu 37 X 24329793 24329793 + Missense_Mutation SNP C C T rs139232512 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 223.0 129.0 194.0 0.0 0.578475 0 C|0.963;T|0.037 0.037 strong . . . . NM_001136233 exon1 c.G1640A p.R547H GGACGGCGCCTGC . PASS Atlas-SNP BCAN 63827 hgsc.bcm.edu 37 1 156621251 156621251 + Missense_Mutation SNP C C T rs12065791 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 50.0 26.0 35.0 0.0 0.52 0 C|0.949;T|0.051 0.051 strong . BCAN 174 . NM_198427 exon7 c.C1067T p.S356L CAGACTCGGCCCA . PASS Atlas-SNP RGS3 5998 hgsc.bcm.edu 37 9 116224452 116224452 + Missense_Mutation SNP G G A rs16933949 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 105.0 72.0 95.0 0.0 0.685714 0 G|0.957;A|0.043 0.043 strong . RGS3 251 . NM_144488 exon4 c.G386A p.R129K GGAAGAGGATCAC . PASS Atlas-SNP OR2T34 127068 hgsc.bcm.edu 37 1 248737419 248737419 + Missense_Mutation SNP T T C rs145854970 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 206.0 17.0 307.0 0.0 0.0825243 0 . . weak OR2T34,NS,carcinoma,+1,2 OR2T34 72 2 NM_001001821 exon1 c.A640G p.T214A TGGGGGTGAGAAG . scavenged Atlas-SNP COL27A1 85301 hgsc.bcm.edu 37 9 116958283 116958283 + Silent SNP G G A rs10982098 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 77.0 27.0 78.0 0.0 0.350649 0 G|0.993;A|0.007 0.007 strong . COL27A1 200 . NM_032888 exon7 c.G2115A p.P705P ACCTCCGGGACGA . PASS Atlas-SNP RECQL4 9401 hgsc.bcm.edu 37 8 145740622 145740622 + Silent SNP C C T rs34948955 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 115.0 49.0 111.0 1.0 0.426087 0.00900901 C|0.997;T|0.003 0.003 strong RECQL4,brain,glioma,0,2 RECQL4 75 2 NM_004260 exon8 c.G1395A p.T465T AGCCGGCGTCTCT . scavenged Atlas-SNP KRTAP10-6 386674 hgsc.bcm.edu 37 21 46011415 46011415 + Silent SNP G G A rs145570198 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 261.0 58.0 358.0 0.0 0.222222 0 G|0.976;A|0.024 0.024 strong . KRTAP10-6 57 . NM_198688 exon1 c.C951T p.C317C GGGCACGCAGCAG . PASS Atlas-SNP LILRB2 10288 hgsc.bcm.edu 37 19 54782173 54782173 + Missense_Mutation SNP A A C rs4993130 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 172.0 77.0 199.0 0.0 0.447674 0 A|1.000;C|0.000 0.000 weak . LILRB2 94 . NM_005874 exon7 c.T1199G p.L400R GAGTTGAGTGAGC . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195507684 195507684 + Silent SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 51.0 24.0 203.0 0.0 0.470588 0 . . none MUC4_ENST00000463781,NS,carcinoma,-2,1 MUC4 1505 1 NM_018406 exon2 c.C10767T p.D3589D GGAAGCGTCGGTG . scavenged Atlas-SNP CEACAM4 1089 hgsc.bcm.edu 37 19 42125709 42125709 + Silent SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 114.0 54.0 100.0 0.0 0.473684 0 . . none CEACAM4,NS,neuroblastoma,0,1 CEACAM4 42 1 NM_001817 exon7 c.C729T p.V243V CTAAGAGACCACA . PASS Atlas-SNP GAS2 2620 hgsc.bcm.edu 37 11 22770669 22770669 + Silent SNP T T C rs7122835 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 121.0 56.0 116.0 0.0 0.46281 0 T|0.988;C|0.012 0.012 strong . GAS2 46 . NM_177553 exon6 c.T477C p.Y159Y AAGGTATGGTGTG . PASS Atlas-SNP SLC24A1 9187 hgsc.bcm.edu 37 15 65917349 65917349 + Missense_Mutation SNP G G C rs34363823 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 39.0 17.0 39.0 0.0 0.435897 0 G|0.990;C|0.010 0.010 strong . SLC24A1 58 . NM_004727 exon2 c.G931C p.V311L GGAACAGTCCTGT . PASS Atlas-SNP KRTAP4-3 85290 hgsc.bcm.edu 37 17 39324237 39324237 + Missense_Mutation SNP C C G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 110.0 18.0 420.0 0.0 0.163636 0 . . none KRTAP4-3,NS,carcinoma,-1,1 KRTAP4-3 40 1 NM_033187 exon1 c.G188C p.S63T CAGCAGCTGGGTT . scavenged Atlas-SNP GALK2 2585 hgsc.bcm.edu 37 15 49574223 49574223 + Missense_Mutation SNP A A G rs35507772 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 134.0 75.0 133.0 0.0 0.559702 0 A|0.992;G|0.008 0.008 strong . GALK2 78 . NM_002044 exon6 c.A544G p.I182V CGTTACATTGGCA . PASS Atlas-SNP NADK 65220 hgsc.bcm.edu 37 1 1688719 1688719 + Silent SNP C C A rs78921781 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 73.0 39.0 71.0 0.0 0.534247 0 C|0.995;A|0.005 0.005 strong . NADK 79 . NM_001198994 exon6 c.G606T p.L202L CCACGTCAGCCGC . PASS Atlas-SNP OR4A5 81318 hgsc.bcm.edu 37 11 51411817 51411817 + Silent SNP G G A rs144502772 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 105.0 58.0 88.0 0.0 0.552381 0 G|0.993;A|0.007 0.007 strong . OR4A5 116 . NM_001005272 exon1 c.C579T p.G193G AGTGAGGCCTATA . PASS Atlas-SNP AHNAK2 113146 hgsc.bcm.edu 37 14 105417777 105417777 + Silent SNP C C T rs1960092 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 255.0 254.0 374.0 0.0 0.996078 0 C|0.959;T|0.041 0.041 strong . AHNAK2 719 . NM_138420 exon7 c.G4011A p.S1337S CCCGAACGACGGC . PASS Atlas-SNP OR10K1 391109 hgsc.bcm.edu 37 1 158435572 158435572 + Missense_Mutation SNP C C T rs78779179 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 474.0 204.0 490.0 0.0 0.43038 0 C|0.966;T|0.034 0.034 strong . OR10K1 80 . NM_001004473 exon1 c.C221T p.T74I GCTATACCTTTGT . PASS Atlas-SNP OTUD7B 56957 hgsc.bcm.edu 37 1 149916584 149916584 + Silent SNP C C G rs200362140 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 70.0 39.0 63.0 0.0 0.557143 0 C|0.999;G|0.001 0.001 strong . OTUD7B 76 . NM_020205 exon12 c.G1704C p.G568G CCCATCCCCAGCT . PASS Atlas-SNP SSPO 23145 hgsc.bcm.edu 37 7 149506195 149506195 + Missense_Mutation SNP C C T rs73727627 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 292.0 154.0 259.0 1.0 0.527397 0.003861 C|0.978;T|0.022 0.022 strong . . . . NM_198455 exon63 c.C9187T p.R3063C AGGAACCGCACCC . PASS Atlas-SNP EXPH5 23086 hgsc.bcm.edu 37 11 108380609 108380609 + Silent SNP C C T rs115867994 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 157.0 74.0 150.0 0.0 0.471338 0 C|0.986;T|0.014 0.014 strong . EXPH5 193 . NM_015065 exon6 c.G5625A p.R1875R TGCAGACCTGGGA . PASS Atlas-SNP DLG5 9231 hgsc.bcm.edu 37 10 79616520 79616520 + Silent SNP G G C rs12243930 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 198.0 95.0 206.0 0.0 0.479798 0 G|0.857;C|0.143 0.143 strong . DLG5 154 . NM_004747 exon3 c.C504G p.A168A AGCAAAGGCCAGG . PASS Atlas-SNP CEP250 11190 hgsc.bcm.edu 37 20 34091624 34091624 + Silent SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 85.0 41.0 57.0 0.0 0.482353 0 . . none . CEP250 141 . NM_007186 exon30 c.G5427A p.Q1809Q GGCCCAGAGAGCC . PASS Atlas-SNP B3GNT2 10678 hgsc.bcm.edu 37 2 62449664 62449664 + Silent SNP G G A rs72893877 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 132.0 76.0 106.0 0.0 0.575758 0 G|0.996;A|0.004 0.004 strong . B3GNT2 34 . NM_006577 exon2 c.G309A p.T103T GGTCACGTCGGTG . PASS Atlas-SNP ENAM 10117 hgsc.bcm.edu 37 4 71510368 71510368 + Silent SNP C C T rs61737041 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 266.0 127.0 254.0 0.0 0.477444 0 C|0.993;T|0.007 0.007 strong . ENAM 140 . NM_031889 exon9 c.C3225T p.S1075S ATCTAGCGATGGA . PASS Atlas-SNP DMKN 93099 hgsc.bcm.edu 37 19 36002488 36002488 + Missense_Mutation SNP C C A rs57760262 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 40.0 82.0 0.0 0.526316 0 C|0.967;A|0.033 0.033 strong DMKN,NS,carcinoma,+1,1 DMKN 116 1 NM_001126058 exon5 c.G743T p.S248I GAGCCGCTGCCTC . PASS Atlas-SNP TMEM232 642987 hgsc.bcm.edu 37 5 109961032 109961032 + Missense_Mutation SNP C C T rs61730863 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 168.0 89.0 153.0 0.0 0.529762 0 C|0.975;T|0.025 0.025 strong . TMEM232 57 . NM_001039763 exon7 c.G704A p.R235H TCAGAACGGAGTT . PASS Atlas-SNP KRTAP4-4 84616 hgsc.bcm.edu 37 17 39316870 39316870 + Missense_Mutation SNP T T C rs385055 bycluster;byfrequency;by2hit2allele;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 134.0 134.0 188.0 1.0 1 0.00531915 T|0.890;C|0.110 0.110 strong KRTAP4-4,NS,carcinoma,-1,1 KRTAP4-4 21 1 NM_032524 exon1 c.A74G p.Y25C TGGCAGTAGCTGG . PASS Atlas-SNP SLC26A10 65012 hgsc.bcm.edu 37 12 58019388 58019388 + Missense_Mutation SNP C C T rs114079678 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 82.0 35.0 81.0 0.0 0.426829 0 C|0.999;T|0.001 0.001 strong . SLC26A10 89 . NM_133489 exon14 c.C1552T p.R518W CTGACCCGGGTAG . PASS Atlas-SNP ITPKC 80271 hgsc.bcm.edu 37 19 41223387 41223387 + Missense_Mutation SNP A A T rs145275994 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 95.0 44.0 53.0 0.0 0.463158 0 A|0.997;T|0.003 0.003 strong . ITPKC 36 . NM_025194 exon1 c.A347T p.D116V AGCCAGACAGGTC . PASS Atlas-SNP EMC1 23065 hgsc.bcm.edu 37 1 19549250 19549250 + Missense_Mutation SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 199.0 105.0 191.0 0.0 0.527638 0 . . none . . . . NM_015047 exon20 c.G2455A p.A819T CGGTGGCGTTGTA . PASS Atlas-SNP OR52L1 338751 hgsc.bcm.edu 37 11 6007992 6007992 + Silent SNP A A G rs115266467 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 163.0 74.0 135.0 0.0 0.453988 0 A|0.989;G|0.011 0.011 strong . OR52L1 100 . NM_001005173 exon1 c.T169C p.L57L CCACTAAAGCAAG . PASS Atlas-SNP SLC25A42 284439 hgsc.bcm.edu 37 19 19217081 19217081 + Silent SNP C C A rs61740506 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 91.0 43.0 113.0 0.0 0.472527 0 C|0.976;A|0.024 0.024 strong . SLC25A42 18 . NM_178526 exon6 c.C384A p.A128A CAGAGCCCTGCCC . PASS Atlas-SNP CD109 135228 hgsc.bcm.edu 37 6 74524724 74524724 + Silent SNP G G A rs59555720 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 66.0 36.0 67.0 0.0 0.545455 0 G|0.971;A|0.029 0.029 strong . CD109 170 . NM_133493 exon30 c.G3789A p.V1263V TAATGTGAAGGCT . PASS Atlas-SNP LMNB2 84823 hgsc.bcm.edu 37 19 2432450 2432450 + Silent SNP C C G rs11882908 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 79.0 34.0 104.0 1.0 0.43038 0.00961538 C|0.960;G|0.040 0.040 strong LMNB2,NS,carcinoma,0,2 LMNB2 40 2 NM_032737 exon9 c.G1554C p.T518T CTTGGGCGTGAAC . scavenged Atlas-SNP CCDC158 339965 hgsc.bcm.edu 37 4 77288833 77288833 + Missense_Mutation SNP C C T rs17001824 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 127.0 58.0 98.0 0.0 0.456693 0 C|0.981;T|0.019 0.019 strong . CCDC158 114 . NM_001042784 exon11 c.G1444A p.E482K ACTCTTCTACTAC . PASS Atlas-SNP KIAA0020 9933 hgsc.bcm.edu 37 9 2837218 2837218 + Missense_Mutation SNP T T C rs112185565 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 246.0 110.0 196.0 0.0 0.447154 0 T|0.999;C|0.001 0.001 strong . KIAA0020 56 . NM_014878 exon3 c.A266G p.N89S TTCTTGTTGAATT . PASS Atlas-SNP ACTA1 58 hgsc.bcm.edu 37 1 229567384 229567384 + Silent SNP G G T rs74897770 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 99.0 43.0 119.0 0.0 0.434343 0 G|0.982;T|0.018 0.018 strong . ACTA1 65 . NM_001100 exon7 c.C996A p.I332I CGGGGCGATGATC . PASS Atlas-SNP ETAA1 54465 hgsc.bcm.edu 37 2 67631541 67631541 + Missense_Mutation SNP T T C rs145096592 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 108.0 56.0 106.0 0.0 0.518519 0 T|0.999;C|0.001 0.001 strong . ETAA1 88 . NM_019002 exon5 c.T1727C p.F576S GTTCTTTCTTTGA . PASS Atlas-SNP GANC 2595 hgsc.bcm.edu 37 15 42644235 42644235 + Silent SNP A A G rs145163630 byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 192.0 85.0 141.0 0.0 0.442708 0 A|0.999;G|0.001 0.001 strong . GANC 57 . NM_198141 exon24 c.A2643G p.K881K TGGTAAAGATCAG . PASS Atlas-SNP KLHL20 27252 hgsc.bcm.edu 37 1 173725101 173725101 + Silent SNP G G A rs16846395 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 119.0 60.0 125.0 0.0 0.504202 0 G|0.899;A|0.101 0.101 strong . KLHL20 54 . NM_014458 exon6 c.G891A p.P297P ATTGCCGCAAGAA . PASS Atlas-SNP KDM2B 84678 hgsc.bcm.edu 37 12 121877739 121877739 + Silent SNP G G A rs35674891 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 122.0 54.0 105.0 0.0 0.442623 0 G|0.990;A|0.010 0.010 strong . KDM2B 218 . NM_032590 exon22 c.C3750T p.H1250H GGTGACGTGGTTA . PASS Atlas-SNP XPR1 9213 hgsc.bcm.edu 37 1 180772708 180772708 + Silent SNP T T C rs12078050 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 68.0 36.0 70.0 0.0 0.529412 0 T|0.942;C|0.058 0.058 strong . XPR1 76 . NM_004736 exon4 c.T408C p.S136S CTTCAGTGAGTTC . PASS Atlas-SNP HMCN1 83872 hgsc.bcm.edu 37 1 186026366 186026366 + Missense_Mutation SNP C C T rs140744695 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 91.0 41.0 74.0 0.0 0.450549 0 C|0.999;T|0.001 0.001 strong . HMCN1 797 . NM_031935 exon46 c.C7145T p.A2382V TTACAGCTCCTCC . PASS