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 TMEM52 339456 hgsc.bcm.edu hg19 1 1849559 1849559 + Missense_Mutation SNP A A G novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . TMEM52 NM_178545 exon5 c.T392C p.L131P AAGGGCAGGGGCA . 78.0 39.0 90.0 0.0 . 21 . . . none . . PASS Atlas-SNP EPHA8 2046 hgsc.bcm.edu hg19 1 22903066 22903066 + Silent SNP T T C novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . EPHA8 NM_020526 exon3 c.T516C p.S172S GCGCAGTGTGGGT . 69.0 35.0 99.0 0.0 . 221 . . . none . . PASS Atlas-SNP PEX11B 8799 hgsc.bcm.edu hg19 1 145522603 145522603 + Missense_Mutation SNP G G A novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . PEX11B NM_003846 exon4 c.G464A p.R155Q GTAGCCGGCGACT . 85.0 26.0 103.0 0.0 . 26 . . . none . . PASS Atlas-SNP LYST 1130 hgsc.bcm.edu hg19 1 235904811 235904811 + Missense_Mutation SNP C C T novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . LYST NM_000081 exon31 c.G8269A p.A2757T GTGCAGCGTGGGC . 170.0 57.0 220.0 0.0 . 370 . . . none . . PASS Atlas-SNP OR2M4 26245 hgsc.bcm.edu hg19 1 248402822 248402822 + Missense_Mutation SNP C C G novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . OR2M4 NM_017504 exon1 c.C592G p.L198V GAAAGACTACTTG . 295.0 18.0 312.0 0.0 . 111 . . . none . . PASS Atlas-SNP PXDN 7837 hgsc.bcm.edu hg19 2 1687921 1687921 + Missense_Mutation SNP T T C novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . PXDN NM_012293 exon5 c.A419G p.Y140C TGCAGGTATCTAG . 43.0 22.0 43.0 0.0 . 255 . . . none . . PASS Atlas-SNP PUM2 23369 hgsc.bcm.edu hg19 2 20483190 20483190 + Missense_Mutation SNP C C T novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . PUM2 NM_015317 exon10 c.G1349A p.G450D CCAGGGCCAACCA . 114.0 10.0 149.0 0.0 . 91 . . . none . . PASS Atlas-SNP CLIP4 79745 hgsc.bcm.edu hg19 2 29404714 29404714 + Silent SNP C C A novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . CLIP4 NM_024692 exon16 c.C2073A p.T691T AGTGACCTATCGG . 106.0 47.0 124.0 0.0 . 69 . . . none . . PASS Atlas-SNP BIRC6 57448 hgsc.bcm.edu hg19 2 32640306 32640306 + Missense_Mutation SNP G G T novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 BIRC6_ENST00000421745,NS,carcinoma,0,2 BIRC6 NM_016252 exon10 c.G1947T p.M649I ACAGATGAACAAT . 101.0 54.0 105.0 0.0 . 838 . . . none . . PASS Atlas-SNP GCFC2 6936 hgsc.bcm.edu hg19 2 75907421 75907421 + Missense_Mutation SNP C C A novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . . NM_003203 exon12 c.G1710T p.W570C AGGATCCCAAAGG . 109.0 52.0 124.0 0.0 . . . . . none . . PASS Atlas-SNP CCDC141 285025 hgsc.bcm.edu hg19 2 179720165 179720165 + Nonsense_Mutation SNP A A T novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . CCDC141 NM_173648 exon19 c.T2969A p.L990X TTTTGCAAATCCT . 325.0 144.0 384.0 0.0 . 362 . . . none . . PASS Atlas-SNP ABI2 10152 hgsc.bcm.edu hg19 2 204267454 204267454 + Missense_Mutation SNP C C G novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . ABI2 NM_005759 exon7 c.C988G p.P330A CAGAATCCAGGTT . 145.0 9.0 148.0 0.0 . 44 . . . none . . PASS Atlas-SNP ATP2B2 491 hgsc.bcm.edu hg19 3 10400378 10400378 + Silent SNP T T C novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . ATP2B2 NM_001001331 exon14 c.A2133G p.P711P TACCTCTGGCCGC . 66.0 30.0 61.0 0.0 . 