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 ATP5F1 515 hgsc.bcm.edu hg19 1 112002161 112002161 + Missense_Mutation SNP A A G rs201457142 bycluster TCGA-B3-8121-01A-21D-2396-08 TCGA-B3-8121-10A-01D-2396-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ef96a344-c871-4819-aada-dd93a5c7ca7d 5e9a09f1-d8de-4b72-99a8-ec2dad680376 . ATP5F1 NM_001688 exon6 c.A596G p.Y199C TGGACTATCATAT . 50.0 7.0 73.0 0.0 . 20 . . . weak A|0.999;G|0.001 0.001 PASS Atlas-SNP SLC16A1 6566 hgsc.bcm.edu hg19 1 113460277 113460277 + Nonsense_Mutation SNP G G A novel TCGA-B3-8121-01A-21D-2396-08 TCGA-B3-8121-10A-01D-2396-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ef96a344-c871-4819-aada-dd93a5c7ca7d 5e9a09f1-d8de-4b72-99a8-ec2dad680376 . SLC16A1 NM_001166496 exon4 c.C751T p.Q251X GGAACTGATTAAT . 86.0 17.0 156.0 0.0 . 61 . . . none . . PASS Atlas-SNP SNAPIN 23557 hgsc.bcm.edu hg19 1 153631989 153631989 + Missense_Mutation SNP C C G novel TCGA-B3-8121-01A-21D-2396-08 TCGA-B3-8121-10A-01D-2396-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ef96a344-c871-4819-aada-dd93a5c7ca7d 5e9a09f1-d8de-4b72-99a8-ec2dad680376 . SNAPIN NM_012437 exon3 c.C256G p.L86V AAGCTACTTAATG . 95.0 14.0 148.0 0.0 . 6 . . . none . . PASS Atlas-SNP NLRC4 58484 hgsc.bcm.edu hg19 2 32475306 32475306 + Missense_Mutation SNP G G C novel TCGA-B3-8121-01A-21D-2396-08 TCGA-B3-8121-10A-01D-2396-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ef96a344-c871-4819-aada-dd93a5c7ca7d 5e9a09f1-d8de-4b72-99a8-ec2dad680376 . NLRC4 NM_001199138 exon4 c.C1627G p.Q543E TTTCTTGCTCAGT . 105.0 21.0 164.0 0.0 . 165 . . . none . . PASS Atlas-SNP NLRC4 58484 hgsc.bcm.edu hg19 2 32475307 32475307 + Silent SNP C C T novel TCGA-B3-8121-01A-21D-2396-08 TCGA-B3-8121-10A-01D-2396-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ef96a344-c871-4819-aada-dd93a5c7ca7d 5e9a09f1-d8de-4b72-99a8-ec2dad680376 . NLRC4 NM_001199138 exon4 c.G1626A p.E542E TTCTTGCTCAGTG . 106.0 21.0 163.0 0.0 . 165 . . . none . . PASS Atlas-SNP HAT1 8520 hgsc.bcm.edu hg19 2 172848182 172848182 + Missense_Mutation SNP C C A novel TCGA-B3-8121-01A-21D-2396-08 TCGA-B3-8121-10A-01D-2396-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ef96a344-c871-4819-aada-dd93a5c7ca7d 5e9a09f1-d8de-4b72-99a8-ec2dad680376 HAT1,NS,carcinoma,0,1 HAT1 NM_003642 exon11 c.C1176A p.S392R AATAAGCATGCAA . 55.0 3.0 77.0 0.0 . 40 . . . none . . PASS Atlas-SNP ZNF142 7701 hgsc.bcm.edu hg19 2 219510938 219510938 + Missense_Mutation SNP C C A novel TCGA-B3-8121-01A-21D-2396-08 TCGA-B3-8121-10A-01D-2396-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ef96a344-c871-4819-aada-dd93a5c7ca7d 5e9a09f1-d8de-4b72-99a8-ec2dad680376 . ZNF142 NM_001105537 exon7 c.G1407T p.K469N GTAGTGCTTCCAC . 139.0 32.0 134.0 0.0 . 