Atlas-SNP LAMB3 3914 hgsc.bcm.edu 37 1 209797061 209797061 + Missense_Mutation SNP C C T rs114174766 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 75.0 37.0 101.0 0.0 0.493333 0 C|0.998;T|0.002 0.002 strong . LAMB3 136 . NM_000228 exon16 c.G2147A p.R716Q AGCATCCGGAAGG . PASS Atlas-SNP PDE4DIP 9659 hgsc.bcm.edu 37 1 144873983 144873983 + Silent SNP T T C rs148165371 byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 418.0 111.0 355.0 0.0 0.26555 0 T|0.999;C|0.001 0.001 strong . PDE4DIP 817 . NM_014644 exon31 c.A4974G p.P1658P TGATGATGGTTTA . PASS Atlas-SNP SNX18 112574 hgsc.bcm.edu 37 5 53814736 53814736 + Missense_Mutation SNP G G C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 138.0 15.0 143.0 0.0 0.108696 0 . . none . SNX18 102 . NM_052870 exon1 c.G954C p.W318C CGACTGGCTGTAC . PASS Atlas-SNP DPPA4 55211 hgsc.bcm.edu 37 3 109049507 109049507 + Silent SNP A A G rs16834356 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 204.0 204.0 207.0 1.0 1 0.00483092 A|0.991;G|0.009 0.009 strong . DPPA4 56 . NM_018189 exon5 c.T543C p.N181N AGTGGAATTTTCC . PASS Atlas-SNP VWA2 340706 hgsc.bcm.edu 37 10 116049199 116049199 + Silent SNP C C T rs148020287 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 162.0 93.0 139.0 0.0 0.574074 0 C|0.994;T|0.006 0.006 strong VWA2,caecum,carcinoma,0,1 VWA2 64 1 NM_001272046 exon12 c.C2073T p.Y691Y AGCTTACGCCGAC . PASS Atlas-SNP NMT2 9397 hgsc.bcm.edu 37 10 15170387 15170387 + Missense_Mutation SNP T T C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 149.0 6.0 97.0 0.0 0.0402685 0 . . none . NMT2 44 . NM_004808 exon8 c.A961G p.T321A GTAAAGTCATATT . PASS Atlas-SNP ECI2 10455 hgsc.bcm.edu 37 6 4119492 4119492 + Silent SNP T T C rs10708 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 56.0 27.0 80.0 0.0 0.482143 0 T|0.962;C|0.038 0.038 strong . ECI2 59 . NM_206836 exon8 c.A813G p.P271P ACTAAATGGTGTA . PASS Atlas-SNP POLE 5426 hgsc.bcm.edu 37 12 133201327 133201327 + Missense_Mutation SNP T T A rs73481453 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 154.0 72.0 169.0 0.0 0.467532 0 T|0.995;A|0.005 0.005 strong . POLE 416 . NM_006231 exon49 c.A6817T p.T2273S CCAGGGTCTCCAG . PASS Atlas-SNP FOCAD 54914 hgsc.bcm.edu 37 9 20978439 20978439 + Missense_Mutation SNP A A C rs149031092 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 152.0 80.0 138.0 0.0 0.526316 0 A|1.000;C|0.000 0.000 strong . . . . NM_017794 exon39 c.A4363C p.I1455L CCACTGATCCACA . PASS Atlas-SNP AKNA 80709 hgsc.bcm.edu 37 9 117103900 117103900 + Missense_Mutation SNP T T C rs2787344 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 126.0 40.0 103.0 0.0 0.31746 0 T|0.919;C|0.081 0.081 strong . AKNA 119 . NM_030767 exon21 c.A3980G p.Y1327C GCCAGATACCACA . PASS Atlas-SNP TTN 7273 hgsc.bcm.edu 37 2 179613962 179613962 + Missense_Mutation SNP C C T rs72648903 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 83.0 28.0 74.0 0.0 0.337349 0 C|0.980;T|0.020 0.020 strong TTN_ENST00000360870,rectum,carcinoma,+1,1 TTN 18412 1 NM_133379 exon46 c.G13165A p.V4389I TAGTGACATCACT . PASS Atlas-SNP SCN9A 6335 hgsc.bcm.edu 37 2 167142979 167142979 + Missense_Mutation SNP C C T rs58022607 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 181.0 181.0 168.0 0.0 1 0 C|0.964;T|0.036 0.036 strong . SCN9A 296 . NM_002977 exon11 c.G1469A p.S490N TCTCCACTGGAGA . PASS Atlas-SNP AHNAK2 113146 hgsc.bcm.edu 37 14 105417286 105417286 + Missense_Mutation SNP G G A rs149840830 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 355.0 337.0 370.0 0.0 0.949296 0 G|0.966;A|0.034 0.034 strong AHNAK2_ENST00000333244,colon,carcinoma,0,1 AHNAK2 719 1 NM_138420 exon7 c.C4502T p.P1501L AACGACGGCATCT . PASS Atlas-SNP NRIP1 8204 hgsc.bcm.edu 37 21 16337538 16337538 + Silent SNP G G A rs28587162 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 143.0 69.0 127.0 0.0 0.482517 0 G|0.979;A|0.021 0.021 strong . NRIP1 103 . NM_003489 exon4 c.C2976T p.S992S GCAACTGCTGGGC . PASS Atlas-SNP ZNF208 7757 hgsc.bcm.edu 37 19 22155434 22155434 + Missense_Mutation SNP T T C rs139351235 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 26.0 16.0 21.0 0.0 0.615385 0 T|0.972;C|0.028 0.028 strong . ZNF208 817 . NM_007153 exon4 c.A2402G p.D801G TTCTCATCAGTAT . PASS Atlas-SNP DSCAML1 57453 hgsc.bcm.edu 37 11 117329597 117329597 + Silent SNP G G C rs115831160 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 118.0 48.0 100.0 0.0 0.40678 0 G|0.999;C|0.001 0.001 strong . DSCAML1 286 . NM_020693 exon19 c.C3621G p.T1207T CCGCGTGGTGGTG . PASS Atlas-SNP GCOM1 145781 hgsc.bcm.edu 37 15 57925873 57925873 + Missense_Mutation SNP G G C rs148672365 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 162.0 79.0 170.0 0.0 0.487654 0 G|0.994;C|0.006 0.006 strong . GCOM1 66 . NM_001018090 exon8 c.G867C p.E289D AGCAGAGATCAGC . PASS Atlas-SNP TANC1 85461 hgsc.bcm.edu 37 2 160019901 160019901 + Missense_Mutation SNP C C T rs55929944 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 278.0 165.0 280.0 0.0 0.593525 0 C|0.971;T|0.029 0.029 strong . TANC1 157 . NM_033394 exon8 c.C790T p.R264C CATGACCGCAGGG . PASS Atlas-SNP MTSS1 9788 hgsc.bcm.edu 37 8 125575047 125575047 + Silent SNP G G T rs16899702 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 93.0 50.0 88.0 0.0 0.537634 0 G|0.936;T|0.064 0.064 strong . MTSS1 79 . NM_014751 exon10 c.C1011A p.P337P CGGCATGGGGGAT . PASS Atlas-SNP MED26 9441 hgsc.bcm.edu 37 19 16687870 16687870 + Silent SNP G G A rs61734286 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 89.0 41.0 106.0 0.0 0.460674 0 G|0.967;A|0.033 0.033 strong . MED26 25 . NM_004831 exon3 c.C771T p.D257D AGTCTCGTCCACC . PASS Atlas-SNP PCDHA12 56137 hgsc.bcm.edu 37 5 140256275 140256275 + Silent SNP G G A rs73793508 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 312.0 151.0 307.0 1.0 0.483974 0.00325733 G|0.990;A|0.010 0.010 strong PCDHA12,NS,carcinoma,+1,1 PCDHA12 196 1 NM_018903 exon1 c.G1218A p.S406S CTACTCGTTGGTG . PASS Atlas-SNP GNG12 55970 hgsc.bcm.edu 37 1 68171215 68171215 + Silent SNP A A G rs17130202 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 103.0 42.0 102.0 0.0 0.407767 0 A|0.991;G|0.009 0.009 strong . GNG12 11 . NM_018841 exon4 c.T138C p.H46H CCTGGCATGTTCC . PASS Atlas-SNP OR10G8 219869 hgsc.bcm.edu 37 11 123900968 123900968 + Missense_Mutation SNP A A G rs146815262 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 406.0 224.0 437.0 0.0 0.551724 0 A|0.999;G|0.001 0.001 strong . OR10G8 132 . NM_001004464 exon1 c.A639G p.I213M CCTGATAGTGCTG . PASS Atlas-SNP CELSR1 9620 hgsc.bcm.edu 37 22 46761135 46761135 + Silent SNP G G T rs9627424 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 55.0 28.0 75.0 0.0 0.509091 0 G|0.911;T|0.089 0.089 strong . CELSR1 242 . NM_014246 exon32 c.C8547A p.T2849T TTTGGGGGTGCTG . PASS Atlas-SNP ITGA11 22801 hgsc.bcm.edu 37 15 68650913 68650913 + Silent SNP G G A rs61729771 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 75.0 74.0 74.0 0.0 0.986667 0 G|0.956;A|0.044 0.044 strong . ITGA11 110 . NM_001004439 exon6 c.C483T p.T161T CATGTAGGTCTGG . PASS Atlas-SNP GBP7 388646 hgsc.bcm.edu 37 1 89615023 89615023 + Missense_Mutation SNP C C G rs74098339 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 235.0 120.0 202.0 1.0 0.510638 0.00495049 C|0.988;G|0.012 0.012 strong . GBP7 57 . NM_207398 exon7 c.G1104C p.M368I GTACTCCATGAAG . PASS Atlas-SNP GDPGP1 390637 hgsc.bcm.edu 37 15 90784862 90784862 + Missense_Mutation SNP G G A rs75296384 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 50.0 18.0 48.0 0.0 0.36 0 G|0.962;A|0.038 0.038 strong . . . . NM_001013657 exon4 c.G722A p.G241E ACCCTGGAGGCCA . PASS Atlas-SNP NPTN 27020 hgsc.bcm.edu 37 15 73862606 73862606 + Silent SNP C C T rs35100473 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 187.0 103.0 160.0 0.0 0.550802 0 C|0.988;G|0.000;T|0.012 0.012 strong . NPTN 35 . NM_001161363 exon6 c.G999A p.V333V GCTCCGCACCCTG . PASS Atlas-SNP CCDC160 347475 hgsc.bcm.edu 37 X 133378851 133378851 + Silent SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 146.0 91.0 149.0 0.0 0.623288 0 . . none . CCDC160 38 . NM_001101357 exon2 c.C21T p.H7H AAAACACTGGAAG . PASS Atlas-SNP ZNF442 79973 hgsc.bcm.edu 37 19 12462873 12462873 + Nonsense_Mutation SNP C C A rs73507958 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 118.0 61.0 133.0 0.0 0.516949 0 C|0.993;A|0.007 0.007 strong . ZNF442 102 . NM_030824 exon5 c.G217T p.E73X TGTCTTCCCATTT . PASS Atlas-SNP TUBB8 347688 hgsc.bcm.edu 37 10 94562 94562 + Silent SNP G G A rs145350711 byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 111.0 62.0 107.0 0.0 0.558559 0 G|0.999;A|0.001 0.001 strong . TUBB8 62 . NM_177987 exon3 c.C270T p.F90F GAAGATGAAGTTG . PASS Atlas-SNP HSPBAP1 79663 hgsc.bcm.edu 37 3 122496628 122496628 + Missense_Mutation SNP A A C rs16833517 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 346.0 191.0 275.0 0.0 0.552023 0 A|0.951;C|0.049 0.049 strong HSPBAP1,NS,carcinoma,+1,1 HSPBAP1 32 1 NM_024610 exon2 c.T190G p.S64A CCTGCGAAAGGTA . PASS Atlas-SNP KRTAP10-6 386674 hgsc.bcm.edu 37 21 46011544 46011544 + Silent SNP G G C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 327.0 33.0 257.0 0.0 0.100917 0 . . none . KRTAP10-6 57 . NM_198688 exon1 c.C822G p.V274V AGAGCAGACGGGC . PASS Atlas-SNP GOLPH3 64083 hgsc.bcm.edu 37 5 32126441 32126441 + Silent SNP G G A rs34212503 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 141.0 65.0 136.0 0.0 0.460993 0 G|0.966;A|0.034 0.034 strong . GOLPH3 25 . NM_022130 exon4 c.C774T p.D258D CTGCTCGTCCAGA . PASS Atlas-SNP PRPF4 9128 hgsc.bcm.edu 37 9 116041316 116041316 + Silent SNP T T C rs146246780 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 97.0 57.0 76.0 0.0 0.587629 0 T|0.999;C|0.001 0.001 strong . PRPF4 56 . NM_004697 exon3 c.T300C p.N100N GATCAATGTTTCC . PASS Atlas-SNP CNTN5 53942 hgsc.bcm.edu 37 11 100226900 100226900 + Silent SNP G G A rs34539243 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 94.0 56.0 115.0 0.0 0.595745 0 G|0.988;A|0.012 0.012 strong . CNTN5 324 . NM_001243270 exon24 c.G3252A p.S1084S ATCTTCGTCATCA . PASS Atlas-SNP LEFTY1 10637 hgsc.bcm.edu 37 1 226074436 226074436 + Silent SNP G G C rs35684337 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 198.0 109.0 182.0 0.0 0.550505 0 G|0.963;C|0.037 0.037 strong . LEFTY1 30 . NM_020997 exon4 c.C1092G p.L364L TGGCTGGAGCCTC . PASS Atlas-SNP SCN10A 6336 hgsc.bcm.edu 37 3 38770198 38770198 + Missense_Mutation SNP T T G rs146028829 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 347.0 160.0 324.0 0.0 0.461095 0 T|0.999;G|0.001 0.001 strong SCN10A,NS,carcinoma,0,2 SCN10A 359 2 NM_006514 exon15 c.A2475C p.E825D CCAGTCTTCATGG . PASS Atlas-SNP MTFR2 113115 hgsc.bcm.edu 37 6 136560948 136560948 + Silent SNP G G A rs10484485 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 75.0 37.0 56.0 0.0 0.493333 0 G|0.939;A|0.061 0.061 strong . . . . NM_138419 exon6 c.C525T p.G175G ACTCAAGCCAAAG . PASS Atlas-SNP CSMD3 114788 hgsc.bcm.edu 37 8 113662508 113662508 + Silent SNP A A G rs7839690 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 219.0 90.0 225.0 0.0 0.410959 0 A|0.972;G|0.028 0.028 strong CSMD3_ENST00000343508,colon,carcinoma,-2,2 CSMD3 2325 2 NM_198123 exon19 c.T3075C p.D1025D GGAGAAATCATGA . PASS Atlas-SNP SLC35E4 339665 hgsc.bcm.edu 37 22 31032881 31032881 + Silent SNP G G A rs8136373 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 39.0 38.0 46.0 0.0 0.974359 0 G|0.900;A|0.100 0.100 strong . SLC35E4 22 . NM_001001479 exon1 c.G444A p.L148L CACCCTGGCCCTG . PASS Atlas-SNP CAPN9 10753 hgsc.bcm.edu 37 1 230916057 230916057 + Missense_Mutation SNP T T G rs79844715 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 148.0 71.0 136.0 0.0 0.47973 0 T|0.998;G|0.002 0.002 strong . CAPN9 116 . NM_006615 exon10 c.T1247G p.L416R ATGTGCTGACAAT . PASS Atlas-SNP ZNF678 339500 hgsc.bcm.edu 37 1 227842516 227842516 + Missense_Mutation SNP G G C rs61744724 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 60.0 30.0 56.0 0.0 0.5 0 G|0.987;C|0.013 0.013 strong . ZNF678 137 . NM_178549 exon4 c.G730C p.V244L GACAAAGTTTTTA . PASS Atlas-SNP SNAP91 9892 hgsc.bcm.edu 37 6 84303273 84303273 + Silent SNP G G A rs181491904 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 105.0 57.0 96.0 0.0 0.542857 0 G|0.995;A|0.005 0.005 strong . SNAP91 199 . NM_001242792 exon17 c.C1620T p.T540T AGCGGCGGTGGCA . PASS Atlas-SNP AFAP1L2 84632 hgsc.bcm.edu 37 10 116056779 116056779 + Silent SNP C C T rs62641713 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 337.0 337.0 297.0 1.0 1 0.003367 C|0.953;T|0.047 0.047 strong . AFAP1L2 90 . NM_001001936 exon18 c.G2388A p.S796S CACGACCGAGAGA . PASS Atlas-SNP KANK2 25959 hgsc.bcm.edu 37 19 11289073 11289073 + Missense_Mutation SNP C C T rs115473443 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 102.0 45.0 81.0 0.0 0.441176 0 C|0.985;T|0.015 0.015 strong . KANK2 47 . NM_015493 exon4 c.G1492A p.A498T GGTCTGCAACCTC . PASS Atlas-SNP ALK 238 hgsc.bcm.edu 37 2 29416750 29416750 + Silent SNP A A G rs55772745 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 133.0 78.0 146.0 0.0 0.586466 0 A|0.979;G|0.021 0.021 strong . ALK 533 . NM_004304 exon29 c.T4203C p.Y1401Y TGGACCATATTCT . PASS Atlas-SNP PKD1 5310 hgsc.bcm.edu 37 16 2162810 2162810 + Missense_Mutation SNP G G A rs147910505 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 26.0 11.0 27.0 0.0 0.423077 0 G|0.999;A|0.001 0.001 strong . PKD1 184 . NM_000296 exon13 c.C3140T p.S1047L ACGGCCGAGTCCA . PASS Atlas-SNP CRELD1 78987 hgsc.bcm.edu 37 3 9984855 9984855 + Silent SNP C C T rs79223485 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 102.0 43.0 107.0 0.0 0.421569 0 C|0.975;T|0.025 0.025 strong . CRELD1 48 . NM_001077415 exon9 c.C912T p.L304L GTGTCTCGGTGAG . PASS Atlas-SNP ANKRD36B 57730 hgsc.bcm.edu 37 2 98197010 98197010 + Missense_Mutation SNP G G A rs2922614 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 517.0 223.0 533.0 0.0 0.431335 0 G|0.984;A|0.016 0.016 strong . . . . NM_025190 exon4 c.C472T p.L158F CAGCAAGTAACAG . PASS Atlas-SNP EPM2AIP1 9852 hgsc.bcm.edu 37 3 37033348 37033348 + Silent SNP A A G rs200289425 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 135.0 65.0 144.0 0.0 0.481481 0 A|0.999;G|0.001 0.001 strong . EPM2AIP1 47 . NM_014805 exon1 c.T1221C p.A407A AAAGGCAGCAGCA . PASS Atlas-SNP NET1 10276 hgsc.bcm.edu 37 10 5498102 5498102 + Missense_Mutation SNP C C T rs34658946 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 55.0 20.0 65.0 0.0 0.363636 0 C|0.984;T|0.016 0.016 strong . NET1 82 . NM_001047160 exon11 c.C1250T p.T417I CCGTCACACGGAA . PASS Atlas-SNP SYNPO2 171024 hgsc.bcm.edu 37 4 119952589 119952589 + Missense_Mutation SNP G G A rs115012720 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 83.0 42.0 53.0 0.0 0.506024 0 G|0.993;A|0.007 0.007 strong . SYNPO2 353 . NM_001128934 exon4 c.G2659A p.V887M AAGTATGTGGTCG . PASS Atlas-SNP LUZP1 7798 hgsc.bcm.edu 37 1 23419914 23419914 + Missense_Mutation SNP G G A rs142425004 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 313.0 147.0 341.0 0.0 0.469649 0 G|0.999;A|0.001 0.001 strong LUZP1,NS,carcinoma,+1,1 LUZP1 83 1 NM_033631 exon4 c.C841T p.R281C GATTGCGGTTCTT . PASS Atlas-SNP C16orf89 146556 hgsc.bcm.edu 37 16 5115811 5115811 + Silent SNP G G A rs35751409 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 143.0 61.0 127.0 0.0 0.426573 0 G|0.990;A|0.010 0.010 strong . C16orf89 64 . NM_001098514 exon1 c.C99T p.A33A AATGGTGGCTTTA . PASS Atlas-SNP CDK2AP1 8099 hgsc.bcm.edu 37 12 123749834 123749834 + Silent SNP G G A rs76783415 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 148.0 77.0 147.0 0.0 0.52027 0 G|0.970;A|0.030 0.030 strong . CDK2AP1 8 . NM_004642 exon3 c.C189T p.Y63Y CTCCGCGTATTTG . PASS Atlas-SNP BSPRY 54836 hgsc.bcm.edu 37 9 116131916 116131916 + Missense_Mutation SNP G G A rs377189582 alternate_allele TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 67.0 50.0 59.0 0.0 0.746269 0 . . alt . BSPRY 21 . NM_017688 exon6 c.G703A p.D235N CGGATCGATGAGA . PASS Atlas-SNP UMODL1 89766 hgsc.bcm.edu 37 21 43524188 43524188 + Missense_Mutation SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 47.0 7.0 49.0 0.0 0.148936 0 . . none . UMODL1 186 . NM_173568 exon9 c.C1510T p.R504C GGGACACGCGTGC . PASS Atlas-SNP SYNE3 161176 hgsc.bcm.edu 37 14 95921722 95921722 + Missense_Mutation SNP G G A rs74079986 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 75.0 45.0 79.0 0.0 0.6 0 G|0.988;A|0.012 0.012 strong . SYNE3 130 . NM_152592 exon5 c.C1129T p.R377C AGTAGCGTCTCCA . PASS Atlas-SNP DSC1 1823 hgsc.bcm.edu 37 18 28712639 28712639 + Silent SNP T T C rs16961338 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 104.0 50.0 144.0 0.0 0.480769 0 T|0.959;C|0.041 0.041 strong . DSC1 240 . NM_004948 exon14 c.A2130G p.T710T GAAACATGTAAAC . PASS Atlas-SNP CEP89 84902 hgsc.bcm.edu 37 19 33457328 33457328 + Silent SNP C C T rs150504912 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 94.0 50.0 75.0 1.0 0.531915 0.0133333 C|1.000;T|0.000 0.000 weak CEP89,caecum,carcinoma,0,1 CEP89 82 1 NM_032816 exon2 c.G84A p.P28P TGCCTTCGGAGCA . scavenged Atlas-SNP KCNQ2 3785 hgsc.bcm.edu 37 20 62078184 62078184 + Silent SNP G G C rs145415996 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 91.0 39.0 114.0 0.0 0.428571 0 G|0.998;C|0.002 0.002 strong . KCNQ2 201 . NM_172106 exon2 c.C303G p.L101L AACCAGGAGGAAC . PASS Atlas-SNP CHIA 27159 hgsc.bcm.edu 37 1 111854859 111854859 + Missense_Mutation SNP C C T rs61752461 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 197.0 92.0 188.0 0.0 0.467005 0 C|0.988;T|0.012 0.012 strong CHIA_ENST00000369740,NS,carcinoma,-2,1 CHIA 115 1 NM_201653 exon4 c.C103T p.R35W CAGTACCGGCCAG . PASS Atlas-SNP NLRP4 147945 hgsc.bcm.edu 37 19 56369668 56369668 + Silent SNP C C T rs112565033 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 143.0 78.0 174.0 0.0 0.545455 0 C|0.994;T|0.006 0.006 strong . NLRP4 331 . NM_134444 exon3 c.C909T p.N303N ATTCAACGAGAGT . PASS Atlas-SNP CCDC151 115948 hgsc.bcm.edu 37 19 11537006 11537006 + Silent SNP G G A rs61739937 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 43.0 19.0 52.0 0.0 0.44186 0 G|0.986;A|0.014 0.014 strong . CCDC151 44 . NM_145045 exon7 c.C921T p.R307R CTCGGCGCGCTTC . PASS Atlas-SNP EDIL3 10085 hgsc.bcm.edu 37 5 83433087 83433087 + Silent SNP G G A rs58219060 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 67.0 35.0 59.0 0.0 0.522388 0 G|0.965;A|0.035 0.035 strong . EDIL3 94 . NM_005711 exon5 c.C441T p.G147G AAATTCGCCTGGG . PASS Atlas-SNP XPA 7507 hgsc.bcm.edu 37 9 100449436 100449436 + Missense_Mutation SNP A A G rs143374902 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 71.0 55.0 76.0 0.0 0.774648 0 A|0.996;G|0.004 0.004 strong . XPA 21 . NM_000380 exon4 c.T497C p.V166A TTCTTCACAATAA . PASS Atlas-SNP IFLTD1 160492 hgsc.bcm.edu 37 12 25672877 25672877 + Missense_Mutation SNP C C T rs34074522 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 119.0 50.0 159.0 0.0 0.420168 0 C|0.980;T|0.020 0.020 strong IFLTD1_ENST00000458174,NS,carcinoma,+1,2 IFLTD1 121 2 NM_001145728 exon7 c.G931A p.A311T TTGTAGCTGTAGA . PASS Atlas-SNP SLC5A2 6524 hgsc.bcm.edu 37 16 31501642 31501642 + Missense_Mutation SNP C C T rs61746400 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 75.0 31.0 84.0 0.0 0.413333 0 C|0.992;T|0.008 0.008 strong . SLC5A2 58 . NM_003041 exon14 c.C1805T p.P602L AGGCCCCGGCACC . PASS Atlas-SNP OR13C5 138799 hgsc.bcm.edu 37 9 107361038 107361038 + Silent SNP C C T rs75872480 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 212.0 134.0 173.0 0.0 0.632075 0 C|0.998;T|0.002 0.002 strong OR13C5,NS,haematopoietic_neoplasm,-1,1 OR13C5 60 1 NM_001004482 exon1 c.G657A p.T219T GATTAACGTGTAA . PASS Atlas-SNP EPHB2 2048 hgsc.bcm.edu 37 1 23222008 23222008 + Silent SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 115.0 59.0 103.0 0.0 0.513043 0 . . none . EPHB2 257 . NM_004442 exon8 c.C1635T p.I545I CATCATCGGCTCC . PASS Atlas-SNP UAP1 6675 hgsc.bcm.edu 37 1 162560209 162560209 + Silent SNP G G A rs61743694 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 162.0 88.0 167.0 0.0 0.54321 0 G|0.969;A|0.031 0.031 strong . UAP1 47 . NM_003115 exon8 c.G1266A p.R422R TGCAAGGCATGCT . PASS Atlas-SNP CHAF1B 8208 hgsc.bcm.edu 37 21 37787615 37787615 + Missense_Mutation SNP A A C rs74900401 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 50.0 20.0 38.0 0.0 0.4 0 A|0.984;C|0.016;T|0.000 0.016 strong . CHAF1B 47 . NM_005441 exon13 c.A1516C p.K506Q CCCTTAAAGACGG . PASS Atlas-SNP TMEM254 80195 hgsc.bcm.edu 37 10 81838864 81838864 + Missense_Mutation SNP A A G rs61748824 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 232.0 120.0 193.0 0.0 0.517241 0 A|0.988;G|0.012 0.012 strong . TMEM254 1 . NM_001270368 exon1 c.A83G p.N28S CCAGCAATGCGGC . PASS Atlas-SNP FBN3 84467 hgsc.bcm.edu 37 19 8171068 8171068 + Silent SNP G G A rs7258713 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 82.0 42.0 69.0 0.0 0.512195 0 G|0.925;A|0.075 0.075 strong . FBN3 300 . NM_032447 exon37 c.C4737T p.C1579C GTTGACGCAGTCA . PASS Atlas-SNP BUB1B 701 hgsc.bcm.edu 37 15 40512906 40512906 + Silent SNP A A G rs35611758 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 137.0 73.0 151.0 0.0 0.532847 0 A|0.915;G|0.085 0.085 strong . BUB1B 71 . NM_001211 exon23 c.A3099G p.K1033K GAACAAAGCCTTA . PASS Atlas-SNP C5orf45 51149 hgsc.bcm.edu 37 5 179285781 179285781 + Missense_Mutation SNP G G A rs199537217 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 50.0 27.0 59.0 0.0 0.54 0 G|0.999;A|0.001 0.001 strong . C5orf45 23 . NM_016175 exon1 c.C16T p.R6C GAGAACGCTGAAG . PASS Atlas-SNP ATP6V1G3 127124 hgsc.bcm.edu 37 1 198498234 198498234 + Missense_Mutation SNP C C G rs16843254 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 58.0 66.0 0.0 0.58 0 C|0.959;G|0.041 0.041 strong . ATP6V1G3 26 . NM_133262 exon3 c.G160C p.E54Q GAAACTCTTTATC . PASS Atlas-SNP CXXC11 285093 hgsc.bcm.edu 37 2 242814778 242814778 + Silent SNP C C T rs7597435 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 198.0 88.0 182.0 0.0 0.444444 0 C|0.963;T|0.037 0.037 strong . . . . NM_173821 exon2 c.C1071T p.T357T GCCCACCGATGGC . PASS Atlas-SNP REG4 83998 hgsc.bcm.edu 37 1 120341193 120341193 + Missense_Mutation SNP C C T rs75358916 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 225.0 120.0 203.0 1.0 0.533333 0.00492611 C|0.991;T|0.009 0.009 strong . REG4 36 . NM_032044 exon5 c.G336A p.M112I CAGATACATGGCC . PASS Atlas-SNP C19orf45 374877 hgsc.bcm.edu 37 19 7573225 7573225 + Missense_Mutation SNP C C T rs141790796 bycluster;alternate_allele TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 139.0 10.0 124.0 0.0 0.0719424 0 C|1.000;A|0.000 . alt . C19orf45 36 . NM_198534 exon9 c.C1427T p.P476L TCGTGCCCCTGGG . PASS Atlas-SNP C5orf42 65250 hgsc.bcm.edu 37 5 37182940 37182940 + Silent SNP T T A rs73750949 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 78.0 41.0 79.0 0.0 0.525641 0 T|0.973;A|0.027 0.027 strong . C5orf42 422 . NM_023073 exon26 c.A5343T p.T1781T GGCAGCTGTAGAG . PASS Atlas-SNP TXK 7294 hgsc.bcm.edu 37 4 48096101 48096101 + Silent SNP A A G rs73151620 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 92.0 92.0 87.0 0.0 1 0 A|0.959;G|0.041 0.041 strong . TXK 58 . NM_003328 exon8 c.T702C p.N234N GGCTGCATTGTGC . PASS Atlas-SNP CPNE7 27132 hgsc.bcm.edu 37 16 89655120 89655120 + Missense_Mutation SNP G G A rs28568523 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 58.0 41.0 66.0 0.0 0.706897 0 G|0.992;A|0.008 0.008 strong . CPNE7 56 . NM_014427 exon12 c.G1190A p.R397Q ACCCGCGGAACAG . PASS Atlas-SNP KIAA1755 85449 hgsc.bcm.edu 37 20 36856579 36856579 + Silent SNP G G A rs74723843 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 27.0 12.0 37.0 0.0 0.444444 0 G|0.974;A|0.026 0.026 strong . KIAA1755 145 . NM_001029864 exon6 c.C1935T p.P645P CAGACCGGGCTGT . PASS Atlas-SNP PCDHB2 56133 hgsc.bcm.edu 37 5 140475958 140475958 + Silent SNP G G T rs371176940 alternate_allele TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 205.0 10.0 209.0 0.0 0.0487805 0 . . alt . PCDHB2 163 . NM_018936 exon1 c.G1584T p.A528A GCAGGCGTTCGAG . PASS Atlas-SNP CC2D2B 387707 hgsc.bcm.edu 37 10 97779510 97779510 + Missense_Mutation SNP T T C rs9943393 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 288.0 127.0 271.0 0.0 0.440972 0 T|0.988;C|0.012 0.012 strong . CC2D2B 46 . NM_001001732 exon8 c.T709C p.Y237H TTTGACTATTCAA . PASS Atlas-SNP GLIS1 148979 hgsc.bcm.edu 37 1 54060107 54060107 + Missense_Mutation SNP A A G rs34961060 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 63.0 31.0 68.0 0.0 0.492063 