304 . . . none . . PASS Atlas-SNP LRRC58 116064 hgsc.bcm.edu hg19 3 120050190 120050190 + Missense_Mutation SNP G G A novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . LRRC58 NM_001099678 exon4 c.C973T p.P325S TCAGTGGGAGGCG . 237.0 119.0 276.0 0.0 . 18 . . . none . . PASS Atlas-SNP GOLGB1 2804 hgsc.bcm.edu hg19 3 121435943 121435943 + Missense_Mutation SNP G G T novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . GOLGB1 NM_001256486 exon9 c.C929A p.T310N CTCAAAGTATTAT . 150.0 62.0 156.0 0.0 . 319 . . . none . . PASS Atlas-SNP PDIA5 10954 hgsc.bcm.edu hg19 3 122880182 122880182 + Silent SNP T T C novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . PDIA5 NM_006810 exon16 c.T1359C p.A453A TGCCGCTGTTGAC . 45.0 32.0 54.0 0.0 . 66 . . . none . . PASS Atlas-SNP PLOD2 5352 hgsc.bcm.edu hg19 3 145824360 145824360 + Missense_Mutation SNP G G T novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . PLOD2 NM_182943 exon5 c.C574A p.Q192K AGAGCTGATCATC . 89.0 35.0 134.0 0.0 . 81 . . . none . . PASS Atlas-SNP PLOD2 5352 hgsc.bcm.edu hg19 3 145824369 145824369 + Missense_Mutation SNP C C T novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . PLOD2 NM_182943 exon5 c.G565A p.D189N CATCATCATTATC . 92.0 36.0 140.0 0.0 . 81 . . . none . . PASS Atlas-SNP GFM1 85476 hgsc.bcm.edu hg19 3 158362456 158362456 + Silent SNP T T G novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . GFM1 NM_024996 exon1 c.T33G p.A11A CGCGGCTCTGGGG . 140.0 68.0 153.0 0.0 . 83 . . . none . . PASS Atlas-SNP ATP8A1 10396 hgsc.bcm.edu hg19 4 42457327 42457327 + Missense_Mutation SNP T T A novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . ATP8A1 NM_006095 exon29 c.A2804T p.D935V TTGAAGTCCAGGG . 140.0 67.0 182.0 0.0 . 206 . . . none . . PASS Atlas-SNP UGT2A1 10941 hgsc.bcm.edu hg19 4 70512663 70512663 + Missense_Mutation SNP A A T novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . UGT2A1 NM_001252274 exon2 c.T700A p.Y234N TACTATAGTATGA . 76.0 28.0 75.0 0.0 . 131 . . . none . . PASS Atlas-SNP PCDH10 57575 hgsc.bcm.edu hg19 4 134072787 134072787 + Missense_Mutation SNP C C G novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . PCDH10 NM_032961 exon1 c.C1492G p.L498V GCCCAGCTTGCCT . 71.0 25.0 125.0 0.0 . 290 . . . none . . PASS Atlas-SNP MAML3 55534 hgsc.bcm.edu hg19 4 140640884 140640884 + Missense_Mutation SNP G G C novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . MAML3 NM_018717 exon6 c.C2998G p.Q1000E GTCCCTGTGGGAA . 45.0 19.0 77.0 0.0 . 192 . . . none . . PASS Atlas-SNP SRPK1 6732 hgsc.bcm.edu hg19 6 35803124 35803124 + Missense_Mutation SNP G G A novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . SRPK1 NM_003137 exon16 c.C1925T p.A642V GCAGTGGCTCTCT . 25.0 23.0 93.0 0.0 . 61 . . . none . . PASS Atlas-SNP SRPK1 6732 hgsc.bcm.edu hg19 6 35803125 35803125 + Missense_Mutation SNP C C T novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . SRPK1 NM_003137 exon16 c.G1924A p.A642T CAGTGGCTCTCTT . 25.0 23.0 94.0 0.0 . 61 . . . none . . PASS Atlas-SNP PKHD1 5314 hgsc.bcm.edu hg19 6 51913390 51913390 + Missense_Mutation SNP C C G novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 PKHD1_ENST00000340994,NS,carcinoma,0,2 PKHD1 NM_170724 exon23 c.G2307C p.E769D AGATCCCTCTTCT . 34.0 26.0 70.0 0.0 . 