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 LRRC8B 23507 hgsc.bcm.edu hg19 1 90048545 90048545 + Silent SNP A A G novel TCGA-IA-A40X-01A-11D-A25F-10 TCGA-IA-A40X-10A-01D-A25F-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e1217ebe-1826-41a9-b6c4-702100a66f5e 611a2445-8df1-4abd-bb6b-4954ee1dc47d . LRRC8B NM_015350 exon5 c.A336G p.K112K CGAGAAACAGCTC . 174.0 61.0 152.0 0.0 . 49 . . . none . . PASS Atlas-SNP OTX1 5013 hgsc.bcm.edu hg19 2 63282730 63282730 + Missense_Mutation SNP T T A novel TCGA-IA-A40X-01A-11D-A25F-10 TCGA-IA-A40X-10A-01D-A25F-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e1217ebe-1826-41a9-b6c4-702100a66f5e 611a2445-8df1-4abd-bb6b-4954ee1dc47d . OTX1 NM_014562 exon5 c.T344A p.V115E CTCCAGTGCGGGA . 239.0 86.0 149.0 0.0 . 49 . . . none . . PASS Atlas-SNP KCNJ3 3760 hgsc.bcm.edu hg19 2 155555531 155555531 + Missense_Mutation SNP T T C novel TCGA-IA-A40X-01A-11D-A25F-10 TCGA-IA-A40X-10A-01D-A25F-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e1217ebe-1826-41a9-b6c4-702100a66f5e 611a2445-8df1-4abd-bb6b-4954ee1dc47d . KCNJ3 NM_001260509 exon1 c.T244C p.W82R TGGCGCTGGAACC . 467.0 30.0 352.0 0.0 . 126 . . . none . . PASS Atlas-SNP TTN 7273 hgsc.bcm.edu hg19 2 179615958 179615958 + Silent SNP C C T rs145004106 TCGA-IA-A40X-01A-11D-A25F-10 TCGA-IA-A40X-10A-01D-A25F-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e1217ebe-1826-41a9-b6c4-702100a66f5e 611a2445-8df1-4abd-bb6b-4954ee1dc47d . TTN NM_133379 exon46 c.G11169A p.T3723T AGAAGACGTATCT . 121.0 36.0 133.0 0.0 . 18412 . . . weak C|1.000;T|0.000 0.000 PASS Atlas-SNP CRBN 51185 hgsc.bcm.edu hg19 3 3209472 3209472 + Missense_Mutation SNP T T G novel TCGA-IA-A40X-01A-11D-A25F-10 TCGA-IA-A40X-10A-01D-A25F-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e1217ebe-1826-41a9-b6c4-702100a66f5e 611a2445-8df1-4abd-bb6b-4954ee1dc47d . CRBN NM_016302 exon5 c.A533C p.Q178P GCTTGCTGGATTC . 52.0 19.0 50.0 0.0 . 29 . . . none . . PASS Atlas-SNP KLHDC8B 200942 hgsc.bcm.edu hg19 3 49212303 49212303 + Missense_Mutation SNP G G A novel TCGA-IA-A40X-01A-11D-A25F-10 TCGA-IA-A40X-10A-01D-A25F-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e1217ebe-1826-41a9-b6c4-702100a66f5e 611a2445-8df1-4abd-bb6b-4954ee1dc47d . KLHDC8B NM_173546 exon4 c.G670A p.V224I GGCAGCGTCTTTA . 58.0 31.0 63.0 0.0 . 28 . . . none . . PASS Atlas-SNP MAML3 55534 hgsc.bcm.edu hg19 4 140811102 140811102 + Silent SNP C C T novel TCGA-IA-A40X-01A-11D-A25F-10 TCGA-IA-A40X-10A-01D-A25F-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e1217ebe-1826-41a9-b6c4-702100a66f5e 611a2445-8df1-4abd-bb6b-4954ee1dc47d . MAML3 NM_018717 exon2 c.G1488A p.Q496Q CTGCTGCTGCTGC . 92.0 12.0 77.0 0.0 . 192 . . . none . . PASS Atlas-SNP MAML3 55534 hgsc.bcm.edu hg19 4 140811104 140811104 + Missense_Mutation SNP G G T novel TCGA-IA-A40X-01A-11D-A25F-10 TCGA-IA-A40X-10A-01D-A25F-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e1217ebe-1826-41a9-b6c4-702100a66f5e 611a2445-8df1-4abd-bb6b-4954ee1dc47d . MAML3 NM_018717 exon2 c.C1486A p.Q496K GCTGCTGCTGCTG . 