0 A|0.968;G|0.032 0.032 strong . GLIS1 52 . NM_147193 exon3 c.T469C p.F157L GCCCAAAGAGCTC . PASS Atlas-SNP DNAJC17 55192 hgsc.bcm.edu 37 15 41068409 41068409 + Missense_Mutation SNP C C T rs73398528 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 103.0 46.0 88.0 0.0 0.446602 0 C|0.947;T|0.053 0.053 strong . DNAJC17 18 . NM_018163 exon6 c.G463A p.D155N TCTGGTCACGCTC . PASS Atlas-SNP SMYD2 56950 hgsc.bcm.edu 37 1 214507580 214507580 + Missense_Mutation SNP A A G rs34259050 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 179.0 86.0 133.0 0.0 0.480447 0 A|0.983;G|0.017 0.017 strong . SMYD2 40 . NM_020197 exon11 c.A1150G p.M384V GCCTCCATGTGGT . PASS Atlas-SNP COL1A1 1277 hgsc.bcm.edu 37 17 48263786 48263786 + Silent SNP G G A rs34940368 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 141.0 63.0 134.0 1.0 0.446809 0.00746269 G|0.994;A|0.006 0.006 strong COL1A1,rectum,carcinoma,0,1 COL1A1 158 1 NM_000088 exon49 c.C3897T p.C1299C GTACACGCAGGTC . scavenged Atlas-SNP EPC2 26122 hgsc.bcm.edu 37 2 149528738 149528738 + Missense_Mutation SNP A A G rs34444151 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 181.0 96.0 216.0 0.0 0.530387 0 A|0.992;G|0.008 0.008 strong . EPC2 57 . NM_015630 exon10 c.A1502G p.N501S GGACCAATGCTTC . PASS Atlas-SNP TRIM72 493829 hgsc.bcm.edu 37 16 31235548 31235548 + Silent SNP G G C rs58585879 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 33.0 10.0 25.0 0.0 0.30303 0 G|0.966;C|0.034 0.034 strong . TRIM72 32 . NM_001008274 exon7 c.G906C p.L302L GAGCCTGGTGGTG . PASS Atlas-SNP KCNQ1 3784 hgsc.bcm.edu 37 11 2683252 2683252 + Silent SNP C C T rs17215465 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 150.0 83.0 133.0 0.0 0.553333 0 C|0.983;T|0.017 0.017 strong . KCNQ1 60 . NM_000218 exon11 c.C1455T p.F485F CAGCTTCGCCGAG . PASS Atlas-SNP ZNF708 7562 hgsc.bcm.edu 37 19 21476912 21476912 + Missense_Mutation SNP C C T rs112819776 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 23.0 9.0 31.0 0.0 0.391304 0 C|0.994;T|0.006 0.006 strong ZNF708,NS,carcinoma,0,1 ZNF708 66 1 NM_021269 exon4 c.G856A p.G286S CTTTGCCACATTC . PASS Atlas-SNP DNAH14 127602 hgsc.bcm.edu 37 1 225393828 225393828 + Missense_Mutation SNP A A G rs143058170 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 48.0 19.0 62.0 0.0 0.395833 0 A|0.993;G|0.007 0.007 strong . DNAH14 300 . NM_001373 exon39 c.A6067G p.N2023D GTGGACAATCTCT . PASS Atlas-SNP C13orf35 400165 hgsc.bcm.edu 37 13 113333809 113333809 + Missense_Mutation SNP G G A rs114091399 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 108.0 51.0 94.0 0.0 0.472222 0 G|0.985;A|0.015 0.015 strong . C13orf35 13 . NM_207440 exon2 c.G116A p.G39D CGGCAGGTCTGGA . PASS Atlas-SNP CAPN12 147968 hgsc.bcm.edu 37 19 39227889 39227889 + Silent SNP C C T rs202082771 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 35.0 20.0 28.0 0.0 0.571429 0 . . weak . CAPN12 43 . NM_144691 exon10 c.G1269A p.K423K CGTGCACTTGGGC . PASS Atlas-SNP BHLHB9 80823 hgsc.bcm.edu 37 X 102005371 102005371 + Missense_Mutation SNP A A T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 429.0 59.0 438.0 0.0 0.137529 0 . . none . BHLHB9 60 . NM_001142530 exon2 c.A1448T p.N483I TGATCAATATGAA . PASS Atlas-SNP OR8G5 219865 hgsc.bcm.edu 37 11 124135143 124135143 + Missense_Mutation SNP G G A rs200012972 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 258.0 127.0 332.0 0.0 0.492248 0 . . weak . . . . NM_001005198 exon1 c.G421A p.V141I TTCCTCGTTTTTG . PASS Atlas-SNP NDUFV2 4729 hgsc.bcm.edu 37 18 9117899 9117899 + Missense_Mutation SNP G G A rs75362221 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 123.0 52.0 126.0 0.0 0.422764 0 G|0.996;A|0.004 0.004 strong . NDUFV2 17 . NM_021074 exon2 c.G118A p.V40M TTATTTGTGGTAA . PASS Atlas-SNP NFATC3 4775 hgsc.bcm.edu 37 16 68225197 68225197 + Silent SNP C C T rs140991156 byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 251.0 125.0 243.0 1.0 0.498008 0.00411523 C|1.000;T|0.000 0.000 strong . NFATC3 190 . NM_173163 exon9 c.C2625T p.T875T GCATACCCTGCCT . PASS Atlas-SNP CEACAM8 1088 hgsc.bcm.edu 37 19 43087428 43087428 + Missense_Mutation SNP A A C rs8103051 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 318.0 157.0 323.0 0.0 0.493711 0 A|0.937;C|0.063 0.063 strong . CEACAM8 44 . NM_001816 exon5 c.T1020G p.I340M TACTCCAATCATG . PASS Atlas-SNP BTN3A2 11118 hgsc.bcm.edu 37 6 26374571 26374571 + Silent SNP G G A rs115820857 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 216.0 96.0 215.0 0.0 0.444444 0 G|0.988;A|0.012 0.012 strong . BTN3A2 44 . NM_001197246 exon7 c.G981A p.S327S GTCTTCGTCCGAT . PASS Atlas-SNP PRUNE 58497 hgsc.bcm.edu 37 1 150997155 150997155 + Missense_Mutation SNP G G A rs56805474 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 33.0 106.0 0.0 0.33 0 G|0.965;A|0.035 0.035 strong . PRUNE 40 . NM_021222 exon4 c.G404A p.C135Y AACACTGCCCTCC . PASS Atlas-SNP TMEM8B 51754 hgsc.bcm.edu 37 9 35845998 35845998 + Silent SNP G G C rs34807292 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 50.0 24.0 65.0 0.0 0.48 0 G|0.969;C|0.031 0.031 strong . TMEM8B 53 . NM_001042590 exon7 c.G306C p.T102T CGTGACGGTGTTT . PASS Atlas-SNP ZNF843 283933 hgsc.bcm.edu 37 16 31448168 31448168 + Missense_Mutation SNP C C T rs150789330 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 64.0 37.0 55.0 0.0 0.578125 0 C|0.999;T|0.001 0.001 strong . ZNF843 14 . NM_001136509 exon2 c.G3A p.M1I GCTTCTCATGAGC . PASS Atlas-SNP RAB40AL 282808 hgsc.bcm.edu 37 X 102192372 102192372 + Silent SNP G G A rs61745023 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 455.0 145.0 507.0 0.0 0.318681 0 G|0.981;A|0.019 0.019 strong . RAB40AL 33 . NM_001031834 exon1 c.G126A p.P42P GTCCCCGTACAGT . PASS Atlas-SNP MUC2 4583 hgsc.bcm.edu 37 11 1093228 1093228 + Missense_Mutation SNP A A G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 66.0 13.0 60.0 0.0 0.19697 0 . . none . MUC2 614 . NM_002457 exon30 c.A5047G p.T1683A ACCACTACGGTGA . PASS Atlas-SNP JSRP1 126306 hgsc.bcm.edu 37 19 2253641 2253641 + Silent SNP G G T rs200918439 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 24.0 15.0 31.0 0.0 0.625 0 G|0.996;T|0.004 0.004 strong . JSRP1 18 . NM_144616 exon5 c.C414A p.G138G AGCCGAGCCCAGC . PASS Atlas-SNP SPANXN1 494118 hgsc.bcm.edu 37 X 144337286 144337286 + Silent SNP G G A rs75090998 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 365.0 363.0 374.0 0.0 0.994521 0 G|0.919;A|0.081 0.081 strong . SPANXN1 23 . NM_001009614 exon2 c.G171A p.R57R CTACAGGAAAGCT . PASS Atlas-SNP SPTA1 6708 hgsc.bcm.edu 37 1 158631106 158631106 + Missense_Mutation SNP G G C rs35121052 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 338.0 165.0 311.0 0.0 0.488166 0 G|0.933;C|0.067 0.067 strong . SPTA1 720 . NM_003126 exon18 c.C2558G p.T853R CTTTCTGTTATCT . PASS Atlas-SNP MLXIP 22877 hgsc.bcm.edu 37 12 122618417 122618417 + Missense_Mutation SNP G G T rs34702867 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 38.0 14.0 55.0 0.0 0.368421 0 G|0.973;T|0.027 0.027 strong . MLXIP 46 . NM_014938 exon9 c.G1615T p.V539L ACTTTTGTGCACC . PASS Atlas-SNP GPC1 2817 hgsc.bcm.edu 37 2 241404914 241404914 + Silent SNP C C T rs2228329 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 115.0 54.0 117.0 0.0 0.469565 0 C|0.991;T|0.009 0.009 strong . GPC1 32 . NM_002081 exon8 c.C1293T p.D431D GGGTGACGGCCTG . PASS Atlas-SNP CPT1A 1374 hgsc.bcm.edu 37 11 68529027 68529027 + Silent SNP A A G rs2228503 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 111.0 51.0 119.0 0.0 0.459459 0 A|0.991;G|0.009 0.009 strong CPT1A,colon,carcinoma,0,1 CPT1A 89 1 NM_001876 exon16 c.T2004C p.A668A CTCCACAGCGAGA . PASS Atlas-SNP SYT2 127833 hgsc.bcm.edu 37 1 202569555 202569555 + Silent SNP C C T rs907699 bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 106.0 55.0 87.0 0.0 0.518868 0 C|0.917;T|0.083 0.083 strong . SYT2 51 . NM_177402 exon7 c.G849A p.T283T CCCGGCCGTGGGC . PASS Atlas-SNP CXorf36 79742 hgsc.bcm.edu 37 X 45011018 45011018 + Missense_Mutation SNP C C A rs143817529 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 109.0 108.0 121.0 0.0 0.990826 0 C|0.970;A|0.030 0.030 strong . CXorf36 53 . NM_176819 exon5 c.G1181T p.R394L TCTGGGCGGATGC . PASS Atlas-SNP WBSCR27 155368 hgsc.bcm.edu 37 7 73254871 73254871 + Silent SNP A A G rs61741292 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 95.0 95.0 111.0 0.0 1 0 A|0.974;G|0.026 0.026 strong . WBSCR27 21 . NM_152559 exon4 c.T261C p.A87A GCCTGGAGCCCGC . PASS Atlas-SNP SPAG17 200162 hgsc.bcm.edu 37 1 118634297 118634297 + Missense_Mutation SNP A A C rs150596428 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 145.0 59.0 145.0 0.0 0.406897 0 A|0.997;C|0.003 0.003 strong . SPAG17 263 . NM_206996 exon10 c.T1291G p.Y431D GCAAATAATTGTA . PASS Atlas-SNP FTSJ2 29960 hgsc.bcm.edu 37 7 2275177 2275177 + Silent SNP G G A rs11547272 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 42.0 29.0 35.0 0.0 0.690476 0 G|0.982;C|0.000;A|0.018 0.018 strong . FTSJ2 22 . NM_013393 exon3 c.C321T p.F107F AAGCACGAAGCCA . PASS Atlas-SNP SPHK2 56848 hgsc.bcm.edu 37 19 49133020 49133020 + Missense_Mutation SNP G G A rs11881285 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 165.0 165.0 150.0 1.0 1 0.00666667 G|0.942;A|0.058 0.058 strong . SPHK2 62 . NM_020126 exon7 c.G1955A p.R652Q CGGGGCGGGAGCC . PASS Atlas-SNP DGKA 1606 hgsc.bcm.edu 37 12 56346891 56346891 + Silent SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 108.0 48.0 123.0 0.0 0.444444 0 . . none . DGKA 70 . NM_201554 exon22 c.C2010T p.T670T CTATACCAAGCTC . PASS Atlas-SNP BRSK1 84446 hgsc.bcm.edu 37 19 55815072 55815072 + Silent SNP C C T rs17851414 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 122.0 60.0 158.0 0.0 0.491803 0 C|0.969;T|0.031 0.031 strong . BRSK1 192 . NM_032430 exon12 c.C1164T p.S388S GCTGAGCCGTCAC . PASS Atlas-SNP PKD1L2 114780 hgsc.bcm.edu 37 16 81208348 81208348 + Missense_Mutation SNP G G T rs745211 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 118.0 67.0 115.0 0.0 0.567797 0 G|0.924;T|0.076 0.076 strong . PKD1L2 361 . NM_001076780 exon16 c.C2755A p.L919M TGCTCAGTGACTG . PASS Atlas-SNP PSMF1 9491 hgsc.bcm.edu 37 20 1106143 1106143 + Silent SNP G G A rs35517343 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 106.0 52.0 90.0 0.0 0.490566 0 G|0.995;A|0.005 0.005 strong . PSMF1 27 . NM_006814 exon2 c.G132A p.P44P CCAGCCGGGTCCC . PASS Atlas-SNP TRAF1 7185 hgsc.bcm.edu 37 9 123671613 123671613 + Silent SNP C C T rs112060909 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 127.0 48.0 109.0 0.0 0.377953 0 C|0.983;T|0.017 0.017 strong . TRAF1 42 . NM_005658 exon7 c.G927A p.L309L CAGGTACAGCCGC . PASS Atlas-SNP TTN 7273 hgsc.bcm.edu 37 2 179610619 179610619 + Missense_Mutation SNP C C G rs16866489 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 118.0 66.0 91.0 0.0 0.559322 0 C|0.992;G|0.008 0.008 strong . TTN 18412 . NM_133379 exon46 c.G16508C p.S5503T AAAAAACTGTCTG . PASS Atlas-SNP RYR3 6263 hgsc.bcm.edu 37 15 34030767 34030767 + Silent SNP G G T rs115185294 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 59.0 25.0 65.0 0.0 0.423729 0 G|0.994;T|0.006 0.006 strong . RYR3 760 . NM_001243996 exon50 c.G7632T p.G2544G CTGGGGGATTTTT . PASS Atlas-SNP RFFL 117584 hgsc.bcm.edu 37 17 33348541 33348541 + Missense_Mutation SNP C C T rs34747500 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 138.0 65.0 132.0 0.0 0.471014 0 C|0.986;T|0.014 0.014 strong . RFFL 27 . NM_001017368 exon3 c.G440A p.R147H GAGGCACGAGTCC . PASS Atlas-SNP RALBP1 10928 hgsc.bcm.edu 37 18 9517221 9517221 + Missense_Mutation SNP G G A rs28552921 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 380.0 179.0 366.0 1.0 0.471053 0.00273224 G|0.996;A|0.004 0.004 strong . RALBP1 48 . NM_006788 exon3 c.G623A p.R208Q GCATTCGGCTGCC . PASS Atlas-SNP OR10G2 26534 hgsc.bcm.edu 37 14 22102315 22102315 + Silent SNP A A G rs61753931 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 356.0 173.0 375.0 0.0 0.485955 0 A|0.983;G|0.017 0.017 strong . OR10G2 35 . NM_001005466 exon1 c.T684C p.H228H GATGGCATGGACT . PASS Atlas-SNP ZC3H13 23091 hgsc.bcm.edu 37 13 46584500 46584500 + Silent SNP G G A rs79878411 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 162.0 70.0 115.0 0.0 0.432099 0 G|0.990;A|0.010 0.010 strong . ZC3H13 197 . NM_015070 exon7 c.C729T p.P243P