927 . . . none . . PASS Atlas-SNP CD164 8763 hgsc.bcm.edu hg19 6 109699166 109699166 + Missense_Mutation SNP A A T novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . CD164 NM_006016 exon3 c.T268A p.Y90N AACAATAGCTCTC . 17.0 12.0 34.0 0.0 . 10 . . . none . . PASS Atlas-SNP ABCA13 154664 hgsc.bcm.edu hg19 7 48431545 48431545 + Silent SNP C C T rs189672968 bycluster;by1000genomes;alternate_allele TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . ABCA13 NM_152701 exon38 c.C11682T p.P3894P CCCTCCCACTTCT . 88.0 8.0 123.0 0.0 . 1192 . . . alt C|0.999;G|0.001 . PASS Atlas-SNP MCPH1 79648 hgsc.bcm.edu hg19 8 6266814 6266814 + Missense_Mutation SNP G G A novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . MCPH1 NM_001172575 exon2 c.G37A p.V13I GCCTATGTTGAAG . 199.0 81.0 251.0 0.0 . 65 . . . none . . PASS Atlas-SNP WWP1 11059 hgsc.bcm.edu hg19 8 87410646 87410646 + Missense_Mutation SNP T T C novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . WWP1 NM_007013 exon6 c.T410C p.V137A TGACAGTTGTGCT . 204.0 109.0 234.0 0.0 . 97 . . . none . . PASS Atlas-SNP PARP10 84875 hgsc.bcm.edu hg19 8 145057194 145057194 + Missense_Mutation SNP T T A novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . PARP10 NM_032789 exon9 c.A2462T p.E821V AGACGCTCCAGGT . 27.0 11.0 36.0 0.0 . 57 . . . none . . PASS Atlas-SNP DAPK1 1612 hgsc.bcm.edu hg19 9 90312114 90312114 + Missense_Mutation SNP C C G novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . DAPK1 NM_004938 exon22 c.C2606G p.P869R AAGAACCCATAGG . 180.0 85.0 234.0 0.0 . 329 . . . none . . PASS Atlas-SNP LMX1B 4010 hgsc.bcm.edu hg19 9 129456044 129456044 + Missense_Mutation SNP G G C novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . LMX1B NM_001174146 exon6 c.G839C p.R280P CGCGGCGGCACCA . 21.0 13.0 16.0 0.0 . 86 . . . none . . PASS Atlas-SNP SEC16A 9919 hgsc.bcm.edu hg19 9 139360854 139360854 + Silent SNP A A G novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . SEC16A NM_014866 exon7 c.T3990C p.D1330D GGGGTCATCGTCA . 73.0 28.0 79.0 0.0 . 249 . . . none . . PASS Atlas-SNP ZMYND19 116225 hgsc.bcm.edu hg19 9 140477471 140477471 + Missense_Mutation SNP C C A novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . ZMYND19 NM_138462 exon5 c.G504T p.E168D GTGGCACTCATAG . 43.0 19.0 81.0 0.0 . 16 . . . none . . PASS Atlas-SNP FRMD4A 55691 hgsc.bcm.edu hg19 10 13803654 13803654 + Missense_Mutation SNP A A T novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . FRMD4A NM_018027 exon8 c.T457A p.F153I TAGAAAAATCTCC . 144.0 65.0 194.0 0.0 . 108 . . . none . . PASS Atlas-SNP KIAA1279 26128 hgsc.bcm.edu hg19 10 70748678 70748678 + Missense_Mutation SNP G G C novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . KIAA1279 NM_015634 exon1 c.G90C p.K30N GGAGAAGGAACCA . 158.0 70.0 164.0 0.0 . 35 . . . none . . PASS Atlas-SNP TEX36 387718 hgsc.bcm.edu hg19 10 127371554 127371554 + Missense_Mutation SNP G G T novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . . NM_001128202 exon1 c.C5A p.T2N CCTTTGGTCATTC . 124.0 49.0 150.0 0.0 . . . . . none . . PASS Atlas-SNP ZBED5 58486 hgsc.bcm.edu hg19 11 10875463 10875463 + Missense_Mutation SNP C C A novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . ZBED5 NM_021211 exon3 c.G1030T p.D344Y AAGCATCACTACA . 104.0 38.0 119.0 0.0 . 