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 COSMIC_Codon COSMIC_Gene Transcript_Id Exon ChromChange AAChange Genome_Plus_Minus_10_Bp Drug_Target TTotCov TVarCov NTotCov NVarCov dbSNPPopFreq COSMIC_Gene_Freq COSMIC_Site_Freq TVarRat NVarRat dbSNP_Strength dbSNP_AF dbSNP_PopFreq Confidence Algorithm PRAMEF12 390999 hgsc.bcm.edu hg19 1 12835789 12835789 + Nonsense_Mutation SNP C C T rs201386508 bycluster;alternate_allele TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . PRAMEF12 NM_001080830 exon2 c.C391T p.R131X AAGAGACGAACAG . 126.0 49.0 137.0 0.0 . 69 . . . alt C|0.999;A|0.001 . PASS Atlas-SNP MYCL1 4610 hgsc.bcm.edu hg19 1 40366677 40366677 + Missense_Mutation SNP C C T novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . MYCL1 NM_005376 exon2 c.G520A p.A174T AGGGGGCGGCGGG . 7.0 4.0 1.0 0.0 . 36 . . . none . . PASS Atlas-SNP FOXD2 2306 hgsc.bcm.edu hg19 1 47905224 47905224 + Missense_Mutation SNP G G A novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b FOXD2,caecum,carcinoma,0,1 FOXD2 NM_004474 exon1 c.G1417A p.G473R CATCCCGGGGACG . 34.0 21.0 11.0 0.0 . 16 . . . none . . PASS Atlas-SNP PRDX6 9588 hgsc.bcm.edu hg19 1 173454563 173454563 + Missense_Mutation SNP A A G novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . PRDX6 NM_004905 exon3 c.A316G p.R106G GATGATAGGAATC . 109.0 44.0 132.0 0.0 . 20 . . . none . . PASS Atlas-SNP SIPA1L2 57568 hgsc.bcm.edu hg19 1 232600607 232600607 + Missense_Mutation SNP C C G novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . SIPA1L2 NM_020808 exon7 c.G2799C p.R933S AATTTCCCTGATG . 95.0 37.0 110.0 0.0 . 218 . . . none . . PASS Atlas-SNP SNTG2 54221 hgsc.bcm.edu hg19 2 1241762 1241762 + Silent SNP C C A novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . SNTG2 NM_018968 exon10 c.C822A p.A274A CTCAGCCAACATC . 48.0 32.0 33.0 0.0 . 125 . . . none . . PASS Atlas-SNP SNTG2 54221 hgsc.bcm.edu hg19 2 1241763 1241763 + Missense_Mutation SNP A A T novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . SNTG2 NM_018968 exon10 c.A823T p.N275Y TCAGCCAACATCA . 47.0 31.0 33.0 0.0 . 125 . . . none . . PASS Atlas-SNP AAK1 22848 hgsc.bcm.edu hg19 2 69741762 69741762 + Silent SNP T T C rs77547121 TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b AAK1_ENST00000409085,colon,carcinoma,0,2 AAK1 NM_014911 exon13 c.A1617G p.Q539Q TTGTTGTTGCTGC . 39.0 11.0 73.0 0.0 . 121 . . . weak C|1.000;|0.000 1.000 PASS Atlas-SNP IL1A 3552 hgsc.bcm.edu hg19 2 113540317 113540317 + Silent SNP G G T novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . IL1A NM_000575 exon3 c.C72A p.S24S ATCAATGGAGGAA . 124.0 25.0 111.0 0.0 . 19 . . . none . . PASS Atlas-SNP FAM168B 130074 hgsc.bcm.edu hg19 2 131812937 131812937 + Missense_Mutation SNP G G A novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . FAM168B NM_001009993 exon5 c.C383T p.P128L GTTGCAGGCATGC . 241.0 154.0 196.0 1.0 . 15 . . . none . . PASS Atlas-SNP RAPH1 65059 hgsc.bcm.edu hg19 2 204304798 204304798 + Missense_Mutation SNP C C G novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . RAPH1 NM_213589 exon14 c.G3115C p.G1039R GAACTCCAGGAAG . 