CAACAGGGGAGAA . PASS Atlas-SNP TRPM2 7226 hgsc.bcm.edu 37 21 45856963 45856963 + Silent SNP T T C rs11910471 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 54.0 31.0 45.0 0.0 0.574074 0 T|0.901;C|0.099 0.099 strong . TRPM2 196 . NM_003307 exon29 c.T4080C p.D1360D CGAGGATGGAGCC . PASS Atlas-SNP EXOC3L1 283849 hgsc.bcm.edu 37 16 67221494 67221494 + Missense_Mutation SNP C C T rs79820293 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 75.0 30.0 63.0 0.0 0.4 0 C|0.978;T|0.022 0.022 strong . EXOC3L1 52 . NM_178516 exon5 c.G674A p.R225H GCCACACGCACAG . PASS Atlas-SNP ING1 3621 hgsc.bcm.edu 37 13 111368023 111368023 + Missense_Mutation SNP C C G rs56682720 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 86.0 42.0 70.0 0.0 0.488372 0 C|0.961;G|0.039 0.039 strong . ING1 106 . NM_005537 exon1 c.C233G p.S78C GCTCTTCCGCCCT . PASS Atlas-SNP SPAG4 6676 hgsc.bcm.edu 37 20 34204168 34204168 + Silent SNP G G A rs115161777 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 40.0 15.0 32.0 0.0 0.375 0 G|0.980;A|0.020 0.020 strong . SPAG4 36 . NM_003116 exon1 c.G243A p.A81A GCCAGCGCCTCGG . PASS Atlas-SNP DCTD 1635 hgsc.bcm.edu 37 4 183814234 183814234 + Silent SNP G G A rs369366826 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 233.0 110.0 215.0 0.0 0.472103 0 . . weak . DCTD 30 . NM_001012732 exon5 c.C441T p.D147D TGCCTCGTCACTA . PASS Atlas-SNP RIN1 9610 hgsc.bcm.edu 37 11 66099888 66099888 + Silent SNP C C T rs61547186 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 182.0 182.0 181.0 0.0 1 0 C|0.969;T|0.031 0.031 strong . RIN1 64 . NM_004292 exon10 c.G2211A p.G737G AGCATCCCCATCT . PASS Atlas-SNP NCR2 9436 hgsc.bcm.edu 37 6 41318578 41318578 + Silent SNP T T C rs115509322 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 42.0 19.0 45.0 0.0 0.452381 0 T|0.990;C|0.010 0.010 strong . NCR2 44 . NM_004828 exon5 c.T807C p.D269D AAGCGATGATGAT . PASS Atlas-SNP PSG6 5675 hgsc.bcm.edu 37 19 43411150 43411150 + Silent SNP G G A rs78024453 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 171.0 70.0 199.0 0.0 0.409357 0 G|0.976;A|0.024 0.024 strong . PSG6 89 . NM_001031850 exon5 c.C1164T p.S388S GAGCCCGCTATGA . PASS Atlas-SNP OTOP2 92736 hgsc.bcm.edu 37 17 72926879 72926879 + Silent SNP T T C rs16967162 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 175.0 84.0 147.0 0.0 0.48 0 T|0.925;C|0.075 0.075 strong . OTOP2 81 . NM_178160 exon6 c.T1149C p.S383S CATCTCTTACTAC . PASS Atlas-SNP VWDE 221806 hgsc.bcm.edu 37 7 12409197 12409197 + Missense_Mutation SNP C C G rs78231473 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 138.0 66.0 166.0 0.0 0.478261 0 C|0.986;G|0.014 0.014 strong VWDE_ENST00000275358,NS,carcinoma,+1,2 VWDE 123 2 NM_001135924 exon12 c.G2735C p.S912T TAGGAACTAAAGC . PASS Atlas-SNP SREK1IP1 285672 hgsc.bcm.edu 37 5 64020241 64020241 + Silent SNP T T C rs16879016 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 180.0 90.0 179.0 0.0 0.5 0 T|0.886;C|0.114 0.114 strong . SREK1IP1 28 . NM_173829 exon5 c.A438G p.T146T ATTAGGTGTAGAA . PASS Atlas-SNP LARP6 55323 hgsc.bcm.edu 37 15 71128691 71128691 + Silent SNP G G A rs78188777 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 206.0 93.0 250.0 0.0 0.451456 0 G|0.984;A|0.016 0.016 strong . LARP6 43 . NM_018357 exon2 c.C354T p.H118H CCTCACGTGTTTT . PASS Atlas-SNP MOGAT2 80168 hgsc.bcm.edu 37 11 75431049 75431049 + Missense_Mutation SNP C C T rs35828061 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 69.0 31.0 58.0 0.0 0.449275 0 C|0.974;T|0.026 0.026 strong MOGAT2,NS,carcinoma,+1,1 MOGAT2 49 1 NM_025098 exon2 c.C104T p.T35I TCTGCACTGTGGG . PASS Atlas-SNP ACOT7 11332 hgsc.bcm.edu 37 1 6324747 6324747 + Silent SNP G G A rs61739537 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 78.0 34.0 47.0 0.0 0.435897 0 G|0.972;A|0.028 0.028 strong ACOT7,NS,carcinoma,0,1 ACOT7 71 1 NM_181864 exon9 c.C1053T p.T351T GTCCTCGGTCTCG . PASS Atlas-SNP CNTN2 6900 hgsc.bcm.edu 37 1 205033518 205033518 + Missense_Mutation SNP C C G rs79431021 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 161.0 82.0 175.0 0.0 0.509317 0 C|0.962;G|0.038 0.038 strong . CNTN2 116 . NM_005076 exon11 c.C1309G p.L437V GAGATCCTTATCC . PASS Atlas-SNP AP5B1 91056 hgsc.bcm.edu 37 11 65547775 65547775 + Silent SNP C C T rs114368095 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 51.0 19.0 41.0 0.0 0.372549 0 C|0.975;T|0.025 0.025 strong . AP5B1 40 . NM_138368 exon2 c.G189A p.Q63Q CCACAGCTGCGCA . PASS Atlas-SNP KRTAP13-2 337959 hgsc.bcm.edu 37 21 31744287 31744287 + Missense_Mutation SNP C C T rs113360916 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 182.0 86.0 178.0 0.0 0.472527 0 C|0.990;T|0.010 0.010 strong . KRTAP13-2 29 . NM_181621 exon1 c.G245A p.R82H CTGGGGCGGTAGC . PASS Atlas-SNP FBXO42 54455 hgsc.bcm.edu 37 1 16577948 16577948 + Silent SNP G G A rs61731119 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 159.0 87.0 181.0 0.0 0.54717 0 G|0.973;A|0.027 0.027 strong . FBXO42 53 . NM_018994 exon10 c.C1371T p.D457D AGGACTGTCCAAA . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195512603 195512603 + Missense_Mutation SNP T T C rs79969373 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 240.0 60.0 384.0 0.0 0.25 0 T|0.989;C|0.011 0.011 strong . MUC4 1505 . NM_018406 exon2 c.A5848G p.T1950A GGGTGGTGTGACC . PASS Atlas-SNP SARS2 54938 hgsc.bcm.edu 37 19 39416935 39416935 + Silent SNP C C T rs144229840 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 26.0 12.0 39.0 0.0 0.461538 0 C|0.995;T|0.005 0.005 strong SARS2,rectum,carcinoma,0,1 SARS2 33 1 NM_001145901 exon2 c.G273A p.S91S CCATGTCGAGATC . PASS Atlas-SNP SPTAN1 6709 hgsc.bcm.edu 37 9 131395568 131395568 + Silent SNP C C T rs2228952 bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 77.0 52.0 80.0 0.0 0.675325 0 C|0.967;T|0.033 0.033 strong . SPTAN1 266 . NM_001130438 exon57 c.C7389T p.T2463T CCCCACCGCGTTC . PASS Atlas-SNP C19orf57 79173 hgsc.bcm.edu 37 19 14006300 14006300 + Missense_Mutation SNP C C A rs58722011 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 174.0 79.0 146.0 0.0 0.454023 0 C|0.974;A|0.026 0.026 strong . C19orf57 34 . NM_024323 exon3 c.G91T p.D31Y GGGGGTCCCCATA . PASS Atlas-SNP HTATSF1 27336 hgsc.bcm.edu 37 X 135593167 135593167 + Silent SNP G G A rs1058376 bycluster;byfrequency;by2hit2allele;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 252.0 251.0 260.0 0.0 0.996032 0 0|0.004;A|0.148 0.148 strong . HTATSF1 66 . NM_001163280 exon10 c.G1263A p.A421A AATGGCGTTTGAA . PASS Atlas-SNP DCC 1630 hgsc.bcm.edu 37 18 50976898 50976898 + Silent SNP G G A rs35891220 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 127.0 64.0 117.0 1.0 0.503937 0.00854701 G|0.966;A|0.034 0.034 strong DCC,colon,carcinoma,0,1 DCC 360 1 NM_005215 exon23 c.G3258A p.P1086P CCCCCCGCATGGC . scavenged Atlas-SNP LILRA1 11024 hgsc.bcm.edu 37 19 55107869 55107869 + Missense_Mutation SNP T T G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 254.0 14.0 200.0 0.0 0.0551181 0 . . none LILRA1,NS,carcinoma,0,2 LILRA1 105 2 NM_006863 exon7 c.T1174G p.S392A GCCCACTCGGGGA . scavenged Atlas-SNP CDAN1 146059 hgsc.bcm.edu 37 15 43028207 43028207 + Silent SNP G G C rs143391538 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 166.0 83.0 184.0 0.0 0.5 0 G|0.998;C|0.002 0.002 strong . CDAN1 70 . NM_138477 exon3 c.C639G p.T213T GAAGCAGGTCTTG . PASS Atlas-SNP ATP6V0A4 50617 hgsc.bcm.edu 37 7 138417682 138417682 + Silent SNP G G A rs143883618 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 124.0 63.0 144.0 0.0 0.508065 0 G|0.995;A|0.005 0.005 strong . ATP6V0A4 93 . NM_130841 exon16 c.C1848T p.F616F GTTGATGAAGTGG . PASS Atlas-SNP KCNV2 169522 hgsc.bcm.edu 37 9 2729705 2729705 + Missense_Mutation SNP T T C rs112673841 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 103.0 52.0 93.0 0.0 0.504854 0 T|0.962;C|0.038 0.038 strong . KCNV2 72 . NM_133497 exon2 c.T1616C p.L539P CACAGCTCACCCC . PASS Atlas-SNP ZNF699 374879 hgsc.bcm.edu 37 19 9407468 9407468 + Silent SNP G G A rs189167193 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 153.0 89.0 178.0 0.0 0.581699 0 G|0.998;A|0.002 0.002 strong . ZNF699 67 . NM_198535 exon5 c.C612T p.F204F ATCCACGAAGGCC . PASS Atlas-SNP PEX14 5195 hgsc.bcm.edu 37 1 10684422 10684422 + Silent SNP C C A rs35046754 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 314.0 171.0 311.0 0.0 0.544586 0 C|0.986;A|0.014 0.014 strong . PEX14 40 . NM_004565 exon7 c.C513A p.A171A CCTCGCCTCCGTC . PASS Atlas-SNP TJP2 9414 hgsc.bcm.edu 37 9 71844124 71844124 + Missense_Mutation SNP G G A rs41277901 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 254.0 70.0 228.0 0.0 0.275591 0 G|0.988;A|0.012 0.012 strong . TJP2 120 . NM_001170416 exon10 c.G1571A p.R524K CCCCGAGAACTTT . PASS Atlas-SNP COG2 22796 hgsc.bcm.edu 37 1 230810756 230810756 + Missense_Mutation SNP T T A rs6681346 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 101.0 49.0 104.0 0.0 0.485149 0 T|0.922;A|0.078 0.078 strong . COG2 61 . NM_007357 exon9 c.T912A p.N304K AGGCAATACTGTT . PASS Atlas-SNP IFIH1 64135 hgsc.bcm.edu 37 2 163128883 163128883 + Silent SNP G G A rs13418718 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 188.0 106.0 248.0 0.0 0.56383 0 G|0.888;A|0.112 0.112 strong . IFIH1 102 . NM_022168 exon13 c.C2469T p.A823A AGCTCTGGCTCGA . PASS Atlas-SNP ITIH3 3699 hgsc.bcm.edu 37 3 52840325 52840325 + Silent SNP C C T rs34397833 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 123.0 64.0 125.0 0.0 0.520325 0 C|0.971;T|0.029 0.029 strong . ITIH3 132 . NM_002217 exon18 c.C1959T p.H653H TCCCCACTTCATC . PASS Atlas-SNP VPS33A 65082 hgsc.bcm.edu 37 12 122720423 122720423 + Silent SNP G G A rs34461198 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 253.0 125.0 240.0 0.0 0.494071 0 G|0.944;A|0.056 0.056 strong . VPS33A 61 . NM_022916 exon11 c.C1350T p.A450A CAGGCCGGCCTTC . PASS Atlas-SNP OVGP1 5016 hgsc.bcm.edu 37 1 111957721 111957721 + Missense_Mutation SNP C C T rs115512535 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 300.0 134.0 298.0 0.0 0.446667 0 C|0.997;T|0.003 0.003 strong . OVGP1 177 . NM_002557 exon11 c.G1402A p.G468R TCTCTCCTAGAGC . PASS Atlas-SNP LRRIQ1 84125 hgsc.bcm.edu 37 12 85492658 85492658 + Missense_Mutation SNP A A C rs139758674 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 94.0 47.0 92.0 1.0 0.5 0.0108696 A|0.995;C|0.005 0.005 strong LRRIQ1_ENST00000393217,NS,carcinoma,-1,2 LRRIQ1 512 2 NM_001079910 exon13 c.A3095C p.E1032A CCTTGGAGAATCT . scavenged Atlas-SNP RERE 473 hgsc.bcm.edu 37 1 8415621 8415621 + Missense_Mutation SNP G G A novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 58.0 36.0 43.0 0.0 0.62069 0 . . none . RERE 129 . NM_012102 exon23 c.C4525T p.P1509S TGGGGGGTGGGAT . PASS Atlas-SNP TIMELESS 8914 hgsc.bcm.edu 37 12 56822690 56822690 + Silent SNP C C T rs11832580 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 119.0 54.0 127.0 0.0 0.453782 0 C|0.949;T|0.051 0.051 strong . TIMELESS 107 . NM_003920 exon11 c.G1281A p.K427K AGCTTCCTTGCGG . PASS Atlas-SNP ITIH1 3697 hgsc.bcm.edu 37 3 52823864 52823864 + Missense_Mutation SNP A A T rs61730358 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 62.0 29.0 56.0 0.0 0.467742 0 A|0.981;T|0.019 0.019 strong . ITIH1 108 . NM_002215 exon19 c.A2315T p.Q772L TGCGGCAGGACGG . PASS Atlas-SNP SLC39A11 201266 hgsc.bcm.edu 37 17 70645366 70645366 + Missense_Mutation SNP C C G rs115567758 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 109.0 47.0 95.0 0.0 0.431193 0 C|0.999;G|0.001 0.001 strong . SLC39A11 32 . NM_001159770 exon8 c.G734C p.G245A GCCAGGCCCTCGG . PASS Atlas-SNP LSG1 55341 hgsc.bcm.edu 37 3 194371925 194371925 + Silent SNP A A G rs35636619 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 184.0 83.0 182.0 0.0 0.451087 0 A|0.999;G|0.001 0.001 strong . LSG1 38 . NM_018385 exon9 c.T1194C p.G398G ACTCTTACCAACA . PASS Atlas-SNP ARNT2 9915 hgsc.bcm.edu 37 15 80843578 80843578 + Missense_Mutation SNP G G A rs150765047 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 38.0 23.0 26.0 0.0 0.605263 0 G|0.999;A|0.001 0.001 strong . ARNT2 88 . NM_014862 exon9 c.G916A p.G306S GGACAAGGCAGTA . PASS Atlas-SNP VNN1 8876 hgsc.bcm.edu 37 6 133015257 133015257 + Missense_Mutation SNP C C G rs45610032 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 233.0 115.0 224.0 0.0 0.493562 