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 MTOR 2475 hgsc.bcm.edu hg19 1 11307790 11307790 + Missense_Mutation SNP C C A novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . MTOR NM_004958 exon8 c.G1117T p.V373L GGCACACCTGAGA . 90.0 18.0 114.0 0.0 . 327 . . . none . . PASS Atlas-SNP ZMYM6 9204 hgsc.bcm.edu hg19 1 35476600 35476600 + Missense_Mutation SNP G G A novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de ZMYM6,NS,carcinoma,0,2 ZMYM6 NM_007167 exon9 c.C1100T p.A367V GGCACCGCCGAAG . 95.0 37.0 87.0 1.0 . 110 . . . none . . PASS Atlas-SNP LCE2A 353139 hgsc.bcm.edu hg19 1 152671691 152671691 + Missense_Mutation SNP G G C novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . LCE2A NM_178428 exon2 c.G314C p.C105S GGGACTGCTGCTG . 127.0 32.0 121.0 0.0 . 22 . . . none . . PASS Atlas-SNP TNN 63923 hgsc.bcm.edu hg19 1 175086172 175086172 + Silent SNP G G C novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de TNN,NS,carcinoma,0,1 TNN NM_022093 exon10 c.G2217C p.V739V GTATGTGGTGCGC . 120.0 5.0 91.0 1.0 . 297 . . . none . . PASS Atlas-SNP DHX9 1660 hgsc.bcm.edu hg19 1 182850707 182850707 + Missense_Mutation SNP A A G novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . DHX9 NM_001357 exon24 c.A2839G p.M947V CTTAATATGGCTA . 105.0 76.0 144.0 0.0 . 114 . . . none . . PASS Atlas-SNP USP34 9736 hgsc.bcm.edu hg19 2 61450209 61450209 + Missense_Mutation SNP G G C novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . USP34 NM_014709 exon64 c.C7735G p.R2579G CAAGTCGATTATT . 38.0 10.0 46.0 0.0 . 334 . . . none . . PASS Atlas-SNP GCFC2 6936 hgsc.bcm.edu hg19 2 75921529 75921529 + Missense_Mutation SNP G G C novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . . NM_003203 exon6 c.C858G p.H286Q TGAGCGGTGAGTT . 98.0 40.0 125.0 0.0 . . . . . none . . PASS Atlas-SNP KIAA1211L 343990 hgsc.bcm.edu hg19 2 99411105 99411105 + Missense_Mutation SNP G G C novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . . NM_207362 exon10 c.C2779G p.L927V GATGCAGTTCCTT . 144.0 60.0 125.0 0.0 . . . . . none . . PASS Atlas-SNP XIRP2 129446 hgsc.bcm.edu hg19 2 168103542 168103542 + Missense_Mutation SNP T T A novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . XIRP2 NM_152381 exon9 c.T5640A p.H1880Q AAGCCATCGATGG . 72.0 18.0 73.0 0.0 . 914 . . . none . . PASS Atlas-SNP SPEG 10290 hgsc.bcm.edu hg19 2 220309733 220309733 + Missense_Mutation SNP C C G novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . SPEG NM_005876 exon3 c.C665G p.P222R CCGGGCCACGGCA . 22.0 9.0 16.0 0.0 . 272 . . . none . . PASS Atlas-SNP MRPL44 65080 hgsc.bcm.edu hg19 2 224824513 224824513 + Missense_Mutation SNP A A G novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . MRPL44 NM_022915 exon2 c.A442G p.M148V CCAGACATGCCCA . 106.0 47.0 114.0 0.0 . 31 . . . none . . PASS Atlas-SNP GOLGA4 2803 hgsc.bcm.edu hg19 3 37365472 37365472 + Missense_Mutation SNP G G A novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . GOLGA4 NM_001172713 exon15 c.G2161A p.A721T TTAAAAGCCCGTC . 39.0 29.0 44.0 0.0 . 173 . . . none . . PASS Atlas-SNP ACY1 95 hgsc.bcm.edu hg19 3 52023049 52023049 + Silent SNP G G C novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . ACY1 NM_001198895 exon15 c.G1185C p.L395L CCTGCTGCCTGCC . 