190 . . . none . . PASS Atlas-SNP ADAMTS16 170690 hgsc.bcm.edu hg19 5 5235247 5235247 + Missense_Mutation SNP C C G novel TCGA-B3-8121-01A-21D-2396-08 TCGA-B3-8121-10A-01D-2396-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ef96a344-c871-4819-aada-dd93a5c7ca7d 5e9a09f1-d8de-4b72-99a8-ec2dad680376 . ADAMTS16 NM_139056 exon13 c.C1971G p.S657R CAACAGCAGACGA . 124.0 16.0 97.0 0.0 . 543 . . . none . . PASS Atlas-SNP VCAN 1462 hgsc.bcm.edu hg19 5 82850838 82850838 + Nonsense_Mutation SNP G G A novel TCGA-B3-8121-01A-21D-2396-08 TCGA-B3-8121-10A-01D-2396-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ef96a344-c871-4819-aada-dd93a5c7ca7d 5e9a09f1-d8de-4b72-99a8-ec2dad680376 VCAN,NS,carcinoma,0,1 VCAN NM_004385 exon12 c.G9716A p.W3239X TCCGTTGGACTGA . 79.0 13.0 89.0 0.0 . 498 . . . none . . PASS Atlas-SNP HIST1H4B 8366 hgsc.bcm.edu hg19 6 26027471 26027471 + Missense_Mutation SNP G G C novel TCGA-B3-8121-01A-21D-2396-08 TCGA-B3-8121-10A-01D-2396-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ef96a344-c871-4819-aada-dd93a5c7ca7d 5e9a09f1-d8de-4b72-99a8-ec2dad680376 HIST1H4B,NS,carcinoma,0,1 HIST1H4B NM_003544 exon1 c.C10G p.R4G TGCCGCGACCAGA . 104.0 16.0 95.0 0.0 . 27 . . . none . . PASS Atlas-SNP PKHD1 5314 hgsc.bcm.edu hg19 6 51924820 51924820 + Missense_Mutation SNP A A C rs143341567 alternate_allele TCGA-B3-8121-01A-21D-2396-08 TCGA-B3-8121-10A-01D-2396-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ef96a344-c871-4819-aada-dd93a5c7ca7d 5e9a09f1-d8de-4b72-99a8-ec2dad680376 . PKHD1 NM_170724 exon15 c.T1139G p.F380C GCCACAAAGAACC . 67.0 18.0 121.0 0.0 . 927 . . . alt A|1.000;G|0.000 . PASS Atlas-SNP KCNQ5 56479 hgsc.bcm.edu hg19 6 73905126 73905126 + Missense_Mutation SNP A A G novel TCGA-B3-8121-01A-21D-2396-08 TCGA-B3-8121-10A-01D-2396-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ef96a344-c871-4819-aada-dd93a5c7ca7d 5e9a09f1-d8de-4b72-99a8-ec2dad680376 . KCNQ5 NM_001160133 exon15 c.A2845G p.K949E CATGTCAAACTGA . 112.0 17.0 122.0 0.0 . 153 . . . none . . PASS Atlas-SNP RARS2 57038 hgsc.bcm.edu hg19 6 88231239 88231239 + Missense_Mutation SNP A A T novel TCGA-B3-8121-01A-21D-2396-08 TCGA-B3-8121-10A-01D-2396-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ef96a344-c871-4819-aada-dd93a5c7ca7d 5e9a09f1-d8de-4b72-99a8-ec2dad680376 . RARS2 NM_020320 exon12 c.T978A p.D326E TGCAAGATCTCTG . 33.0 8.0 64.0 0.0 . 61 . . . none . . PASS Atlas-SNP CAPRIN2 65981 hgsc.bcm.edu hg19 12 30888129 30888129 + Silent SNP C C T rs145888176 TCGA-B3-8121-01A-21D-2396-08 TCGA-B3-8121-10A-01D-2396-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ef96a344-c871-4819-aada-dd93a5c7ca7d 5e9a09f1-d8de-4b72-99a8-ec2dad680376 CAPRIN2,NS,carcinoma,0,1 CAPRIN2 NM_023925 exon4 c.G582A p.A194A CTTTTGCGCTTTT . 91.0 5.0 171.0 0.0 . 