92.0 27.0 56.0 0.0 . 118 . . . none . . PASS Atlas-SNP ZFAND2B 130617 hgsc.bcm.edu hg19 2 220072714 220072714 + Silent SNP C C T novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . ZFAND2B NM_138802 exon4 c.C388T p.L130L CATCCACTGGACC . 156.0 107.0 250.0 0.0 . 28 . . . none . . PASS Atlas-SNP CUL3 8452 hgsc.bcm.edu hg19 2 225422463 225422463 + Missense_Mutation SNP T T G novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . CUL3 NM_001257198 exon2 c.A195C p.R65S TGCATTTCTATAG . 36.0 24.0 47.0 0.0 . 96 . . . none . . PASS Atlas-SNP CMTM7 112616 hgsc.bcm.edu hg19 3 32433539 32433539 + Silent SNP G G C novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . CMTM7 NM_138410 exon1 c.G141C p.L47L GGCCCTGCTGAAA . 4.0 4.0 0.0 0.0 . 14 . . . none . . PASS Atlas-SNP KIT 3815 hgsc.bcm.edu hg19 4 55570036 55570036 + Silent SNP C C G novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . KIT NM_000222 exon5 c.C903G p.V301V AAATGTCACAACA . 164.0 58.0 162.0 0.0 . 7396 . . . none . . PASS Atlas-SNP ADAMTS3 9508 hgsc.bcm.edu hg19 4 73148995 73148995 + Missense_Mutation SNP C C T novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . ADAMTS3 NM_014243 exon22 c.G3476A p.S1159N GCTGAACTGAGGT . 157.0 51.0 138.0 0.0 . 164 . . . none . . PASS Atlas-SNP DMXL1 1657 hgsc.bcm.edu hg19 5 118451949 118451949 + Missense_Mutation SNP A A T novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . DMXL1 NM_005509 exon7 c.A661T p.I221F GGAGAAATTGACT . 95.0 27.0 79.0 0.0 . 268 . . . none . . PASS Atlas-SNP ARAP3 64411 hgsc.bcm.edu hg19 5 141035313 141035313 + Missense_Mutation SNP G G C novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . ARAP3 NM_022481 exon31 c.C3985G p.Q1329E CTGGCTGCTGGTC . 195.0 58.0 135.0 0.0 . 139 . . . none . . PASS Atlas-SNP ADAMTS2 9509 hgsc.bcm.edu hg19 5 178567002 178567002 + Missense_Mutation SNP G G A novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . ADAMTS2 NM_014244 exon11 c.C1664T p.P555L ATGTCAGGTGTCA . 190.0 56.0 90.0 0.0 . 190 . . . none . . PASS Atlas-SNP ZNF451 26036 hgsc.bcm.edu hg19 6 56966590 56966590 + Missense_Mutation SNP C C T novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . ZNF451 NM_001257273 exon4 c.C1376T p.A459V GGCAGGCCTGGCT . 73.0 37.0 122.0 0.0 . 181 . . . none . . PASS Atlas-SNP LAMA2 3908 hgsc.bcm.edu hg19 6 129766960 129766960 + Silent SNP C C T novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . LAMA2 NM_000426 exon45 c.C6423T p.A2141A ACAAGCCAATTCT . 45.0 19.0 54.0 0.0 . 481 . . . none . . PASS Atlas-SNP REPS1 85021 hgsc.bcm.edu hg19 6 139235873 139235873 + Silent SNP G G T novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . REPS1 NM_031922 exon15 c.C1743A p.A581A AGGATGGGCAACA . 74.0 33.0 108.0 0.0 . 58 . . . none . . PASS Atlas-SNP MEOX2 4223 hgsc.bcm.edu hg19 7 15725867 15725867 + Missense_Mutation SNP G G C novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . MEOX2 NM_005924 exon1 c.C161G p.P54R TCGTTGGGGTATC . 161.0 43.0 91.0 0.0 . 