93.0 10.0 79.0 0.0 . 192 . . . none . . PASS Atlas-SNP SLC6A19 340024 hgsc.bcm.edu hg19 5 1219218 1219218 + Silent SNP C C T novel TCGA-IA-A40X-01A-11D-A25F-10 TCGA-IA-A40X-10A-01D-A25F-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e1217ebe-1826-41a9-b6c4-702100a66f5e 611a2445-8df1-4abd-bb6b-4954ee1dc47d . SLC6A19 NM_001003841 exon9 c.C1374T p.L458L GGTGCTCACAGGT . 106.0 41.0 79.0 0.0 . 99 . . . none . . PASS Atlas-SNP LYRM4 57128 hgsc.bcm.edu hg19 6 5260906 5260906 + Nonsense_Mutation SNP T T A novel TCGA-IA-A40X-01A-11D-A25F-10 TCGA-IA-A40X-10A-01D-A25F-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e1217ebe-1826-41a9-b6c4-702100a66f5e 611a2445-8df1-4abd-bb6b-4954ee1dc47d . LYRM4 NM_020408 exon1 c.A61T p.K21X AACGCTTGCTCTC . 13.0 9.0 6.0 0.0 . 5 . . . none . . PASS Atlas-SNP C7orf31 136895 hgsc.bcm.edu hg19 7 25182389 25182389 + Missense_Mutation SNP T T G novel TCGA-IA-A40X-01A-11D-A25F-10 TCGA-IA-A40X-10A-01D-A25F-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e1217ebe-1826-41a9-b6c4-702100a66f5e 611a2445-8df1-4abd-bb6b-4954ee1dc47d . C7orf31 NM_138811 exon8 c.A729C p.K243N AGGAGGTTTTGGG . 89.0 38.0 81.0 0.0 . 53 . . . none . . PASS Atlas-SNP C9orf153 389766 hgsc.bcm.edu hg19 9 88844472 88844472 + Missense_Mutation SNP G G A novel TCGA-IA-A40X-01A-11D-A25F-10 TCGA-IA-A40X-10A-01D-A25F-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e1217ebe-1826-41a9-b6c4-702100a66f5e 611a2445-8df1-4abd-bb6b-4954ee1dc47d . C9orf153 NM_001276368 exon3 c.C47T p.A16V AGGGTGGCTTCTC . 103.0 37.0 105.0 0.0 . 10 . . . none . . PASS Atlas-SNP CTNNA3 29119 hgsc.bcm.edu hg19 10 67726425 67726425 + Missense_Mutation SNP C C T novel TCGA-IA-A40X-01A-11D-A25F-10 TCGA-IA-A40X-10A-01D-A25F-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e1217ebe-1826-41a9-b6c4-702100a66f5e 611a2445-8df1-4abd-bb6b-4954ee1dc47d . CTNNA3 NM_013266 exon17 c.G2345A p.C782Y TGACTGCAGATTT . 131.0 53.0 124.0 0.0 . 401 . . . none . . PASS Atlas-SNP NUP98 4928 hgsc.bcm.edu hg19 11 3744474 3744474 + Missense_Mutation SNP T T A novel TCGA-IA-A40X-01A-11D-A25F-10 TCGA-IA-A40X-10A-01D-A25F-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e1217ebe-1826-41a9-b6c4-702100a66f5e 611a2445-8df1-4abd-bb6b-4954ee1dc47d . NUP98 NM_005387 exon16 c.A2110T p.S704C CACTGCTTCCTTC . 251.0 93.0 205.0 0.0 . 149 . . . none . . PASS Atlas-SNP EFCAB4B 84766 hgsc.bcm.edu hg19 12 3765545 3765545 + Missense_Mutation SNP G G T novel TCGA-IA-A40X-01A-11D-A25F-10 TCGA-IA-A40X-10A-01D-A25F-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e1217ebe-1826-41a9-b6c4-702100a66f5e 611a2445-8df1-4abd-bb6b-4954ee1dc47d . EFCAB4B NM_001144958 exon9 c.C790A p.Q264K GCTCTTGACTGCG . 109.0 37.0 85.0 0.0 . 100 . . . none . . PASS Atlas-SNP IL21R 50615 hgsc.bcm.edu hg19 16 27445763 27445763 + Missense_Mutation SNP C C G novel TCGA-IA-A40X-01A-11D-A25F-10 TCGA-IA-A40X-10A-01D-A25F-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e1217ebe-1826-41a9-b6c4-702100a66f5e 611a2445-8df1-4abd-bb6b-4954ee1dc47d . IL21R NM_181079 exon4 c.C211G p.L71V CTCACCCTTACCT . 