0 C|0.992;G|0.008 0.008 strong . VNN1 69 . NM_004666 exon3 c.G406C p.V136L TTGCCACAACATA . PASS Atlas-SNP MRPL32 64983 hgsc.bcm.edu 37 7 42971998 42971998 + Missense_Mutation SNP A A G rs111980169 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 96.0 51.0 99.0 0.0 0.53125 0 A|0.995;G|0.005 0.005 strong . MRPL32 25 . NM_031903 exon1 c.A13G p.M5V CTGGCCATGCTGG . PASS Atlas-SNP TELO2 9894 hgsc.bcm.edu 37 16 1552107 1552107 + Missense_Mutation SNP C C T rs58099766 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 68.0 36.0 63.0 0.0 0.529412 0 C|0.972;T|0.028 0.028 strong . TELO2 44 . NM_016111 exon12 c.C1532T p.A511V GCAAGGCTCCTGC . PASS Atlas-SNP LRFN1 57622 hgsc.bcm.edu 37 19 39805188 39805188 + Silent SNP C C T rs115860908 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 51.0 34.0 44.0 0.0 0.666667 0 C|0.971;T|0.029 0.029 strong . LRFN1 59 . NM_020862 exon1 c.G789A p.L263L CCGCCGCAGCCAG . PASS Atlas-SNP MYO1F 4542 hgsc.bcm.edu 37 19 8620636 8620636 + Silent SNP C C T rs73501540 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 122.0 122.0 106.0 0.0 1 0 C|0.966;T|0.034 0.034 strong . MYO1F 128 . NM_012335 exon2 c.G48A p.Q16Q GCCGCTCTGCTTC . PASS Atlas-SNP TAS1R2 80834 hgsc.bcm.edu 37 1 19166894 19166894 + Silent SNP G G A rs11805253 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 125.0 63.0 140.0 0.0 0.504 0 G|0.959;A|0.041 0.041 strong . TAS1R2 134 . NM_152232 exon6 c.C1719T p.A573A CAGGGCGGCCAGC . PASS Atlas-SNP ZNF587 84914 hgsc.bcm.edu 37 19 58370744 58370744 + Missense_Mutation SNP G G A rs201869821 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 201.0 63.0 232.0 0.0 0.313433 0 G|0.999;A|0.001 0.001 weak . ZNF587 53 . NM_032828 exon3 c.G964A p.G322R GGAGAAGGGCCTT . PASS Atlas-SNP BEST1 7439 hgsc.bcm.edu 37 11 61730414 61730414 + Silent SNP C C A rs115379107 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 163.0 84.0 201.0 0.0 0.515337 0 C|0.974;A|0.026 0.026 strong . BEST1 85 . NM_001139443 exon9 c.C1608A p.T536T CCCCACCCCAGCT . PASS Atlas-SNP ADCY2 108 hgsc.bcm.edu 37 5 7706989 7706989 + Silent SNP C C T rs75986905 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 248.0 123.0 183.0 0.0 0.495968 0 C|0.985;T|0.015 0.015 strong . ADCY2 337 . NM_020546 exon8 c.C1242T p.N414N GGCCAACCACATG . PASS Atlas-SNP TRMT11 60487 hgsc.bcm.edu 37 6 126319453 126319453 + Nonsense_Mutation SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 48.0 12.0 35.0 0.0 0.25 0 . . none TRMT11,NS,carcinoma,-1,2 TRMT11 43 2 NM_001031712 exon5 c.C379T p.R127X ATCAAGCGAATAG . PASS Atlas-SNP ZNF208 7757 hgsc.bcm.edu 37 19 22156470 22156470 + Missense_Mutation SNP C C G rs7255075 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 80.0 36.0 64.0 0.0 0.45 0 C|0.961;G|0.039 0.039 strong ZNF208_ENST00000428290,NS,carcinoma,+2,3 ZNF208 817 3 NM_007153 exon4 c.G1366C p.E456Q ATTCTTCACATTT . PASS Atlas-SNP LHB 3972 hgsc.bcm.edu 37 19 49519518 49519518 + Missense_Mutation SNP G G T rs116437960 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 119.0 48.0 112.0 0.0 0.403361 0 G|0.988;T|0.012 0.012 strong . LHB 20 . NM_000894 exon3 c.C233A p.T78N CGGTAGGTGCACA . PASS Atlas-SNP OR10Q1 219960 hgsc.bcm.edu 37 11 57996289 57996289 + Missense_Mutation SNP G G A rs112800197 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 212.0 103.0 209.0 0.0 0.485849 0 G|0.991;A|0.009 0.009 strong . OR10Q1 79 . NM_001004471 exon1 c.C59T p.A20V GTGAACGCACGGA . PASS Atlas-SNP KRTAP9-1 728318 hgsc.bcm.edu 37 17 39346197 39346197 + Missense_Mutation SNP G G A rs139370444 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 72.0 35.0 90.0 0.0 0.486111 0 G|0.992;A|0.008 0.008 strong . KRTAP9-1 34 . NM_001190460 exon1 c.G59A p.R20K GCTGCAGGACAAC . PASS Atlas-SNP PRKACA 5566 hgsc.bcm.edu 37 19 14204527 14204527 + Silent SNP G G C rs3729858 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 165.0 85.0 179.0 0.0 0.515152 0 G|0.995;C|0.005 0.005 strong . PRKACA 65 . NM_002730 exon9 c.C843G p.R281R CCCAAAGCGCTTG . PASS Atlas-SNP IFITM3 10410 hgsc.bcm.edu 37 11 320723 320723 + Missense_Mutation SNP C C T rs56227617 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 97.0 4.0 98.0 0.0 0.0412371 0 . . weak IFITM3,brain,glioma,0,1 IFITM3 132 1 NM_021034 exon1 c.G91A p.V31M CCAGCACAGCCAC . scavenged Atlas-SNP GTDC1 79712 hgsc.bcm.edu 37 2 144966208 144966208 + Silent SNP T T C rs16823579 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 64.0 41.0 94.0 0.0 0.640625 0 T|0.957;C|0.043 0.043 strong . GTDC1 61 . NM_001006636 exon4 c.A141G p.L47L GAAATATAAAGCA . PASS Atlas-SNP ELK1 2002 hgsc.bcm.edu 37 X 47498400 47498400 + Missense_Mutation SNP C C T rs1059579 bycluster;byfrequency;by2hit2allele;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 180.0 59.0 186.0 0.0 0.327778 0 C|0.847;T|0.153 0.153 strong . ELK1 54 . NM_001114123 exon4 c.G548A p.S183N GCTGCACTGGGGA . PASS Atlas-SNP SEMA6B 10501 hgsc.bcm.edu 37 19 4558422 4558422 + Silent SNP C C A rs115168835 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 31.0 17.0 17.0 0.0 0.548387 0 C|0.985;A|0.015 0.015 strong . SEMA6B 51 . NM_032108 exon2 c.G48T p.L16L CAGCAGCAGAAGC . PASS Atlas-SNP FLG 2312 hgsc.bcm.edu 37 1 152281136 152281136 + Missense_Mutation SNP C C T rs78125326 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 915.0 460.0 482.0 0.0 0.502732 0 C|0.942;T|0.058 0.058 strong . FLG 900 . NM_002016 exon3 c.G6226A p.A2076T CACGTGCGGACTC . PASS Atlas-SNP CTNNA2 1496 hgsc.bcm.edu 37 2 80620370 80620370 + Missense_Mutation SNP T T C rs61754542 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 227.0 93.0 237.0 0.0 0.409692 0 T|0.992;C|0.008 0.008 strong . CTNNA2 462 . NM_001164883 exon8 c.T1091C p.I364T TCAACATTGCGAT . PASS Atlas-SNP ANKRD45 339416 hgsc.bcm.edu 37 1 173596273 173596273 + Silent SNP A A G rs12059068 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 56.0 56.0 58.0 0.0 1 0 A|0.781;G|0.219 0.219 strong . ANKRD45 36 . NM_198493 exon4 c.T522C p.Y174Y TGCAATATATTTT . PASS Atlas-SNP TCF4 6925 hgsc.bcm.edu 37 18 52901894 52901894 + Silent SNP A A G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 85.0 46.0 70.0 0.0 0.541176 0 . . none . TCF4 178 . NM_001243226 exon17 c.T1677C p.D559D CACGCCATCTTCA . PASS Atlas-SNP RAD17 5884 hgsc.bcm.edu 37 5 68710032 68710032 + Silent SNP G G A rs145547419 bycluster;byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 118.0 53.0 113.0 0.0 0.449153 0 G|0.998;A|0.002 0.002 strong . RAD17 49 . NM_133339 exon16 c.G1959A p.L653L TGAACTGCCTGCT . PASS Atlas-SNP PPFIBP2 8495 hgsc.bcm.edu 37 11 7673049 7673049 + Missense_Mutation SNP C C G rs77975665 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 46.0 13.0 53.0 0.0 0.282609 0 C|0.922;G|0.078 0.078 strong . PPFIBP2 87 . NM_003621 exon23 c.C2410G p.P804A TACACACCACTGA . PASS Atlas-SNP CDH23 64072 hgsc.bcm.edu 37 10 73553177 73553177 + Silent SNP C C T rs41281332 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 120.0 63.0 105.0 0.0 0.525 0 C|0.976;T|0.024 0.024 strong . CDH23 365 . NM_022124 exon46 c.C6492T p.I2164I TCTGATCGATGAC . PASS Atlas-SNP TRDN 10345 hgsc.bcm.edu 37 6 123759243 123759243 + Missense_Mutation SNP C C T rs35766971 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 58.0 29.0 64.0 0.0 0.5 0 C|0.991;T|0.009 0.009 strong TRDN,posterior_fossa,glioma,0,1 TRDN 88 1 NM_001251987 exon12 c.G1019A p.S340N TTCTCACTTTTCT . PASS Atlas-SNP NCAPD3 23310 hgsc.bcm.edu 37 11 134038949 134038949 + Missense_Mutation SNP G G T rs7927108 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 40.0 16.0 45.0 0.0 0.4 0 G|0.966;T|0.034 0.034 strong . NCAPD3 141 . NM_015261 exon25 c.C3102A p.S1034R CCCGAAGCTGCAA . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195515026 195515026 + Missense_Mutation SNP G G C rs200763050 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 436.0 20.0 134.0 0.0 0.0458716 0 G|0.998;C|0.002 0.002 weak MUC4_ENST00000463781,NS,carcinoma,0,4 MUC4 1505 4 NM_018406 exon2 c.C3425G p.T1142S GAGGAAGTGTCGG . PASS Atlas-SNP BRICD5 283870 hgsc.bcm.edu 37 16 2259673 2259673 + Missense_Mutation SNP T T C rs144886139 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 85.0 42.0 91.0 0.0 0.494118 0 T|0.993;C|0.007 0.007 strong C16orf79,NS,carcinoma,+1,1 . . 1 NM_182563 exon5 c.A473G p.H158R GTGTGGTGGGTGT . PASS Atlas-SNP GNL3L 54552 hgsc.bcm.edu 37 X 54578725 54578725 + Silent SNP C C T rs147602603 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 204.0 93.0 207.0 0.0 0.455882 0 C|0.998;T|0.002 0.002 strong . GNL3L 73 . NM_001184819 exon13 c.C1182T p.S394S ATGCAGCGGGAAG . PASS Atlas-SNP TNRC18 84629 hgsc.bcm.edu 37 7 5353252 5353252 + Missense_Mutation SNP G G C rs58819185 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 155.0 66.0 119.0 0.0 0.425806 0 G|0.943;C|0.057 0.057 strong . TNRC18 311 . NM_001080495 exon27 c.C7270G p.P2424A GTGCTGGGGCCAG . PASS Atlas-SNP PAPPA 5069 hgsc.bcm.edu 37 9 118950208 118950208 + Silent SNP G G T rs80284365 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 78.0 52.0 77.0 0.0 0.666667 0 G|0.955;T|0.045 0.045 strong . PAPPA 243 . NM_002581 exon2 c.G1191T p.V397V GGACGTGCTGGAG . PASS Atlas-SNP CEP192 55125 hgsc.bcm.edu 37 18 13056065 13056065 + Missense_Mutation SNP C C G rs61739695 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 68.0 35.0 91.0 0.0 0.514706 0 C|0.986;G|0.014 0.014 strong . CEP192 340 . NM_032142 exon19 c.C3476G p.P1159R CAAACCCTGAGGA . PASS Atlas-SNP GPD1 2819 hgsc.bcm.edu 37 12 50498475 50498475 + Missense_Mutation SNP A A G rs2232202 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 98.0 41.0 130.0 0.0 0.418367 0 A|0.984;G|0.016 0.016 strong . GPD1 23 . NM_005276 exon2 c.A160G p.I54V GAGATCATCAACA . PASS Atlas-SNP HYDIN 54768 hgsc.bcm.edu 37 16 70954682 70954682 + Missense_Mutation SNP G G A rs143849088 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 88.0 43.0 82.0 0.0 0.488636 0 G|0.996;A|0.004 0.004 strong . HYDIN 788 . NM_001270974 exon46 c.C7597T p.R2533W GCTCCCGCTCCGC . PASS Atlas-SNP ZNF479 90827 hgsc.bcm.edu 37 7 57187997 57187997 + Missense_Mutation SNP A A T rs146543279 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 281.0 143.0 242.0 0.0 0.508897 0 A|0.998;T|0.002 0.002 strong . ZNF479 193 . NM_033273 exon5 c.T1125A p.H375Q TCCAGTATGAATT . PASS Atlas-SNP JMJD7-PLA2G4B 8681 hgsc.bcm.edu 37 15 42137201 42137201 + Missense_Mutation SNP G G A rs34807597 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 79.0 36.0 65.0 0.0 0.455696 0 G|0.984;A|0.016 0.016 strong . JMJD7-PLA2G4B 90 . NM_005090 exon18 c.G1865A p.R622H GTGCCCGCTTGGG . PASS Atlas-SNP SLC38A8 146167 hgsc.bcm.edu 37 16 84050218 84050218 + Silent SNP G G A rs13334006 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 36.0 21.0 46.0 0.0 0.583333 0 G|0.939;A|0.061 0.061 strong . SLC38A8 60 . NM_001080442 exon8 c.C1068T p.T356T CGTCACGGTGACC . PASS Atlas-SNP KBTBD6 89890 hgsc.bcm.edu 37 13 41706450 41706450 + Silent SNP G G C rs147388453 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 71.0 40.0 101.0 0.0 0.56338 0 G|0.988;C|0.012 0.012 strong . KBTBD6 83 . NM_152903 exon1 c.C198G p.T66T CTCGATGGTCACA . PASS Atlas-SNP CPNE3 8895 hgsc.bcm.edu 37 8 87558846 87558846 + Missense_Mutation SNP G G C rs41333046 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 270.0 141.0 265.0 0.0 0.522222 0 G|0.888;C|0.112 0.112 strong CPNE3,NS,carcinoma,0,1 CPNE3 65 1 NM_003909 exon10 c.G756C p.E252D AAATGAGAAAAAA . PASS Atlas-SNP TFRC 7037 hgsc.bcm.edu 37 3 195787102 195787102 + Silent SNP C C T rs111276121 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 164.0 86.0 177.0 0.0 0.52439 0 C|0.997;T|0.003 0.003 strong . TFRC 54 . NM_001128148 exon14 c.G1485A p.K495K AGAAACCTTGAAG . PASS Atlas-SNP ATP10A 57194 hgsc.bcm.edu 37 15 25962057 25962057 + Silent SNP C C T rs115618637 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 113.0 47.0 82.0 0.0 0.415929 0 C|0.998;T|0.002 0.002 strong . ATP10A 270 . NM_024490 exon9 c.G1596A p.T532T GTCGGGCGTGATA . PASS Atlas-SNP USP18 11274 hgsc.bcm.edu 37 22 18644597 18644597 + Missense_Mutation SNP G G A rs3747038 bycluster TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 439.0 127.0 324.0 0.0 0.289294 0 . . weak . USP18 22 . NM_017414 exon4 c.G295A p.V99I AGAAGCGTCCCTT . PASS Atlas-SNP ZNF668 79759 hgsc.bcm.edu 37 16 31075439 31075439 + Silent SNP G G A