68 . . . none . . PASS Atlas-SNP HDAC9 9734 hgsc.bcm.edu hg19 7 18975517 18975517 + Silent SNP C C T novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . HDAC9 NM_178425 exon22 c.C2889T p.A963A CACAGCCATCTGT . 203.0 48.0 105.0 0.0 . 560 . . . none . . PASS Atlas-SNP FAM221A 340277 hgsc.bcm.edu hg19 7 23728992 23728992 + Missense_Mutation SNP C C G novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . . NM_199136 exon3 c.C344G p.P115R ATGTCCCCTTGAA . 124.0 34.0 84.0 0.0 . . . . . none . . PASS Atlas-SNP NEUROD6 63974 hgsc.bcm.edu hg19 7 31377935 31377935 + Silent SNP G G A novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b NEUROD6,NS,carcinoma,0,1 NEUROD6 NM_022728 exon2 c.C948T p.Y316Y TAAGTCGTAAGGG . 107.0 53.0 72.0 0.0 . 84 . . . none . . PASS Atlas-SNP SAMD9L 219285 hgsc.bcm.edu hg19 7 92764048 92764048 + Missense_Mutation SNP A A T novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . SAMD9L NM_152703 exon5 c.T1237A p.Y413N CATAGTATGAATT . 25.0 7.0 17.0 0.0 . 227 . . . none . . PASS Atlas-SNP CCDC132 55610 hgsc.bcm.edu hg19 7 92953019 92953019 + Missense_Mutation SNP A A T novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . CCDC132 NM_017667 exon21 c.A1952T p.Y651F CAATATATACCTT . 36.0 7.0 28.0 0.0 . 136 . . . none . . PASS Atlas-SNP BHLHA15 168620 hgsc.bcm.edu hg19 7 97842056 97842056 + Silent SNP G G A novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . BHLHA15 NM_177455 exon1 c.G435A p.P145P GGGGCCGGGCCCC . 155.0 7.0 37.0 0.0 . 11 . . . none . . PASS Atlas-SNP MUC17 140453 hgsc.bcm.edu hg19 7 100676808 100676808 + Missense_Mutation SNP A A G novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . MUC17 NM_001040105 exon3 c.A2111G p.E704G GTTCTGAGGCTAG . 234.0 54.0 140.0 0.0 . 804 . . . none . . PASS Atlas-SNP TRPV5 56302 hgsc.bcm.edu hg19 7 142606703 142606703 + Silent SNP G G A rs368151896 TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . TRPV5 NM_019841 exon14 c.C1848T p.S616S GATCCCGGAGCGA . 112.0 6.0 52.0 0.0 . 164 . . . weak . . PASS Atlas-SNP COL22A1 169044 hgsc.bcm.edu hg19 8 139707076 139707076 + Missense_Mutation SNP C C T novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . COL22A1 NM_152888 exon33 c.G2639A p.G880E GGTTCCCCAGGCA . 90.0 38.0 108.0 0.0 . 390 . . . none . . PASS Atlas-SNP TOP1MT 116447 hgsc.bcm.edu hg19 8 144397926 144397926 + Missense_Mutation SNP G G C novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . TOP1MT NM_052963 exon12 c.C1524G p.H508Q GGCTTTGTGCTCA . 75.0 35.0 54.0 0.0 . 63 . . . none . . PASS Atlas-SNP KCNT1 57582 hgsc.bcm.edu hg19 9 138649177 138649177 + Missense_Mutation SNP C C G novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . KCNT1 NM_020822 exon9 c.C709G p.P237A TTCATCCCCGTCT . 55.0 18.0 34.0 0.0 . 139 . . . none . . PASS Atlas-SNP GPRIN2 9721 hgsc.bcm.edu hg19 10 46999193 46999193 + Missense_Mutation SNP G G A novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . GPRIN2 NM_014696 exon3 c.G313A p.D105N GGCAGTGACCTGT . 23.0 8.0 8.0 0.0 . 