89.0 42.0 64.0 0.0 . 95 . . . none . . PASS Atlas-SNP IL21R 50615 hgsc.bcm.edu hg19 16 27459874 27459874 + Missense_Mutation SNP T T C novel TCGA-IA-A40X-01A-11D-A25F-10 TCGA-IA-A40X-10A-01D-A25F-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e1217ebe-1826-41a9-b6c4-702100a66f5e 611a2445-8df1-4abd-bb6b-4954ee1dc47d . IL21R NM_181079 exon10 c.T953C p.F318S CACCCTTCACTGG . 172.0 62.0 148.0 0.0 . 95 . . . none . . PASS Atlas-SNP GSDMA 284110 hgsc.bcm.edu hg19 17 38121980 38121980 + Nonsense_Mutation SNP C C T novel TCGA-IA-A40X-01A-11D-A25F-10 TCGA-IA-A40X-10A-01D-A25F-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e1217ebe-1826-41a9-b6c4-702100a66f5e 611a2445-8df1-4abd-bb6b-4954ee1dc47d . GSDMA NM_178171 exon2 c.C40T p.Q14X GCCAGACAGCTAA . 107.0 5.0 72.0 0.0 . 26 . . . none . . PASS Atlas-SNP TRIM37 4591 hgsc.bcm.edu hg19 17 57134407 57134407 + Missense_Mutation SNP T T C novel TCGA-IA-A40X-01A-11D-A25F-10 TCGA-IA-A40X-10A-01D-A25F-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e1217ebe-1826-41a9-b6c4-702100a66f5e 611a2445-8df1-4abd-bb6b-4954ee1dc47d . TRIM37 NM_015294 exon13 c.A1028G p.Y343C ACACGATATTCAT . 36.0 21.0 46.0 0.0 . 105 . . . none . . PASS Atlas-SNP ZNF536 9745 hgsc.bcm.edu hg19 19 30936011 30936011 + Missense_Mutation SNP G G C novel TCGA-IA-A40X-01A-11D-A25F-10 TCGA-IA-A40X-10A-01D-A25F-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e1217ebe-1826-41a9-b6c4-702100a66f5e 611a2445-8df1-4abd-bb6b-4954ee1dc47d . ZNF536 NM_014717 exon2 c.G1542C p.E514D TGCGGAGATGGAC . 44.0 21.0 31.0 0.0 . 424 . . . none . . PASS Atlas-SNP KCNN4 3783 hgsc.bcm.edu hg19 19 44278354 44278354 + Missense_Mutation SNP C C T novel TCGA-IA-A40X-01A-11D-A25F-10 TCGA-IA-A40X-10A-01D-A25F-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e1217ebe-1826-41a9-b6c4-702100a66f5e 611a2445-8df1-4abd-bb6b-4954ee1dc47d . KCNN4 NM_002250 exon3 c.G673A p.V225M CGGCCACGGACAG . 89.0 48.0 41.0 0.0 . 37 . . . none . . PASS Atlas-SNP BPIFB3 359710 hgsc.bcm.edu hg19 20 31660577 31660577 + Missense_Mutation SNP A A G novel TCGA-IA-A40X-01A-11D-A25F-10 TCGA-IA-A40X-10A-01D-A25F-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e1217ebe-1826-41a9-b6c4-702100a66f5e 611a2445-8df1-4abd-bb6b-4954ee1dc47d . . NM_182658 exon14 c.A1379G p.N460S TTTCCAATTCAGT . 163.0 62.0 191.0 0.0 . . . . . none . . PASS Atlas-SNP FAM83C 128876 hgsc.bcm.edu hg19 20 33874582 33874582 + Missense_Mutation SNP G G C novel TCGA-IA-A40X-01A-11D-A25F-10 TCGA-IA-A40X-10A-01D-A25F-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e1217ebe-1826-41a9-b6c4-702100a66f5e 611a2445-8df1-4abd-bb6b-4954ee1dc47d . FAM83C NM_178468 exon4 c.C2000G p.S667C TCCCCAGACCCAG . 236.0 101.0 173.0 0.0 . 