50 . . . none . . PASS Atlas-SNP OR4C13 283092 hgsc.bcm.edu hg19 11 49974862 49974862 + Silent SNP T T C novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . OR4C13 NM_001001955 exon1 c.T888C p.I296I TGCCATTAGGAAA . 27.0 12.0 43.0 0.0 . 96 . . . none . . PASS Atlas-SNP CASP4 837 hgsc.bcm.edu hg19 11 104819264 104819264 + Silent SNP C C T novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 CASP4,NS,carcinoma,0,2 CASP4 NM_001225 exon6 c.G921A p.T307T ACGTGGCGTTGAA . 62.0 23.0 77.0 0.0 . 57 . . . none . . PASS Atlas-SNP C11orf93 120376 hgsc.bcm.edu hg19 11 111179041 111179041 + Missense_Mutation SNP A A G novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . C11orf93 NM_001271458 exon5 c.A635G p.D212G ACTTGGATGCTCT . 51.0 25.0 53.0 0.0 . 10 . . . none . . PASS Atlas-SNP NCAPD3 23310 hgsc.bcm.edu hg19 11 134023240 134023240 + Missense_Mutation SNP G G A novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . NCAPD3 NM_015261 exon33 c.C4271T p.T1424M CCAAACGTGACAT . 83.0 35.0 126.0 0.0 . 141 . . . none . . PASS Atlas-SNP BCDIN3D 144233 hgsc.bcm.edu hg19 12 50232203 50232203 + Missense_Mutation SNP A A T novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . BCDIN3D NM_181708 exon2 c.T830A p.L277Q TCTATCAGTGATT . 22.0 7.0 24.0 0.0 . 20 . . . none . . PASS Atlas-SNP NABP2 79035 hgsc.bcm.edu hg19 12 56619250 56619250 + Missense_Mutation SNP T T C novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . . NM_024068 exon3 c.T173C p.V58A ACGATGTTGGCAA . 83.0 40.0 137.0 0.0 . . . . . none . . PASS Atlas-SNP KIF5A 3798 hgsc.bcm.edu hg19 12 57963875 57963875 + Missense_Mutation SNP G G A novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . KIF5A NM_004984 exon12 c.G1223A p.R408H TGGTGCGCATCGC . 47.0 21.0 65.0 0.0 . 143 . . . none . . PASS Atlas-SNP FICD 11153 hgsc.bcm.edu hg19 12 108913231 108913231 + Missense_Mutation SNP G G C novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . FICD NM_007076 exon3 c.G1356C p.E452D CAAGGAGACGCTT . 34.0 11.0 42.0 0.0 . 35 . . . none . . PASS Atlas-SNP CHAMP1 283489 hgsc.bcm.edu hg19 13 115091586 115091586 + Missense_Mutation SNP G G A novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . . NM_001164144 exon3 c.G2269A p.V757I AATCATGTAGCAG . 97.0 45.0 139.0 0.0 . . . . . none . . PASS Atlas-SNP NRDE2 55051 hgsc.bcm.edu hg19 14 90755068 90755068 + Missense_Mutation SNP T T C novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . . NM_017970 exon11 c.A2651G p.D884G AAACAGTCCTGCA . 78.0 42.0 61.0 0.0 . . . . . none . . PASS Atlas-SNP MAPK6 5597 hgsc.bcm.edu hg19 15 52357196 52357196 + Missense_Mutation SNP A A T novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . MAPK6 NM_002748 exon6 c.A2165T p.X722L TGAACTAAAACAC . 112.0 44.0 131.0 0.0 . 70 . . . none . . PASS Atlas-SNP MPG 4350 hgsc.bcm.edu hg19 16 135675 135675 + Missense_Mutation SNP C C A novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . MPG NM_002434 exon5 c.C796A p.H266N GTCGGCCATGCAG . 95.0 58.0 91.0 0.0 . 26 . . . none . . PASS Atlas-SNP CRAMP1L 57585 hgsc.bcm.edu hg19 16 1717963 1717963 + Missense_Mutation SNP G G A novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . CRAMP1L NM_020825 exon17 c.G3103A p.G1035S CAGCAGGGCTCAT . 122.0 65.0 103.0 0.0 . 