94 . . . none . . PASS Atlas-SNP PNLIPRP1 5407 hgsc.bcm.edu hg19 10 118357347 118357347 + Silent SNP T T C novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . PNLIPRP1 NM_006229 exon7 c.T582C p.D194D GTTGGATCCTGTA . 149.0 57.0 141.0 0.0 . 82 . . . none . . PASS Atlas-SNP MUC2 4583 hgsc.bcm.edu hg19 11 1094686 1094686 + Missense_Mutation SNP C C T rs375767205 TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . MUC2 NM_002457 exon32 c.C5762T p.T1921M GTACCACGACCGG . 165.0 64.0 80.0 0.0 . 614 . . . weak . . PASS Atlas-SNP ABTB2 25841 hgsc.bcm.edu hg19 11 34378951 34378951 + Silent SNP G G T novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . ABTB2 NM_145804 exon1 c.C180A p.S60S GTTCATGGAGCCG . 62.0 22.0 13.0 0.0 . 101 . . . none . . PASS Atlas-SNP OR4C3 256144 hgsc.bcm.edu hg19 11 48347236 48347236 + Silent SNP C C T novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . OR4C3 NM_001004702 exon1 c.C744T p.Y248Y CCTGTACTCCTTG . 280.0 46.0 267.0 0.0 . 75 . . . none . . PASS Atlas-SNP RPS6KA4 8986 hgsc.bcm.edu hg19 11 64136019 64136019 + Missense_Mutation SNP G G A rs199674030 bycluster TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . RPS6KA4 NM_003942 exon11 c.G1280A p.R427H GTCGCCGCTGCCG . 13.0 10.0 1.0 0.0 . 85 . . . weak . . PASS Atlas-SNP FGF19 9965 hgsc.bcm.edu hg19 11 69514314 69514314 + Missense_Mutation SNP C C T rs377419016 TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . FGF19 NM_005117 exon3 c.G367A p.E123K CCTCCTCGAAAGC . 110.0 5.0 106.0 0.0 . 11 . . . weak . . PASS Atlas-SNP EXPH5 23086 hgsc.bcm.edu hg19 11 108384826 108384826 + Missense_Mutation SNP C C T novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . EXPH5 NM_015065 exon6 c.G1408A p.G470R GTTCTCCGCTTCG . 109.0 27.0 96.0 0.0 . 193 . . . none . . PASS Atlas-SNP ABCG4 64137 hgsc.bcm.edu hg19 11 119027153 119027153 + Missense_Mutation SNP G G T novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . ABCG4 NM_022169 exon7 c.G801T p.M267I TGAGATGTTTGAC . 231.0 131.0 199.0 0.0 . 77 . . . none . . PASS Atlas-SNP PIK3C2G 5288 hgsc.bcm.edu hg19 12 18435382 18435382 + Missense_Mutation SNP G G A novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . PIK3C2G NM_004570 exon2 c.G367A p.E123K AATAAAGAATGCT . 44.0 6.0 40.0 0.0 . 315 . . . none . . PASS Atlas-SNP PKP2 5318 hgsc.bcm.edu hg19 12 33031889 33031889 + Missense_Mutation SNP G G A novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . PKP2 NM_004572 exon2 c.C301T p.R101C GGGAACGGCCTCC . 72.0 4.0 70.0 0.0 . 110 . . . none . . PASS Atlas-SNP KRT86 3892 hgsc.bcm.edu hg19 12 52700004 52700004 + Missense_Mutation SNP A A G novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . KRT86 NM_002284 exon7 c.A1187G p.K396R ACTCCAAGCTGGG . 170.0 52.0 97.0 0.0 . 33 . . . none . . PASS Atlas-SNP SRGAP1 57522 hgsc.bcm.edu hg19 12 64491125 64491125 + Missense_Mutation SNP G G C novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b SRGAP1,NS,carcinoma,0,1 SRGAP1 NM_020762 exon15 c.G1783C p.E595Q CCTAAGGAAAGAT . 54.0 18.0 49.0 0.0 . 