125.0 98.0 167.0 1.0 . 35 . . . none . . PASS Atlas-SNP PBRM1 55193 hgsc.bcm.edu hg19 3 52651555 52651555 + Splice_Site SNP C C T novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . PBRM1 NM_018313 exon16 c.1542-1G>A . TTTTTACTGTTGA . 35.0 23.0 38.0 0.0 . 1252 . . . none . . PASS Atlas-SNP KIAA2018 205717 hgsc.bcm.edu hg19 3 113377559 113377559 + Silent SNP T T C novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . KIAA2018 NM_001009899 exon7 c.A2970G p.S990S TGTATCTGATGAA . 134.0 104.0 152.0 0.0 . 180 . . . none . . PASS Atlas-SNP CD86 942 hgsc.bcm.edu hg19 3 121822644 121822644 + Missense_Mutation SNP C C G novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . CD86 NM_175862 exon3 c.C350G p.P117R AAAAGCCCACAGG . 77.0 64.0 125.0 0.0 . 43 . . . none . . PASS Atlas-SNP USP38 84640 hgsc.bcm.edu hg19 4 144141548 144141548 + Missense_Mutation SNP G G C novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . USP38 NM_032557 exon10 c.G3068C p.C1023S GAAGCTGTGGACC . 71.0 4.0 92.0 0.0 . 92 . . . none . . PASS Atlas-SNP SMAD1 4086 hgsc.bcm.edu hg19 4 146475084 146475084 + Missense_Mutation SNP T T G novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . SMAD1 NM_005900 exon6 c.T1146G p.I382M GAAAATTTTTAAC . 101.0 36.0 141.0 0.0 . 48 . . . none . . PASS Atlas-SNP IRF2 3660 hgsc.bcm.edu hg19 4 185339324 185339324 + Missense_Mutation SNP G G C novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . IRF2 NM_002199 exon5 c.C408G p.I136M TACCTTGATGTGC . 186.0 64.0 187.0 0.0 . 53 . . . none . . PASS Atlas-SNP UGT3A2 167127 hgsc.bcm.edu hg19 5 36039694 36039694 + Missense_Mutation SNP A A C novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . UGT3A2 NM_174914 exon5 c.T960G p.F320L GTGAGCAAAGGCA . 126.0 46.0 122.0 0.0 . 117 . . . none . . PASS Atlas-SNP GFRA3 2676 hgsc.bcm.edu hg19 5 137610073 137610073 + Missense_Mutation SNP A A G novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . GFRA3 NM_001496 exon1 c.T41C p.V14A ATCAGGACTACGG . 9.0 6.0 8.0 0.0 . 36 . . . none . . PASS Atlas-SNP SNRPC 6631 hgsc.bcm.edu hg19 6 34730469 34730469 + Missense_Mutation SNP T T C novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . SNRPC NM_003093 exon3 c.T149C p.I50T GCCTGATTGACAA . 22.0 6.0 25.0 0.0 . 16 . . . none . . PASS Atlas-SNP PPARD 5467 hgsc.bcm.edu hg19 6 35392132 35392132 + Silent SNP A A C novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . PPARD NM_001171818 exon8 c.A654C p.T218T CGAGACATTGTGG . 62.0 22.0 67.0 0.0 . 46 . . . none . . PASS Atlas-SNP TCTE1 202500 hgsc.bcm.edu hg19 6 44254102 44254102 + Missense_Mutation SNP C C T rs149566851 bycluster;by1000genomes;alternate_allele TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . TCTE1 NM_182539 exon3 c.G445A p.G149S AGCTGCCGCCATG . 108.0 22.0 91.0 0.0 . 77 . . . alt C|1.000;A|0.000 . PASS Atlas-SNP TDRD6 221400 hgsc.bcm.edu hg19 6 46660547 46660547 + Missense_Mutation SNP G G C novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . TDRD6 NM_001168359 exon1 c.G4682C p.R1561T CAGACAGGAGAAA . 70.0 30.0 86.0 0.0 . 205 . . . none . . PASS Atlas-SNP FAM46A 55603 hgsc.bcm.edu hg19 6 82461531 82461531 + Missense_Mutation SNP C C T novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . FAM46A NM_017633 exon2 c.G328A p.E110K GCTTCTCGGCCAG . 