80 . . . none . . PASS Atlas-SNP TMPRSS3 64699 hgsc.bcm.edu hg19 21 43802332 43802332 + Missense_Mutation SNP G G C novel TCGA-IA-A40X-01A-11D-A25F-10 TCGA-IA-A40X-10A-01D-A25F-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e1217ebe-1826-41a9-b6c4-702100a66f5e 611a2445-8df1-4abd-bb6b-4954ee1dc47d . TMPRSS3 NM_001256317 exon9 c.C794G p.P265R GACTTGGGGAGGT . 70.0 27.0 67.0 0.0 . 40 . . . none . . PASS Atlas-SNP MMP11 4320 hgsc.bcm.edu hg19 22 24125618 24125618 + Missense_Mutation SNP G G T novel TCGA-IA-A40X-01A-11D-A25F-10 TCGA-IA-A40X-10A-01D-A25F-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e1217ebe-1826-41a9-b6c4-702100a66f5e 611a2445-8df1-4abd-bb6b-4954ee1dc47d . MMP11 NM_005940 exon8 c.G1354T p.G452C CTGCGCGGCCGCC . 166.0 21.0 116.0 0.0 . 53 . . . none . . PASS Atlas-SNP VCX 26609 hgsc.bcm.edu hg19 X 7811790 7811790 + Silent SNP C C T rs200229312 TCGA-IA-A40X-01A-11D-A25F-10 TCGA-IA-A40X-10A-01D-A25F-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e1217ebe-1826-41a9-b6c4-702100a66f5e 611a2445-8df1-4abd-bb6b-4954ee1dc47d . VCX NM_013452 exon3 c.C354T p.S118S GGAGAGCGAGGTG . 308.0 103.0 269.0 0.0 . 28 . . . weak . . PASS Atlas-SNP SUPT20HL1 100130302 hgsc.bcm.edu hg19 X 24382384 24382384 + Missense_Mutation SNP G G A novel TCGA-IA-A40X-01A-11D-A25F-10 TCGA-IA-A40X-10A-01D-A25F-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e1217ebe-1826-41a9-b6c4-702100a66f5e 611a2445-8df1-4abd-bb6b-4954ee1dc47d . . NM_001136234 exon1 c.G1507A p.A503T GCTGCTGCTGCTG . 330.0 22.0 249.0 0.0 . . . . . none . . PASS Atlas-SNP SUPT20HL1 100130302 hgsc.bcm.edu hg19 X 24382385 24382385 + Missense_Mutation SNP C C T novel TCGA-IA-A40X-01A-11D-A25F-10 TCGA-IA-A40X-10A-01D-A25F-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e1217ebe-1826-41a9-b6c4-702100a66f5e 611a2445-8df1-4abd-bb6b-4954ee1dc47d . . NM_001136234 exon1 c.C1508T p.A503V CTGCTGCTGCTGC . 324.0 25.0 244.0 0.0 . . . . . none . . PASS Atlas-SNP GAB3 139716 hgsc.bcm.edu hg19 X 153908429 153908429 + Missense_Mutation SNP A A G novel TCGA-IA-A40X-01A-11D-A25F-10 TCGA-IA-A40X-10A-01D-A25F-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e1217ebe-1826-41a9-b6c4-702100a66f5e 611a2445-8df1-4abd-bb6b-4954ee1dc47d . GAB3 NM_001081573 exon9 c.T1627C p.S543P CTGGTGATGCTGA . 149.0 57.0 145.0 0.0 . 73 . . . none . . PASS Atlas-SNP SULT1C2 6819 hgsc.bcm.edu hg19 2 108910813 108910813 + Splice_Site DEL G G - novel TCGA-IA-A40X-01A-11D-A25F-10 TCGA-IA-A40X-10A-01D-A25F-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e1217ebe-1826-41a9-b6c4-702100a66f5e 611a2445-8df1-4abd-bb6b-4954ee1dc47d . SULT1C2 NM_001056 exon3 c.277+2G>- . . . 97.0 39.0 74.0 0.0 . 82 . 0.402062 0 none . . PASS Atlas-Indel,Pindel VCX2 51480 hgsc.bcm.edu hg19 X 8138172 8138173 + In_Frame_Ins INS - - TCCTGACTCAGTGGTTCCTCCAGCTCGGCC novel TCGA-IA-A40X-01A-11D-A25F-10 TCGA-IA-A40X-10A-01D-A25F-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq e1217ebe-1826-41a9-b6c4-702100a66f5e 611a2445-8df1-4abd-bb6b-4954ee1dc47d . VCX2 NM_016378 exon3 c.321_322insGGCCGAGCTGGAGGAACCACTGAGTCAGGA p.E107delinsEAELEEPLSQE . . 182.0 11.0 127.0 0.0 . 16 . 0.060 . none . . PASS Pindel