146 . . . none . . PASS Atlas-SNP CCER1 196477 hgsc.bcm.edu hg19 12 91347593 91347593 + Missense_Mutation SNP A A C rs137989103 TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . . NM_152638 exon1 c.T927G p.D309E CTCCTCATCTTCG . 101.0 9.0 97.0 0.0 . . . . . weak . . PASS Atlas-SNP TBX5 6910 hgsc.bcm.edu hg19 12 114841566 114841566 + Silent SNP G G A novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . TBX5 NM_000192 exon2 c.C138T p.F46F CTGGGTGAAGGCG . 29.0 10.0 8.0 0.0 . 188 . . . none . . PASS Atlas-SNP LRRC43 254050 hgsc.bcm.edu hg19 12 122669246 122669246 + Silent SNP T T C rs373684289 TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . LRRC43 NM_001098519 exon2 c.T331C p.L111L AGAGAATTGGCCA . 213.0 92.0 181.0 0.0 . 105 . . . weak . . PASS Atlas-SNP DNAH10 196385 hgsc.bcm.edu hg19 12 124335495 124335495 + Missense_Mutation SNP G G A novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . DNAH10 NM_207437 exon34 c.G5809A p.G1937S AACCCCGGCTACG . 94.0 51.0 28.0 0.0 . 888 . . . none . . PASS Atlas-SNP BRI3BP 140707 hgsc.bcm.edu hg19 12 125509696 125509696 + Missense_Mutation SNP G G T novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b BRI3BP,NS,carcinoma,0,1 BRI3BP NM_080626 exon3 c.G476T p.W159L TCTTCTGGATCGT . 90.0 41.0 59.0 1.0 . 18 . . . none . . PASS Atlas-SNP TBC1D4 9882 hgsc.bcm.edu hg19 13 75923415 75923415 + Silent SNP C C A novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . TBC1D4 NM_014832 exon5 c.G1299T p.L433L CTGTTTCAGAGTC . 48.0 25.0 72.0 0.0 . 142 . . . none . . PASS Atlas-SNP TEP1 7011 hgsc.bcm.edu hg19 14 20846267 20846267 + Silent SNP G G C rs201698574 by1000genomes;alternate_allele TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . TEP1 NM_007110 exon39 c.C5637G p.A1879A AGGGAAGGCAGCC . 119.0 40.0 33.0 0.0 . 224 . . . alt G|1.000;A|0.000 . PASS Atlas-SNP KCNH5 27133 hgsc.bcm.edu hg19 14 63447729 63447729 + Missense_Mutation SNP G G A novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . KCNH5 NM_172375 exon6 c.C803T p.T268M AAAGTCGTGTGAA . 94.0 40.0 121.0 0.0 . 320 . . . none . . PASS Atlas-SNP PPP1R36 145376 hgsc.bcm.edu hg19 14 65053588 65053588 + Silent SNP G G A novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . . NM_172365 exon9 c.G702A p.K234K CTGGAAGTTCTTT . 51.0 11.0 71.0 0.0 . . . . . none . . PASS Atlas-SNP ARHGAP11A 9824 hgsc.bcm.edu hg19 15 32929467 32929467 + Silent SNP T T C rs373558097 alternate_allele TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . ARHGAP11A NM_014783 exon12 c.T2493C p.L831L ACCTCTTAAGTTT . 117.0 52.0 125.0 0.0 . 84 . . . alt . . PASS Atlas-SNP ZNF770 54989 hgsc.bcm.edu hg19 15 35275620 35275620 + Missense_Mutation SNP T T A novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . ZNF770 NM_014106 exon3 c.A16T p.N6Y TTAAATTGTTTTC . 74.0 27.0 79.0 0.0 . 64 . . . none . . PASS Atlas-SNP ARMC5 79798 hgsc.bcm.edu hg19 16 31473812 31473812 + Missense_Mutation SNP G G A novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . ARMC5 NM_024742 exon3 c.G944A p.R315Q TGATTCGGCCTGC . 73.0 34.0 11.0 0.0 . 