109 . . . weak C|1.000;T|0.000 0.000 PASS Atlas-SNP RAN 5901 hgsc.bcm.edu hg19 12 131359114 131359114 + Missense_Mutation SNP G G A novel TCGA-B3-8121-01A-21D-2396-08 TCGA-B3-8121-10A-01D-2396-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ef96a344-c871-4819-aada-dd93a5c7ca7d 5e9a09f1-d8de-4b72-99a8-ec2dad680376 . RAN NM_006325 exon5 c.G271A p.D91N ATGTTTGATGTAA . 50.0 9.0 95.0 0.0 . 18 . . . none . . PASS Atlas-SNP TJP1 7082 hgsc.bcm.edu hg19 15 30008820 30008820 + Silent SNP A A G novel TCGA-B3-8121-01A-21D-2396-08 TCGA-B3-8121-10A-01D-2396-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ef96a344-c871-4819-aada-dd93a5c7ca7d 5e9a09f1-d8de-4b72-99a8-ec2dad680376 . TJP1 NM_003257 exon23 c.T4197C p.S1399S CTTTGAAGAATAA . 54.0 7.0 81.0 0.0 . 140 . . . none . . PASS Atlas-SNP TJP1 7082 hgsc.bcm.edu hg19 15 30065529 30065529 + Missense_Mutation SNP G G T novel TCGA-B3-8121-01A-21D-2396-08 TCGA-B3-8121-10A-01D-2396-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ef96a344-c871-4819-aada-dd93a5c7ca7d 5e9a09f1-d8de-4b72-99a8-ec2dad680376 . TJP1 NM_175610 exon3 c.C116A p.S39Y CCACCAGATATTG . 108.0 19.0 148.0 0.0 . 140 . . . none . . PASS Atlas-SNP EFCAB3 146779 hgsc.bcm.edu hg19 17 60484528 60484528 + Silent SNP T T C novel TCGA-B3-8121-01A-21D-2396-08 TCGA-B3-8121-10A-01D-2396-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ef96a344-c871-4819-aada-dd93a5c7ca7d 5e9a09f1-d8de-4b72-99a8-ec2dad680376 . EFCAB3 NM_001144933 exon10 c.T978C p.H326H TTTGCATTTCTTT . 74.0 7.0 92.0 0.0 . 71 . . . none . . PASS Atlas-SNP KLHL14 57565 hgsc.bcm.edu hg19 18 30350134 30350134 + Missense_Mutation SNP A A C novel TCGA-B3-8121-01A-21D-2396-08 TCGA-B3-8121-10A-01D-2396-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ef96a344-c871-4819-aada-dd93a5c7ca7d 5e9a09f1-d8de-4b72-99a8-ec2dad680376 . KLHL14 NM_020805 exon2 c.T421G p.Y141D AGAGGTACTCGAG . 268.0 50.0 216.0 0.0 . 92 . . . none . . PASS Atlas-SNP ATP5A1 498 hgsc.bcm.edu hg19 18 43671697 43671697 + Missense_Mutation SNP A A G novel TCGA-B3-8121-01A-21D-2396-08 TCGA-B3-8121-10A-01D-2396-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ef96a344-c871-4819-aada-dd93a5c7ca7d 5e9a09f1-d8de-4b72-99a8-ec2dad680376 . ATP5A1 NM_004046 exon3 c.T260C p.L87P TTCCTCAGCCCAT . 103.0 25.0 134.0 0.0 . 52 . . . none . . PASS Atlas-SNP ANKRD27 84079 hgsc.bcm.edu hg19 19 33132944 33132944 + Missense_Mutation SNP G G A novel TCGA-B3-8121-01A-21D-2396-08 TCGA-B3-8121-10A-01D-2396-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ef96a344-c871-4819-aada-dd93a5c7ca7d 5e9a09f1-d8de-4b72-99a8-ec2dad680376 . ANKRD27 NM_032139 exon10 c.C890T p.S297F CTTGGAGACTGTG . 199.0 53.0 214.0 0.0 . 86 . . . none . . PASS Atlas-SNP LILRA5 353514 hgsc.bcm.edu hg19 19 54819027 54819027 + Missense_Mutation SNP G G A novel TCGA-B3-8121-01A-21D-2396-08 TCGA-B3-8121-10A-01D-2396-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ef96a344-c871-4819-aada-dd93a5c7ca7d 5e9a09f1-d8de-4b72-99a8-ec2dad680376 . LILRA5 NM_021250 exon6 c.C719T p.A240V TTATCAGCTGCTC . 