60 . . . none . . PASS Atlas-SNP ANKFY1 51479 hgsc.bcm.edu hg19 17 4087143 4087143 + Nonsense_Mutation SNP G G A novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . ANKFY1 NM_001257999 exon13 c.C1888T p.R630X GGTCTCGGGAATC . 35.0 9.0 68.0 0.0 . 81 . . . none . . PASS Atlas-SNP MYO18A 399687 hgsc.bcm.edu hg19 17 27441098 27441098 + Silent SNP C C A novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . MYO18A NM_078471 exon15 c.G2529T p.A843A GTCAAACGCCAGC . 24.0 6.0 23.0 0.0 . 217 . . . none . . PASS Atlas-SNP TMEM106A 113277 hgsc.bcm.edu hg19 17 41365867 41365867 + Missense_Mutation SNP G G T novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . TMEM106A NM_145041 exon4 c.G232T p.A78S TTGGTGGCTCTCA . 22.0 9.0 50.0 0.0 . 20 . . . none . . PASS Atlas-SNP MED13 9969 hgsc.bcm.edu hg19 17 60038289 60038289 + Missense_Mutation SNP A A T novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . MED13 NM_005121 exon23 c.T5419A p.C1807S CTGTGCAAGATGC . 180.0 106.0 166.0 0.0 . 181 . . . none . . PASS Atlas-SNP PSMC5 5705 hgsc.bcm.edu hg19 17 61909160 61909160 + Missense_Mutation SNP C C T novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . PSMC5 NM_002805 exon11 c.C1157T p.A386V AGATGGCAGTAGC . 142.0 46.0 118.0 0.0 . 41 . . . none . . PASS Atlas-SNP PPAN 56342 hgsc.bcm.edu hg19 19 10218531 10218531 + Splice_Site SNP G G C novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . PPAN NM_020230 exon4 c.342+1G>C . AAGAAGGTGAGAG . 57.0 25.0 43.0 0.0 . 43 . . . none . . PASS Atlas-SNP COX7A1 1346 hgsc.bcm.edu hg19 19 36641914 36641914 + Silent SNP G G A novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . COX7A1 NM_001864 exon4 c.C210T p.S70S GCCAAGGGAGTAC . 74.0 35.0 109.0 0.0 . 9 . . . none . . PASS Atlas-SNP FIZ1 84922 hgsc.bcm.edu hg19 19 56109104 56109104 + Missense_Mutation SNP G G T novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 FIZ1,NS,carcinoma,0,1 FIZ1 NM_032836 exon2 c.C128A p.A43D TGCCGGGCAAAGT . 77.0 33.0 109.0 0.0 . 29 . . . none . . PASS Atlas-SNP SNRPB2 6629 hgsc.bcm.edu hg19 20 16719517 16719517 + Silent SNP T T C novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . SNRPB2 NM_003092 exon5 c.T399C p.N133N AGCTAATACCCAA . 210.0 131.0 166.0 0.0 . 12 . . . none . . PASS Atlas-SNP SYS1 90196 hgsc.bcm.edu hg19 20 43995569 43995569 + Silent SNP T T A novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . SYS1 NM_001197129 exon5 c.T285A p.T95T TTTCACTGTCACT . 145.0 47.0 135.0 0.0 . 15 . . . none . . PASS Atlas-SNP CDH22 64405 hgsc.bcm.edu hg19 20 44806794 44806794 + Missense_Mutation SNP C C A novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . CDH22 NM_021248 exon11 c.G1706T p.R569L TCCTGCCGGTTGA . 69.0 37.0 74.0 0.0 . 112 . . . none . . PASS Atlas-SNP MYT1 4661 hgsc.bcm.edu hg19 20 62843457 62843457 + Missense_Mutation SNP G G A novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . MYT1 NM_004535 exon9 c.G1483A p.G495S GGCCAGGGTCACG . 29.0 21.0 25.0 0.0 . 152 . . . none . . PASS Atlas-SNP TIAM1 7074 hgsc.bcm.edu hg19 21 32638851 32638851 + Silent SNP G G A novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . TIAM1 NM_003253 exon5 c.C438T p.G146G CCTCCTGCCTCCC . 62.0 30.0 52.0 0.0 . 522 . . . none . . PASS Atlas-SNP URB1 9875 hgsc.bcm.edu hg19 21 33687358 33687358 + Silent SNP A A G novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . URB1 NM_014825 exon39 c.T6687C p.A2229A CCGCTGAGCCCCC . 