94 . . . none . . PASS Atlas-SNP TANGO6 79613 hgsc.bcm.edu hg19 16 68941414 68941414 + Missense_Mutation SNP G G T novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . . NM_024562 exon10 c.G1736T p.G579V ATCTCGGGGACTT . 147.0 46.0 86.0 0.0 . . . . . none . . PASS Atlas-SNP AP1G1 164 hgsc.bcm.edu hg19 16 71779166 71779166 + Missense_Mutation SNP T T G novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . AP1G1 NM_001030007 exon20 c.A1889C p.D630A AATAAATCATTGG . 112.0 74.0 78.0 0.0 . 83 . . . none . . PASS Atlas-SNP WDR81 124997 hgsc.bcm.edu hg19 17 1630298 1630298 + Missense_Mutation SNP C C T novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . WDR81 NM_001163809 exon1 c.C2045T p.S682F GCTCCTCCAGTCA . 45.0 31.0 87.0 0.0 . 180 . . . none . . PASS Atlas-SNP TP53 7157 hgsc.bcm.edu hg19 17 7577559 7577559 + Missense_Mutation SNP G G C rs28934573 bycluster;alternate_allele TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b TP53_ENST00000545858,NS,carcinoma,0,4 TP53 NM_000546 exon7 c.C722G p.S241C ATGCAGGAACTGT . 98.0 72.0 203.0 0.0 . 33396 . . . alt . . PASS Atlas-SNP SSH2 85464 hgsc.bcm.edu hg19 17 27958146 27958146 + Missense_Mutation SNP T T C novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . SSH2 NM_033389 exon15 c.A3985G p.T1329A CTGTTGTTGTGAG . 133.0 33.0 72.0 0.0 . 107 . . . none . . PASS Atlas-SNP NSRP1 84081 hgsc.bcm.edu hg19 17 28512533 28512533 + Silent SNP G G T novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . NSRP1 NM_032141 exon7 c.G1518T p.G506G GGAAGGGCAAGAG . 170.0 95.0 125.0 0.0 . 49 . . . none . . PASS Atlas-SNP YJEFN3 374887 hgsc.bcm.edu hg19 19 19640278 19640278 + Missense_Mutation SNP G G T novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . YJEFN3 NM_198537 exon2 c.G165T p.Q55H AAGGCAGTCATGG . 172.0 39.0 188.0 0.0 . 10 . . . none . . PASS Atlas-SNP TSHZ3 57616 hgsc.bcm.edu hg19 19 31769063 31769063 + Missense_Mutation SNP C C T novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . TSHZ3 NM_020856 exon2 c.G1636A p.G546S GATAGCCCCCCCA . 171.0 83.0 135.0 0.0 . 549 . . . none . . PASS Atlas-SNP RYR1 6261 hgsc.bcm.edu hg19 19 39019255 39019255 + Missense_Mutation SNP A A T novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . RYR1 NM_000540 exon75 c.A10954T p.M3652L TGTAACATGTTCC . 219.0 76.0 129.0 0.0 . 708 . . . none . . PASS Atlas-SNP POLD1 5424 hgsc.bcm.edu hg19 19 50918079 50918079 + Missense_Mutation SNP T T A novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . POLD1 NM_002691 exon20 c.T2396A p.F799Y TCTACTTCCCATA . 96.0 34.0 75.0 0.0 . 174 . . . none . . PASS Atlas-SNP ZNF548 147694 hgsc.bcm.edu hg19 19 57908473 57908473 + Missense_Mutation SNP C C T novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . ZNF548 NM_001172773 exon3 c.C109T p.L37F GGGCACCTTGATG . 321.0 126.0 331.0 0.0 . 64 . . . none . . PASS Atlas-SNP PAK7 57144 hgsc.bcm.edu hg19 20 9525075 9525075 + Missense_Mutation SNP C C A novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b PAK7,rectum,carcinoma,+2,1 PAK7 NM_177990 exon8 c.G1810T p.V604F TGCCAACCAATGA . 99.0 32.0 141.0 0.0 . 