66.0 13.0 69.0 0.0 . 49 . . . none . . PASS Atlas-SNP HUWE1 10075 hgsc.bcm.edu hg19 X 53589174 53589174 + Silent SNP C C T novel TCGA-B3-8121-01A-21D-2396-08 TCGA-B3-8121-10A-01D-2396-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ef96a344-c871-4819-aada-dd93a5c7ca7d 5e9a09f1-d8de-4b72-99a8-ec2dad680376 . HUWE1 NM_031407 exon54 c.G7236A p.E2412E CTCCTCCTCATCC . 57.0 16.0 59.0 0.0 . 724 . . . none . . PASS Atlas-SNP IGFBP1 3484 hgsc.bcm.edu hg19 7 45932569 45932569 + Frame_Shift_Del DEL C C - novel TCGA-B3-8121-01A-21D-2396-08 TCGA-B3-8121-10A-01D-2396-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ef96a344-c871-4819-aada-dd93a5c7ca7d 5e9a09f1-d8de-4b72-99a8-ec2dad680376 . IGFBP1 NM_000596 exon4 c.658delT p.S220fs . . 119.0 11.0 101.0 0.0 . 19 . 0.092437 0 none . . PASS Atlas-INDEL GIT2 9815 hgsc.bcm.edu hg19 12 110385121 110385127 + Frame_Shift_Del DEL TGGGAGA TGGGAGA - novel TCGA-B3-8121-01A-21D-2396-08 TCGA-B3-8121-10A-01D-2396-08 TGGGAGA TGGGAGA . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ef96a344-c871-4819-aada-dd93a5c7ca7d 5e9a09f1-d8de-4b72-99a8-ec2dad680376 . GIT2 NM_001135214 exon15 c.1576_1582del p.526_528del . . 110.0 15.0 92.0 0.0 . 81 . 0.136364 0 none . . PASS Atlas-INDEL ZNF341 84905 hgsc.bcm.edu hg19 20 32345059 32345060 + Frame_Shift_Ins INS - - C novel TCGA-B3-8121-01A-21D-2396-08 TCGA-B3-8121-10A-01D-2396-08 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ef96a344-c871-4819-aada-dd93a5c7ca7d 5e9a09f1-d8de-4b72-99a8-ec2dad680376 . ZNF341 NM_032819 exon6 c.847_848insC p.T283fs . . 414.0 128.0 318.0 0.0 . 73 . 0.309179 0 none . . PASS Atlas-INDEL TRIP6 7205 hgsc.bcm.edu hg19 7 100465513 100465514 + Frame_Shift_Ins INS - - C novel TCGA-B3-8121-01A-21D-2396-08 TCGA-B3-8121-10A-01D-2396-08 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ef96a344-c871-4819-aada-dd93a5c7ca7d 5e9a09f1-d8de-4b72-99a8-ec2dad680376 . TRIP6 NM_003302 exon2 c.140_141insC p.C47fs . . 335.0 81.0 265.0 0.0 . 45 . 0.241791 0 none . . PASS Atlas-INDEL NUP50 10762 hgsc.bcm.edu hg19 22 45574449 45574449 + Frame_Shift_Del DEL T T - novel TCGA-B3-8121-01A-21D-2396-08 TCGA-B3-8121-10A-01D-2396-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ef96a344-c871-4819-aada-dd93a5c7ca7d 5e9a09f1-d8de-4b72-99a8-ec2dad680376 . NUP50 NM_007172 exon5 c.670delC p.L224fs . . 83.0 11.0 106.0 0.0 . 24 . 0.13253 0 none . . PASS Atlas-INDEL S100PBP 64766 hgsc.bcm.edu hg19 1 33292114 33292114 + Frame_Shift_Del DEL A A - novel TCGA-B3-8121-01A-21D-2396-08 TCGA-B3-8121-10A-01D-2396-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ef96a344-c871-4819-aada-dd93a5c7ca7d 5e9a09f1-d8de-4b72-99a8-ec2dad680376 S100PBP,colon,carcinoma,0,1 S100PBP NM_001256121 exon3 c.413delT p.V138fs . . 70.0 16.0 100.0 0.0 . 31 . 0.228571 0 none . . PASS Atlas-INDEL