88.0 41.0 110.0 0.0 . 176 . . . none . . PASS Atlas-SNP RANBP1 5902 hgsc.bcm.edu hg19 22 20109843 20109843 + Missense_Mutation SNP G G A novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . RANBP1 NM_002882 exon3 c.G209A p.R70Q AGGAGCGAGGCAC . 62.0 10.0 101.0 0.0 . 19 . . . none . . PASS Atlas-SNP IGLL1 3543 hgsc.bcm.edu hg19 22 23922377 23922377 + Missense_Mutation SNP T T C novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . IGLL1 NM_020070 exon1 c.A1G p.M1V GCCTCATCGGCCC . 40.0 36.0 57.0 0.0 . 27 . . . none . . PASS Atlas-SNP SGSM3 27352 hgsc.bcm.edu hg19 22 40803843 40803843 + Silent SNP G G A novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . SGSM3 NM_015705 exon14 c.G1575A p.L525L CGGCCTGCGAGGT . 44.0 41.0 81.0 0.0 . 48 . . . none . . PASS Atlas-SNP GPR173 54328 hgsc.bcm.edu hg19 X 53106377 53106377 + Missense_Mutation SNP A A C novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . GPR173 NM_018969 exon2 c.A574C p.M192L ATGCTTATGTTGG . 31.0 31.0 46.0 0.0 . 66 . . . none . . PASS Atlas-SNP PAK3 5063 hgsc.bcm.edu hg19 X 110385396 110385396 + Missense_Mutation SNP G G A novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . PAK3 NM_001128166 exon4 c.G248A p.G83E ATGTGGGGTTTGA . 51.0 48.0 78.0 0.0 . 179 . . . none . . PASS Atlas-SNP CYTB 0 hgsc.bcm.edu hg19 MT 14804 14804 + Missense_Mutation SNP G G C novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . . ENST00000361789 exon1 c.G58C p.D20H TTCATCGACCTCC . 11.0 10.0 50.0 0.0 . . . . . none . . PASS Atlas-SNP ABHD3 171586 hgsc.bcm.edu hg19 18 19283591 19283591 + Frame_Shift_Del DEL G G - novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . ABHD3 NM_138340 exon2 c.281delT p.L94fs . . 59.0 20.0 73.0 0.0 . 32 . 0.338983 0 none . . PASS Atlas-Indel,Pindel WDR35 57539 hgsc.bcm.edu hg19 2 20113904 20113904 + Frame_Shift_Del DEL G G - novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . WDR35 NM_001006657 exon27 c.3290delT p.L1097fs . . 230.0 95.0 256.0 0.0 . 92 . 0.413043 0 none . . PASS Atlas-Indel,Pindel NF2 4771 hgsc.bcm.edu hg19 22 30050649 30050649 + Frame_Shift_Del DEL G G - novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . NF2 NM_181832 exon5 c.450delT p.Y150X . . 105.0 98.0 156.0 0.0 . 1312 . 0.933333 0 none . . PASS Atlas-Indel,Pindel MIOS 54468 hgsc.bcm.edu hg19 7 7612994 7612994 + Frame_Shift_Del DEL T T - novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . MIOS NM_019005 exon4 c.887delA p.Y296fs . . 103.0 41.0 104.0 0.0 . 68 . 0.398058 0 none . . PASS Atlas-Indel,Pindel TRIM65 201292 hgsc.bcm.edu hg19 17 73887900 73887901 + Frame_Shift_Del DEL AG AG - rs372788583 TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 AG AG . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . TRIM65 NM_173547 exon5 c.979_980del p.327_327del . . 68.0 41.0 72.0 0.0 . 23 . 0.602941 0 weak . . PASS Atlas-Indel,Pindel WDR81 124997 hgsc.bcm.edu hg19 17 1634163 1634164 + Frame_Shift_Ins INS - - A novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . WDR81 NM_001163809 exon3 c.3890_3891insA p.S1297fs . . 34.0 16.0 53.0 0.0 . 180 . 0.470588 0 none . . PASS Atlas-INDEL SGSM2 9905 hgsc.bcm.edu hg19 17 2282478 2282480 + In_Frame_Del DEL CAT CAT - novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 CAT CAT . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . SGSM2 NM_014853 exon23 c.3047_3049del p.1016_1017del . . 93.0 32.0 124.0 0.0 . 60 . 0.344086 0 none . . PASS Atlas-Indel,Pindel RPGRIP1L 23322 hgsc.bcm.edu hg19 16 53674983 53674984 + Frame_Shift_Ins INS - - A novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . RPGRIP1L NM_001127897 exon19 c.2920_2921insT p.K974_V975delinsX . . 152.0 92.0 130.0 0.0 . 118 . 0.605263 0 none . . PASS Atlas-Indel,Pindel NXPH4 11247 hgsc.bcm.edu hg19 12 57619136 57619140 + Frame_Shift_Del DEL CTACG CTACG - novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 CTACG CTACG . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . NXPH4 NM_007224 exon2 c.532_536del p.178_179del . . 25.0 14.0 51.0 0.0 . 40 . 0.56 0 none . . PASS Atlas-INDEL CLEC1A 51267 hgsc.bcm.edu hg19 12 10251473 10251480 + Frame_Shift_Del DEL CCCCATCA CCCCATCA - novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 CCCCATCA CCCCATCA . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . CLEC1A NM_016511 exon1 c.43_50del p.15_17del . . 100.0 34.0 175.0 0.0 . 48 . 0.34 0 none . . PASS Atlas-Indel,Pindel DET1 55070 hgsc.bcm.edu hg19 15 89074206 89074214 + In_Frame_Del DEL ACCTGGAAG ACCTGGAAG - novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 ACCTGGAAG ACCTGGAAG . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . DET1 NM_017996 exon3 c.757_765del p.253_255del . . 54.0 11.0 105.0 0.0 . 55 . 0.203704 0 none . . PASS Atlas-Indel,Pindel CDCP2 200008 hgsc.bcm.edu hg19 1 54605763 54605763 + Frame_Shift_Del DEL T T - novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . CDCP2 NM_201546 exon4 c.781delT p.Y261fs . . 61.0 34.0 85.0 0.0 . 52 . 0.557377 0 none . . PASS Atlas-Indel,Pindel NEFH 4744 hgsc.bcm.edu hg19 22 29885585 29885586 + In_Frame_Ins INS - - AAGTCCCCTGAGAAGGCC novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 .,1 NEFH NM_021076 exon4 c.1956_1957insAAGTCCCCTGAGAAGGCC p.A652delinsAKSPEKA . . 38.0 19.0 43.0 0.0 . 178 . 0.5 0 none . . PASS Atlas-INDEL MTMR14 64419 hgsc.bcm.edu hg19 3 9730673 9730673 + Frame_Shift_Del DEL C C - novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . MTMR14 NM_001077525 exon16 c.1339delT p.S447fs . . 21.0 11.0 39.0 0.0 . 43 . 0.52381 0 none . . PASS Atlas-INDEL PPM1G 5496 hgsc.bcm.edu hg19 2 27604506 27604506 + Frame_Shift_Del DEL T T - novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . PPM1G NM_177983 exon10 c.1602delT p.N534fs . . 218.0 101.0 231.0 0.0 . 42 . 0.463303 0 none . . PASS Atlas-Indel,Pindel SGSM2 9905 hgsc.bcm.edu hg19 17 2278871 2278878 + Frame_Shift_Del DEL CCGGGACT CCGGGACT - novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 CCGGGACT CCGGGACT . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . SGSM2 NM_014853 exon18 c.2185_2192del p.729_731del . . 38.0 15.0 49.0 0.0 . 60 . 0.394737 0 none . . PASS Atlas-Indel,Pindel HN1L 90861 hgsc.bcm.edu hg19 16 1735486 1735486 + Frame_Shift_Del DEL C C - novel TCGA-SX-A7SL-01A-11D-A34Z-10 TCGA-SX-A7SL-10A-01D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e274845c-65ec-4db0-89f9-7d502ac2e427 e96052fd-169c-4e27-bd82-a5b6c796da53 . HN1L NM_144570 exon2 c.90delT p.S30fs . . 73.0 48.0 79.0 0.0 . 17 . 0.657534 0 none . . PASS Atlas-Indel,Pindel