194 . . . none . . PASS Atlas-SNP KIAA1755 85449 hgsc.bcm.edu hg19 20 36869309 36869309 + Missense_Mutation SNP C C A novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . KIAA1755 NM_001029864 exon3 c.G1224T p.E408D CATATTCTCTGGG . 53.0 23.0 70.0 0.0 . 145 . . . none . . PASS Atlas-SNP SGK2 10110 hgsc.bcm.edu hg19 20 42199308 42199308 + Missense_Mutation SNP T T C novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . SGK2 NM_016276 exon6 c.T592C p.F198L GCCAGGTTCTACG . 67.0 15.0 45.0 0.0 . 50 . . . none . . PASS Atlas-SNP SEMG1 6406 hgsc.bcm.edu hg19 20 43836817 43836817 + Silent SNP A A G rs17850164 TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b SEMG1,NS,carcinoma,0,2 SEMG1 NM_003007 exon2 c.A879G p.T293T AAGTACAGAAGAA . 148.0 7.0 154.0 1.0 . 71 . . . weak . . PASS Atlas-SNP SREBF2 6721 hgsc.bcm.edu hg19 22 42289163 42289163 + Missense_Mutation SNP C C A novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . SREBF2 NM_004599 exon12 c.C2251A p.H751N CCCGAGCACAGTG . 78.0 41.0 72.0 0.0 . 99 . . . none . . PASS Atlas-SNP ND1 10625 hgsc.bcm.edu hg19 MT 3850 3850 + Missense_Mutation SNP G G A novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . . ENST00000361390 exon1 c.G544A p.A182T CCCTTGGCCATAA . 22.0 4.0 10.0 0.0 . . . . . none . . PASS Atlas-SNP ND4 0 hgsc.bcm.edu hg19 MT 11556 11556 + Missense_Mutation SNP T T C novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . . ENST00000361381 exon1 c.T797C p.L266P TATCCCTATGAGG . 14.0 10.0 8.0 0.0 . . . . . none . . PASS Atlas-SNP SAMD14 201191 hgsc.bcm.edu hg19 17 48191564 48191565 + Frame_Shift_Del DEL TG TG - novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 TG TG . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . SAMD14 NM_174920 exon9 c.1013_1014del p.338_338del . . 219.0 58.0 147.0 0.0 . 36 . 0.26484 0 none . . PASS Atlas-Indel,Pindel PRTG 283659 hgsc.bcm.edu hg19 15 55931988 55931989 + In_Frame_Ins INS - - GGTGGT novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . PRTG NM_173814 exon13 c.2176_2177insACCACC p.H726delinsTTH . . 138.0 18.0 170.0 0.0 . 110 . 0.130435 0 none . . PASS Atlas-INDEL RTL1 388015 hgsc.bcm.edu hg19 14 101350131 101350136 + In_Frame_Del DEL TCGTTG TCGTTG - novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 TCGTTG TCGTTG . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . RTL1 NM_001134888 exon1 c.991_996del p.331_332del . . 46.0 14.0 51.0 0.0 . 120 . 0.304348 0 none . . PASS Atlas-INDEL MRGPRX3 117195 hgsc.bcm.edu hg19 11 18159591 18159591 + Frame_Shift_Del DEL G G - novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b MRGPRX3,mouth,carcinoma,0,1 MRGPRX3 NM_054031 exon3 c.841delC p.R281fs . . 65.0 26.0 82.0 0.0 . 59 . 0.4 0 none . . PASS Atlas-Indel,Pindel PRTG 283659 hgsc.bcm.edu hg19 15 55931987 55931988 + Frame_Shift_Ins INS - - C novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . PRTG NM_173814 exon13 c.2177_2178insG p.H726fs . . 138.0 18.0 170.0 0.0 . 110 . 0.130435 0 none . . PASS Atlas-INDEL TPM4 7171 hgsc.bcm.edu hg19 19 16199862 16199862 + Frame_Shift_Del DEL G G - novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . TPM4 NM_001145160 exon6 c.570delT p.C190fs . . 