rs34107331 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 14.0 7.0 7.0 0.0 0.5 0 G|0.990;A|0.010 0.010 strong . ZNF668 121 . NM_001172669 exon3 c.C411T p.C137C CTCGGGGCACGGA . PASS Atlas-SNP WDR62 284403 hgsc.bcm.edu 37 19 36594404 36594404 + Missense_Mutation SNP G G A rs61743589 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 119.0 56.0 133.0 0.0 0.470588 0 G|0.981;A|0.019 0.019 strong . WDR62 102 . NM_001083961 exon30 c.G3674A p.R1225H GCTCCCGTGCCAG . PASS Atlas-SNP SDF2 6388 hgsc.bcm.edu 37 17 26988852 26988852 + Missense_Mutation SNP C C T rs35404078 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 97.0 45.0 92.0 0.0 0.463918 0 C|0.990;T|0.010 0.010 strong . SDF2 17 . NM_006923 exon1 c.G43A p.A15T CCACAGCGCTCCA . PASS Atlas-SNP CA6 765 hgsc.bcm.edu 37 1 9009452 9009452 + Silent SNP C C T rs61746465 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 111.0 64.0 102.0 0.0 0.576577 0 C|0.988;T|0.012 0.012 strong . CA6 47 . NM_001270500 exon2 c.C210T p.G70G GACAGGCTATGAG . PASS Atlas-SNP DENND2D 79961 hgsc.bcm.edu 37 1 111738589 111738589 + Silent SNP A A T rs34558744 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 70.0 33.0 49.0 0.0 0.471429 0 A|0.988;T|0.012 0.012 strong . DENND2D 50 . NM_024901 exon6 c.T594A p.A198A CCCAGGAGCAGGG . PASS Atlas-SNP FAM135A 57579 hgsc.bcm.edu 37 6 71245978 71245978 + Silent SNP G G A rs9446260 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 82.0 39.0 80.0 0.0 0.47561 0 G|0.972;A|0.028 0.028 strong . FAM135A 181 . NM_001162529 exon17 c.G3981A p.S1327S ACATTCGTTGGGC . PASS Atlas-SNP SLC6A5 9152 hgsc.bcm.edu 37 11 20652291 20652291 + Silent SNP C C T rs143680068 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 298.0 138.0 316.0 1.0 0.463087 0.00316456 C|1.000;T|0.000 0.000 strong . SLC6A5 151 . NM_004211 exon10 c.C1554T p.F518F CGGCTTCGTCATC . PASS Atlas-SNP KIAA1279 26128 hgsc.bcm.edu 37 10 70775329 70775329 + Silent SNP G G A rs16926021 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 52.0 24.0 53.0 0.0 0.461538 0 G|0.946;A|0.054 0.054 strong . KIAA1279 35 . NM_015634 exon7 c.G1023A p.Q341Q TAAACAGTCTGAA . PASS Atlas-SNP JMJD7-PLA2G4B 8681 hgsc.bcm.edu 37 15 42139875 42139875 + Missense_Mutation SNP A A G rs34424865 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 91.0 49.0 92.0 0.0 0.538462 0 A|0.984;G|0.016 0.016 strong . JMJD7-PLA2G4B 90 . NM_001198588 exon24 c.A2669G p.Q890R GGCGGCAGCTGGG . PASS Atlas-SNP FAT1 2195 hgsc.bcm.edu 37 4 187542356 187542356 + Missense_Mutation SNP C C T rs56790426 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 150.0 71.0 139.0 0.0 0.473333 0 C|0.993;T|0.007 0.007 strong . FAT1 500 . NM_005245 exon10 c.G5384A p.R1795Q GCTGCTCGAATCA . PASS Atlas-SNP OR14I1 401994 hgsc.bcm.edu 37 1 248844695 248844695 + Missense_Mutation SNP A A T rs114135727 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 51.0 24.0 43.0 0.0 0.470588 0 A|0.982;T|0.018 0.018 strong . OR14I1 64 . NM_001004734 exon1 c.T911A p.V304E ATCTTCACAAAGA . PASS Atlas-SNP BLOC1S2 282991 hgsc.bcm.edu 37 10 102046402 102046402 + Silent SNP G G C rs12250221 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 53.0 22.0 75.0 0.0 0.415094 0 G|0.949;C|0.051 0.051 strong . BLOC1S2 10 . NM_173809 exon1 c.C15G p.A5A GCCCTCGGCTGCC . PASS Atlas-SNP HSD17B4 3295 hgsc.bcm.edu 37 5 118877677 118877677 + Silent SNP C C T rs12714 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 154.0 79.0 193.0 0.0 0.512987 0 C|0.960;T|0.040 0.040 strong . HSD17B4 63 . NM_001199291 exon25 c.C2274T p.Y758Y AGACTACGCCAAG . PASS Atlas-SNP C4orf40 401137 hgsc.bcm.edu 37 4 71024268 71024268 + Missense_Mutation SNP A A G rs116632053 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 213.0 100.0 209.0 0.0 0.469484 0 A|0.986;G|0.014 0.014 strong . C4orf40 19 . NM_214711 exon3 c.A299G p.N100S AGTTGAATGTTCC . PASS Atlas-SNP SLC8A3 6547 hgsc.bcm.edu 37 14 70512964 70512964 + Silent SNP G G A rs144234198 byfrequency TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 148.0 71.0 94.0 0.0 0.47973 0 G|1.000;A|0.000 0.000 strong SLC8A3_ENST00000357887,colon,carcinoma,0,2 SLC8A3 234 2 NM_183002 exon8 c.C2484T p.N828N GACGGCGTTGCTG . PASS Atlas-SNP TTN 7273 hgsc.bcm.edu 37 2 179552895 179552895 + Missense_Mutation SNP C C T rs72650028 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 147.0 78.0 157.0 0.0 0.530612 0 C|0.991;T|0.009 0.009 strong . TTN 18412 . NM_001267550 exon127 c.G32254A p.V10752I TATAAACTGAAAT . PASS Atlas-SNP SHCBP1L 81626 hgsc.bcm.edu 37 1 182922003 182922003 + Missense_Mutation SNP G G T rs13373887 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 37.0 28.0 33.0 0.0 0.756757 0 G|0.965;T|0.035 0.035 strong . SHCBP1L 64 . NM_030933 exon1 c.C266A p.A89E TCCTCCGCCGCCG . PASS Atlas-SNP GMFG 9535 hgsc.bcm.edu 37 19 39826131 39826131 + Missense_Mutation SNP G G T rs1801733 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 179.0 74.0 165.0 0.0 0.413408 0 G|0.980;T|0.020 0.020 strong . GMFG 16 . NM_004877 exon2 c.C44A p.T15K TTTTCTGTTAGCT . PASS Atlas-SNP KDM1A 23028 hgsc.bcm.edu 37 1 23409803 23409803 + Silent SNP G G A rs150794224 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 69.0 43.0 89.0 0.0 0.623188 0 G|0.997;A|0.003 0.003 strong . KDM1A 49 . NM_001009999 exon21 c.G2577A p.T859T GTATACGCTGCCT . PASS Atlas-SNP FAM129C 199786 hgsc.bcm.edu 37 19 17643125 17643125 + Silent SNP C C T rs73504248 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 219.0 219.0 168.0 0.0 1 0 C|0.976;T|0.024 0.024 strong . FAM129C 110 . NM_001098524 exon4 c.C333T p.H111H GGGCCACCCACCC . PASS Atlas-SNP CCDC65 85478 hgsc.bcm.edu 37 12 49308261 49308261 + Silent SNP C C T rs143088014 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 67.0 25.0 62.0 0.0 0.373134 0 C|0.999;T|0.001 0.001 strong . CCDC65 41 . NM_033124 exon3 c.C375T p.D125D TGTTGACCAGCTC . PASS Atlas-SNP FBXL5 26234 hgsc.bcm.edu 37 4 15627092 15627092 + Missense_Mutation SNP A A G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 134.0 6.0 131.0 0.0 0.0447761 0 . . none . FBXL5 52 . NM_012161 exon9 c.T1633C p.Y545H CACAATACGCAAA . PASS Atlas-SNP FBXO22 26263 hgsc.bcm.edu 37 15 76205550 76205550 + Missense_Mutation SNP C C T novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 20.0 11.0 16.0 0.0 0.55 0 . . none FBXO22_ENST00000453211,NS,carcinoma,0,3 FBXO22 60 3 NM_012170 exon3 c.C286T p.R96C AATGTTCGCATCT . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195512734 195512734 + Missense_Mutation SNP T T G novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 327.0 27.0 399.0 2.0 0.0825688 0.00501253 . . none MUC4_ENST00000463781,NS,malignant_melanoma,0,2 MUC4 1505 2 NM_018406 exon2 c.A5717C p.H1906P GTGACATGAAGAG . scavenged Atlas-SNP PAPSS1 9061 hgsc.bcm.edu 37 4 108552787 108552787 + Missense_Mutation SNP T T C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 112.0 45.0 100.0 0.0 0.401786 0 . . none . PAPSS1 57 . NM_005443 exon11 c.A1736G p.H579R ACTTACTGTTCAG . PASS Atlas-SNP AHNAK2 113146 hgsc.bcm.edu 37 14 105416775 105416775 + Silent SNP C C A rs60880494 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 213.0 82.0 316.0 0.0 0.384977 0 A|0.015;C|0.985 0.015 strong . AHNAK2 719 . NM_138420 exon7 c.G5013T p.S1671S TGGGGCCGACACC . PASS Atlas-SNP CCDC168 643677 hgsc.bcm.edu 37 13 103398453 103398453 + Missense_Mutation SNP C C A rs141118373 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 206.0 108.0 199.0 0.0 0.524272 0 C|0.991;A|0.009 0.009 strong . . . . NM_001146197 exon4 c.G4594T p.G1532C AAGGACCCATTTG . PASS Atlas-SNP PEX19 5824 hgsc.bcm.edu 37 1 160253413 160253413 + Silent SNP G G A rs141911166 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 103.0 53.0 81.0 0.0 0.514563 0 G|1.000;A|0.000 0.000 strong PEX19,NS,carcinoma,0,3 PEX19 34 3 NM_002857 exon2 c.C87T p.F29F TTTATCGAAATCA . PASS Atlas-SNP KRT16 3868 hgsc.bcm.edu 37 17 39767947 39767947 + Silent SNP C C T rs144914208 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 379.0 169.0 390.0 0.0 0.44591 0 C|0.978;T|0.022 0.022 strong KRT16,colon,carcinoma,-1,1 KRT16 45 1 NM_005557 exon2 c.G558A p.A186A GGGCTGCGCATTC . PASS Atlas-SNP PUS7L 83448 hgsc.bcm.edu 37 12 44130205 44130205 + Silent SNP G G A rs12309260 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 96.0 52.0 72.0 0.0 0.541667 0 G|0.988;A|0.012 0.012 strong . PUS7L 73 . NM_001098614 exon7 c.C1704T p.D568D ATTCTCGTCATCA . PASS Atlas-SNP ATAD3C 219293 hgsc.bcm.edu 37 1 1403894 1403894 + Missense_Mutation SNP A A G rs145079480 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 276.0 108.0 290.0 0.0 0.391304 0 A|0.972;G|0.028 0.028 strong . ATAD3C 23 . NM_001039211 exon12 c.A1220G p.E407G AGGACGAGCAACC . PASS Atlas-SNP RGPD8 727851 hgsc.bcm.edu 37 2 113147751 113147751 + Missense_Mutation SNP A A C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 720.0 230.0 627.0 0.0 0.319444 0 . . none . RGPD8 81 . NM_001164463 exon20 c.T2771G p.F924C ATGCCAAATTTAA . PASS Atlas-SNP LRRN4 164312 hgsc.bcm.edu 37 20 6021703 6021703 + Missense_Mutation SNP C C T rs116777692 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 198.0 78.0 177.0 0.0 0.393939 0 C|0.990;T|0.010 0.010 strong . LRRN4 54 . NM_152611 exon5 c.G2188A p.D730N AATCATCAAAGGC . PASS Atlas-SNP MYO19 80179 hgsc.bcm.edu 37 17 34859831 34859831 + Silent SNP G G A rs73276768 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 45.0 19.0 37.0 0.0 0.422222 0 G|0.996;A|0.004 0.004 strong . MYO19 130 . NM_001163735 exon21 c.C1935T p.L645L CTCCACGAGGCCA . PASS Atlas-SNP TMEM140 55281 hgsc.bcm.edu 37 7 134849690 134849690 + Missense_Mutation SNP T T C rs76023601 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 214.0 98.0 146.0 0.0 0.457944 0 T|0.998;C|0.002 0.002 strong . TMEM140 18 . NM_018295 exon2 c.T497C p.I166T TGCTTATAGCCAT . PASS Atlas-SNP C16orf71 146562 hgsc.bcm.edu 37 16 4790304 4790304 + Missense_Mutation SNP C C T rs17137230 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 192.0 103.0 156.0 0.0 0.536458 0 C|0.980;T|0.020 0.020 strong . C16orf71 46 . NM_139170 exon4 c.C427T p.P143S GAGGAGCCCCCCA . PASS Atlas-SNP PELP1 27043 hgsc.bcm.edu 37 17 4576623 4576623 + Silent SNP G G A rs191748391 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 194.0 97.0 161.0 0.0 0.5 0 G|0.999;A|0.001 0.001 strong . PELP1 102 . NM_014389 exon15 c.C1767T p.A589A AGACGGGGCCAGC . PASS Atlas-SNP MET 4233 hgsc.bcm.edu 37 7 116340269 116340269 + Silent SNP C C T rs28444388 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 42.0 17.0 36.0 0.0 0.404762 0 C|0.967;T|0.033 0.033 strong . MET 412 . NM_000245 exon2 c.C1131T p.I377I CAAGATCGTCAAC . PASS Atlas-SNP UBR4 23352 hgsc.bcm.edu 37 1 19467322 19467322 + Silent SNP G G A rs139618268 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 67.0 34.0 57.0 0.0 0.507463 0 G|0.999;A|0.001 0.001 strong . UBR4 415 . NM_020765 exon58 c.C8553T p.S2851S CAGAGAGGAAGAG . PASS Atlas-SNP SLC4A7 9497 hgsc.bcm.edu 37 3 27436247 27436247 + Missense_Mutation SNP T T C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 85.0 47.0 80.0 0.0 0.552941 0 . . none . SLC4A7 119 . NM_003615 exon20 c.A2852G p.Y951C AGGTGATAGCCAG . PASS Atlas-SNP CELSR1 9620 hgsc.bcm.edu 37 22 46760102 46760102 + Silent SNP C C T rs6008778 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 65.0 34.0 41.0 0.0 0.523077 0 C|0.948;T|0.052 0.052 strong . CELSR1 242 . NM_014246 exon34 c.G8826A p.T2942T CTGCTCCGTCAGC . PASS Atlas-SNP APC 324 hgsc.bcm.edu 37 5 112176556 112176556 + Silent SNP G G A rs34506289 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 109.0 41.0 114.0 0.0 0.376147 0 G|0.992;A|0.008 0.008 strong . APC 4158 . NM_001127510 exon17 c.G5265A p.A1755A ATCTGCGTCTTCT . PASS Atlas-SNP CREB3L3 84699 hgsc.bcm.edu 37 19 4171825 4171825 + Silent SNP G G A rs115268777 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 125.0 68.0 123.0 0.0 0.544 0 G|0.988;A|0.012 0.012 strong . CREB3L3 53 . NM_032607 exon10 c.G1245A p.T415T TTCGACGGAGGAG . PASS Atlas-SNP GAB4 128954 hgsc.bcm.edu 37 22 17472785 17472785 + Silent SNP G G A rs116325774 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 284.0 136.0 272.0 2.0 0.478873 0.00735294 G|0.994;A|0.006 0.006 strong GAB4,NS,carcinoma,-1,1 GAB4 95 1 NM_001037814 exon2 c.C456T p.G152G CCTGAAGCCACAG . scavenged Atlas-SNP IVL 3713 hgsc.bcm.edu 37 1 152882811 152882811 + Missense_Mutation SNP G G A rs75111974 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 205.0 112.0 126.0 0.0 0.546341 0 G|0.980;A|0.020 0.020 strong . IVL 100 . NM_005547 exon2 c.G538A p.E180K CAGCAGGAGGGGC . PASS Atlas-SNP NOS1 4842 hgsc.bcm.edu 37 12 117685255 117685255 + Silent SNP G G A rs41410247 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 157.0 72.0 159.0 0.0 0.458599 0 G|0.995;A|0.005 0.005 strong . NOS1 240 . NM_001204218 exon19 c.C2823T p.L941L TTCCAGGAGGGTG . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195511608 195511608 + Silent SNP T T C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 167.0 18.0 505.0 1.0 0.107784 0.0019802 . . none MUC4_ENST00000463781,NS,carcinoma,-1,1 MUC4 1505 1 NM_018406 exon2 c.A6843G p.V2281V TGTGGATACTGAG . scavenged Atlas-SNP ZDHHC7 55625 hgsc.bcm.edu 37 16 85011548 85011548 + Missense_Mutation SNP C C T rs13334011 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 187.0 91.0 181.0 0.0 0.486631 0 C|0.962;T|0.038 0.038 strong . ZDHHC7 55 . NM_001145548 exon7 c.G712A p.V238I CTCGGACACAGGA . PASS Atlas-SNP CYP4F12 66002 hgsc.bcm.edu 37 19 15791081 15791081 + Missense_Mutation SNP T T C rs146740964 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 374.0 93.0 264.0 0.0 0.248663 0 T|0.989;C|0.011 0.011 strong . CYP4F12 89 . NM_023944 exon4 c.T371C p.F124S ATCTCTTCATCAG . PASS Atlas-SNP EHHADH 1962 hgsc.bcm.edu 37 3 184910042 184910042 + Missense_Mutation SNP A A G rs11927618 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 128.0 67.0 126.0 0.0 0.523438 0 A|0.975;G|0.025 0.025 strong . EHHADH 73 . NM_001966 exon7 c.T2144C p.L715S CCTGCCAAGCTTT . PASS Atlas-SNP PRSS38 339501 hgsc.bcm.edu 37 1 228003843 228003843 + Silent SNP C C T rs113353225 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 246.0 139.0 195.0 1.0 0.565041 0.00512821 C|0.982;T|0.018 0.018 strong . PRSS38 55 . NM_183062 exon2 c.C201T p.P67P TGCGCCCGAGAGG . PASS Atlas-SNP AHCTF1 25909 hgsc.bcm.edu 37 1 247013203 247013203 + Silent SNP G G A rs74976688 TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 231.0 101.0 201.0 0.0 0.437229 0 . . weak . AHCTF1 187 . NM_015446 exon33 c.C6132T p.N2044N TTCCTCGTTTGGC . PASS Atlas-SNP ECT2L 345930 hgsc.bcm.edu 37 6 139170412 139170412 + Missense_Mutation SNP A A G rs75962473 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 132.0 69.0 120.0 0.0 0.522727 0 A|0.992;G|0.008 0.008 strong . ECT2L 75 . NM_001195037 exon8 c.A910G p.M304V ATGGTGATGGAGA . PASS Atlas-SNP NOL8 55035 hgsc.bcm.edu 37 9 95081569 95081569 + Silent SNP T T C rs16908298 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 241.0 156.0 284.0 0.0 0.647303 0 T|0.969;C|0.031 0.031 strong . NOL8 118 . NM_017948 exon5 c.A351G p.L117L CTTTTCTAACAAG . PASS Atlas-SNP AHNAK2 113146 hgsc.bcm.edu 37 14 105414316 105414316 + Missense_Mutation SNP G G A rs145541349 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 259.0 128.0 303.0 2.0 0.494208 0.00660066 G|0.988;A|0.012 0.012 strong AHNAK2_ENST00000333244,colon,carcinoma,+1,2 AHNAK2 719 2 NM_138420 exon7 c.C7472T p.P2491L AATGACGGCATCT . scavenged Atlas-SNP NEURL4 84461 hgsc.bcm.edu 37 17 7221454 7221454 + Silent SNP G G A rs73239601 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 87.0 43.0 97.0 0.0 0.494253 0 G|0.999;A|0.001 0.001 strong . NEURL4 192 . NM_032442 exon25 c.C3990T p.A1330A ACTAGCGGCAGGT . PASS Atlas-SNP FSTL4 23105 hgsc.bcm.edu 37 5 132535225 132535225 + Silent SNP G G A rs61740558 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 118.0 68.0 113.0 0.0 0.576271 0 G|0.980;A|0.020 0.020 strong FSTL4,colon,carcinoma,0,2 FSTL4 74 2 NM_015082 exon16 c.C2091T p.D697D GCGCCCGTCGGGG . PASS Atlas-SNP CHST5 23563 hgsc.bcm.edu 37 16 75564172 75564172 + Silent SNP C C G rs74355367 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 114.0 52.0 95.0 0.0 0.45614 0 C|0.955;G|0.045 0.045 strong . CHST5 47 . NM_024533 exon3 c.G111C p.L37L CTGTGCCAGGAGG . PASS Atlas-SNP ZNF554 115196 hgsc.bcm.edu 37 19 2823100 2823100 + Missense_Mutation SNP G G A rs181024964 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 71.0 34.0 60.0 0.0 0.478873 0 G|0.998;A|0.002 0.002 strong . ZNF554 47 . NM_001102651 exon2 c.G116A p.R39H TGCCCCGCTGGTC . PASS Atlas-SNP PALLD 23022 hgsc.bcm.edu 37 4 169611765 169611765 + Silent SNP C C T rs17054482 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 128.0 62.0 156.0 0.0 0.484375 0 C|0.962;T|0.038 0.038 strong . PALLD 179 . NM_001166108 exon7 c.C1347T p.N449N GCAAAACACAGCC . PASS Atlas-SNP ABCA7 10347 hgsc.bcm.edu 37 19 1058635 1058635 + Missense_Mutation SNP C C T rs73505232 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 96.0 49.0 92.0 0.0 0.510417 0 C|0.952;T|0.048 0.048 strong . ABCA7 174 . NM_019112 exon38 c.C5168T p.S1723L TCCAGTCACCCCT . PASS Atlas-SNP ANKFN1 162282 hgsc.bcm.edu 37 17 54450073 54450073 + Missense_Mutation SNP G G A rs115263675 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 76.0 35.0 63.0 0.0 0.460526 0 G|0.982;A|0.018 0.018 strong . ANKFN1 115 . NM_153228 exon6 c.G677A p.S226N GGGTGAGTGAACT . PASS Atlas-SNP MGAM 8972 hgsc.bcm.edu 37 7 141719078 141719078 + Missense_Mutation SNP A A G rs114936410 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 38.0 15.0 46.0 0.0 0.394737 0 A|0.990;G|0.010 0.010 strong . MGAM 767 . NM_004668 exon4 c.A407G p.H136R AGAATCATAGCTA . PASS Atlas-SNP LGSN 51557 hgsc.bcm.edu 37 6 64004905 64004905 + Missense_Mutation SNP T T A rs2459568 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 362.0 163.0 302.0 0.0 0.450276 0 T|0.988;A|0.012 0.012 strong . LGSN 82 . NM_016571 exon2 c.A76T p.N26Y ATGTGTTCATGCT . PASS Atlas-SNP CCDC28A 25901 hgsc.bcm.edu 37 6 139094936 139094936 + Missense_Mutation SNP C C A rs34538642 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 270.0 126.0 203.0 0.0 0.466667 0 C|0.946;A|0.054 0.054 strong . CCDC28A 34 . NM_015439 exon1 c.C125A p.S42Y GCGGGTCCCGGGA . PASS Atlas-SNP APOB 338 hgsc.bcm.edu 37 2 21258523 21258523 + Missense_Mutation SNP C C T rs61741625 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 106.0 58.0 120.0 0.0 0.54717 0 C|0.997;T|0.003 0.003 strong . APOB 761 . NM_000384 exon7 c.G751A p.A251T TCTTAGCGTCCAG . PASS Atlas-SNP MATK 4145 hgsc.bcm.edu 37 19 3789321 3789321 + Nonsense_Mutation SNP G G A rs74830030 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 122.0 68.0 113.0 0.0 0.557377 0 G|0.980;A|0.020 0.020 strong . MATK 108 . NM_002378 exon2 c.C25T p.R9X CTCTTCGTTCAGC . PASS Atlas-SNP PKN3 29941 hgsc.bcm.edu 37 9 131467782 131467782 + Silent SNP C C T rs55665019 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 15.0 11.0 10.0 0.0 0.733333 0 C|0.909;T|0.091 0.091 strong . PKN3 62 . NM_013355 exon2 c.C225T p.H75H GCTGCACGCCCGA . PASS Atlas-SNP CIRH1A 84916 hgsc.bcm.edu 37 16 69191012 69191012 + Missense_Mutation SNP G G A rs8056684 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 155.0 69.0 111.0 0.0 0.445161 0 G|0.990;A|0.010 0.010 strong . CIRH1A 48 . NM_032830 exon12 c.G1313A p.R438H TCCTTCGCTCTGC . PASS Atlas-SNP S100A3 6274 hgsc.bcm.edu 37 1 153520898 153520898 + Missense_Mutation SNP G G A rs61731550 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 51.0 28.0 58.0 0.0 0.54902 0 G|0.991;A|0.009 0.009 strong . S100A3 7 . NM_002960 exon2 c.C64T p.R22C CACAGCGCCCTGC . PASS Atlas-SNP MYH7B 57644 hgsc.bcm.edu 37 20 33568455 33568455 + Silent SNP T T C rs61746163 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 171.0 89.0 201.0 0.0 0.520468 0 T|0.994;C|0.006 0.006 strong . MYH7B 145 . NM_020884 exon8 c.T543C p.A181A AGTGGCTGCTTAC . PASS Atlas-SNP PTP4A1 7803 hgsc.bcm.edu 37 6 64289968 64289968 + Silent SNP G G T rs1618240 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 29.0 16.0 32.0 0.0 0.551724 0 G|0.980;T|0.020 0.020 strong . PTP4A1 13 . NM_003463 exon6 c.G411T p.R137R AAAGCGGCGTGGA . PASS Atlas-SNP SSPO 23145 hgsc.bcm.edu 37 7 149493519 149493519 + Nonsense_Mutation SNP C C T rs57595625 bycluster;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 139.0 73.0 135.0 0.0 0.52518 0 C|0.972;T|0.028 0.028 strong . . . . NM_198455 exon44 c.C6595T p.Q2199X ATGGTGCAGGCGA . PASS Atlas-SNP C9orf3 84909 hgsc.bcm.edu 37 9 97563076 97563076 + Missense_Mutation SNP C C T rs34557833 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 141.0 88.0 130.0 0.0 0.624114 0 C|0.995;T|0.005 0.005 strong . C9orf3 100 . NM_001193331 exon5 c.C1156T p.R386C CCCTGCCGCTTCC . PASS Atlas-SNP OGFOD3 79701 hgsc.bcm.edu 37 17 80373453 80373453 + Missense_Mutation SNP G G A rs61742456 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 54.0 32.0 35.0 0.0 0.592593 0 G|0.997;A|0.003 0.003 strong . . . . NM_175902 exon2 c.C125T p.P42L AGCCACGGCCTCT . PASS Atlas-SNP PTPRJ 5795 hgsc.bcm.edu 37 11 48149352 48149352 + Missense_Mutation SNP G G A rs2229703 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 96.0 38.0 73.0 0.0 0.395833 0 G|0.964;A|0.036 0.036 strong PTPRJ_ENST00000418331,rectum,carcinoma,-1,5 PTPRJ 225 5 NM_001098503 exon7 c.G1114A p.V372I TTTGACGTCACCG . PASS Atlas-SNP CENPE 1062 hgsc.bcm.edu 37 4 104070041 104070041 + Missense_Mutation SNP G G A rs79431579 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 185.0 92.0 203.0 0.0 0.497297 0 G|0.985;A|0.015 0.015 strong . CENPE 253 . NM_001813 exon28 c.C3803T p.T1268I TCCTGAGTATTTA . PASS Atlas-SNP ACCSL 390110 hgsc.bcm.edu 37 11 44069589 44069589 + Missense_Mutation SNP G G A rs3094398 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 70.0 30.0 51.0 0.0 0.428571 0 G|0.977;A|0.023 0.023 strong . ACCSL 57 . NM_001031854 exon1 c.G3A p.M1I GAGTATGAGTCAT . PASS Atlas-SNP CCDC116 164592 hgsc.bcm.edu 37 22 21989230 21989230 + Missense_Mutation SNP C C T rs41279987 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 62.0 27.0 56.0 0.0 0.435484 0 C|0.974;T|0.026 0.026 strong CCDC116,NS,carcinoma,-1,1 CCDC116 56 1 NM_152612 exon4 c.C878T p.P293L ACTGTCCGCTCCG . PASS Atlas-SNP CALCRL 10203 hgsc.bcm.edu 37 2 188250275 188250275 + Missense_Mutation SNP A A T rs13391909 bycluster;byfrequency;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 104.0 53.0 112.0 0.0 0.509615 0 A|0.954;T|0.046 0.046 strong . CALCRL 73 . NM_001271751 exon3 c.T48A p.F16L TACCATAAAAAAA . PASS Atlas-SNP UBR4 23352 hgsc.bcm.edu 37 1 19482788 19482788 + Missense_Mutation SNP T T C rs145733997 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 192.0 95.0 204.0 0.0 0.494792 0 T|0.999;C|0.001 0.001 strong . UBR4 415 . NM_020765 exon42 c.A6049G p.I2017V TGACAATTGCTAA . PASS Atlas-SNP ABCC11 85320 hgsc.bcm.edu 37 16 48250031 48250031 + Silent SNP T T C rs11860868 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 55.0 27.0 31.0 0.0 0.490909 0 T|0.927;C|0.073 0.073 strong . ABCC11 177 . NM_033151 exon6 c.A945G p.P315P CGCCAGTGGGAAA . PASS Atlas-SNP GRID2IP 392862 hgsc.bcm.edu 37 7 6554126 6554126 + Missense_Mutation SNP C C A rs115745154 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 51.0 27.0 31.0 0.0 0.529412 0 C|0.986;A|0.014 0.014 strong . GRID2IP 82 . NM_001145118 exon8 c.G1303T p.V435L CCAGCACAGGGTA . PASS Atlas-SNP N4BP2L2 10443 hgsc.bcm.edu 37 13 33110539 33110539 + Missense_Mutation SNP C C A rs144941975 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 100.0 40.0 121.0 0.0 0.4 0 C|0.998;A|0.002 0.002 strong . N4BP2L2 90 . NM_014887 exon2 c.G626T p.G209V TTATGACCCTCAT . PASS Atlas-SNP LRRC14 9684 hgsc.bcm.edu 37 8 145745268 145745268 + Silent SNP G G A rs116791876 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 144.0 85.0 147.0 0.0 0.590278 0 G|0.994;A|0.006 0.006 strong . LRRC14 25 . NM_001272036 exon3 c.G159A p.T53T ACACACGTGGCCC . PASS Atlas-SNP KIF23 9493 hgsc.bcm.edu 37 15 69714347 69714347 + Silent SNP T T C rs34969957 bycluster;byfrequency;by1000genomes TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 180.0 90.0 175.0 0.0 0.5 0 T|0.985;C|0.015 0.015 strong . KIF23 57 . NM_138555 exon5 c.T333C p.Y111Y TACATATGGTGTG . PASS Atlas-SNP BACE1 23621 hgsc.bcm.edu 37 11 117186285 117186285 + Missense_Mutation SNP T T C novel TCGA-G8-6324-01A-11D-2210-10 TCGA-G8-6324-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 707a995c-8926-4885-9a96-14690480f680 b7d0d7b7-70a7-40a0-818b-06ef40f7f580 87.0 4.0 151.0 0.0 0.045977 0 . . none . BACE1 33 . NM_138972 exon1 c.A227G p.Y76C TCCACGTAGTAGC . PASS Atlas-SNP