80.0 32.0 101.0 0.0 . 28 . 0.4 0 none . . PASS Atlas-Indel,Pindel C1orf51 148523 hgsc.bcm.edu hg19 1 150256865 150256882 + In_Frame_Del DEL ATGGACAGGATCCAGCGT ATGGACAGGATCCAGCGT - novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 ATGGACAGGATCCAGCGT ATGGACAGGATCCAGCGT . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . C1orf51 NM_144697 exon3 c.471_488del p.157_163del . . 171.0 27.0 262.0 0.0 . 35 . 0.157895 0 none . . PASS Atlas-Indel,Pindel COL21A1 81578 hgsc.bcm.edu hg19 6 55925556 55925557 + Frame_Shift_Ins INS - - A novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . COL21A1 NM_030820 exon27 c.2390_2391insT p.C797fs . . 47.0 14.0 69.0 0.0 . 201 . 0.297872 0 none . . PASS Atlas-Indel,Pindel RTL1 388015 hgsc.bcm.edu hg19 14 101350138 101350138 + Frame_Shift_Del DEL G G - novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . RTL1 NM_001134888 exon1 c.989delT p.L330fs . . 45.0 14.0 48.0 0.0 . 120 . 0.311111 0 none . . PASS Atlas-INDEL PRUNE 58497 hgsc.bcm.edu hg19 1 151001408 151001408 + Frame_Shift_Del DEL A A - novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . PRUNE NM_021222 exon7 c.920delC p.A307fs . . 114.0 43.0 143.0 0.0 . 40 . 0.377193 0 none . . PASS Atlas-Indel,Pindel CCER1 196477 hgsc.bcm.edu hg19 12 91347581 91347582 + In_Frame_Ins INS - - TCT rs376547014 TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . . NM_152638 exon1 c.939_940insAGA p.E313delinsEE . . 83.0 12.0 84.0 0.0 . . . 0.144578 0 weak . . PASS Atlas-INDEL RIN3 79890 hgsc.bcm.edu hg19 14 93117951 93117952 + Frame_Shift_Ins INS - - T novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . RIN3 NM_024832 exon6 c.557_558insT p.P186fs . . 39.0 24.0 47.0 0.0 . 81 . 0.615385 0 none . . PASS Atlas-Indel,Pindel PCDH12 51294 hgsc.bcm.edu hg19 5 141334867 141334868 + Frame_Shift_Ins INS - - A novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b PCDH12,bladder,carcinoma,0,1 PCDH12 NM_016580 exon1 c.2550_2551insT p.F850fs . . 158.0 47.0 68.0 0.0 . 133 . 0.297 . none . . PASS Pindel RTL1 388015 hgsc.bcm.edu hg19 14 101350131 101350138 + Frame_Shift_Del DEL TCGTTGAG TCGTTGAG - novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 TCGTTGAG TCGTTGAG . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . RTL1 NM_001134888 exon1 c.989_996del p.330_332del . . 49.0 14.0 50.0 0.0 . 120 . 0.286 . none . . PASS Pindel PRTG 283659 hgsc.bcm.edu hg19 15 55931991 55931992 + Frame_Shift_Ins INS - - TGGTGGG novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . PRTG NM_173814 exon13 c.2173_2174insCCCACCA p.P725fs . . 132.0 20.0 168.0 0.0 . 110 . 0.152 . none . . PASS Pindel KIF1A 547 hgsc.bcm.edu hg19 2 241658528 241658528 + Frame_Shift_Del DEL G G - novel TCGA-A4-A57E-01A-11D-A26P-10 TCGA-A4-A57E-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 2deb8f9a-9e0a-46d1-bcb5-902db3b5c8ac c57ad711-a7d0-472f-adf1-7ab186da971b . KIF1A NM_001244008 exon47 c.5110delT p.Y1704fs . . 289.0 95.0 79.0 0.0 . 152 . 0.329 . none . . PASS Pindel