67.0 31.0 71.0 0.0 . 37 . . . none . . PASS Atlas-SNP ROS1 6098 hgsc.bcm.edu hg19 6 117706858 117706858 + Silent SNP T T A novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . ROS1 NM_002944 exon15 c.A2292T p.G764G TGTCTTTCCAGCC . 118.0 53.0 143.0 0.0 . 728 . . . none . . PASS Atlas-SNP RAET1G 353091 hgsc.bcm.edu hg19 6 150240371 150240371 + Missense_Mutation SNP T T C novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . RAET1G NM_001001788 exon3 c.A439G p.I147V GGAAGATCTGTCC . 130.0 59.0 142.0 0.0 . 31 . . . none . . PASS Atlas-SNP GNAI1 2770 hgsc.bcm.edu hg19 7 79842142 79842142 + Silent SNP A A G novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . GNAI1 NM_002069 exon7 c.A831G p.K277K AGAAAAAATCAAA . 263.0 74.0 198.0 0.0 . 44 . . . none . . PASS Atlas-SNP SAMD9 54809 hgsc.bcm.edu hg19 7 92734539 92734539 + Missense_Mutation SNP T T G novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . SAMD9 NM_001193307 exon2 c.A872C p.E291A AAAACTTCCACAA . 95.0 52.0 88.0 0.0 . 239 . . . none . . PASS Atlas-SNP SLC26A5 375611 hgsc.bcm.edu hg19 7 103029511 103029511 + Silent SNP A A G novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . SLC26A5 NM_206883 exon14 c.T1458C p.Y486Y CAAACCATAGTCC . 78.0 17.0 54.0 0.0 . 231 . . . none . . PASS Atlas-SNP KIAA1549 57670 hgsc.bcm.edu hg19 7 138602963 138602963 + Missense_Mutation SNP T T C novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . KIAA1549 NM_020910 exon2 c.A1409G p.D470G GAGAAGTCTGCTA . 77.0 23.0 66.0 0.0 . 314 . . . none . . PASS Atlas-SNP TMEM176B 28959 hgsc.bcm.edu hg19 7 150493608 150493608 + Missense_Mutation SNP G G C novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . TMEM176B NM_014020 exon2 c.C50G p.P17R TGGGATGGCCTAG . 129.0 6.0 72.0 0.0 . 36 . . . none . . PASS Atlas-SNP ZFHX4 79776 hgsc.bcm.edu hg19 8 77617295 77617295 + Silent SNP G G T novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de ZFHX4,NS,carcinoma,0,1 ZFHX4 NM_024721 exon2 c.G972T p.G324G ACAGGGGATTGGC . 158.0 61.0 143.0 0.0 . 878 . . . none . . PASS Atlas-SNP ZFHX4 79776 hgsc.bcm.edu hg19 8 77617296 77617296 + Missense_Mutation SNP A A T novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . ZFHX4 NM_024721 exon2 c.A973T p.I325F CAGGGGATTGGCA . 161.0 63.0 142.0 0.0 . 878 . . . none . . PASS Atlas-SNP SLC6A13 6540 hgsc.bcm.edu hg19 12 346409 346409 + Missense_Mutation SNP A A T novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . SLC6A13 NM_016615 exon6 c.T611A p.L204Q CAGCGCAGGGCCC . 164.0 41.0 133.0 0.0 . 62 . . . none . . PASS Atlas-SNP ATN1 1822 hgsc.bcm.edu hg19 12 7046365 7046365 + Silent SNP C C G novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . ATN1 NM_001007026 exon5 c.C1935G p.S645S CCCGTCCCCGGGG . 95.0 54.0 76.0 0.0 . 95 . . . none . . PASS Atlas-SNP TAS2R13 50838 hgsc.bcm.edu hg19 12 11061866 11061866 + Missense_Mutation SNP A A C novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . TAS2R13 NM_023920 exon1 c.T32G p.L11R ATTACAAGAGTGA . 54.0 31.0 41.0 0.0 . 29 . . . none . . PASS Atlas-SNP DPY19L2 283417 hgsc.bcm.edu hg19 12 64041138 64041138 + Missense_Mutation SNP A A T novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . DPY19L2 NM_173812 exon5 c.T596A p.I199K GAGGCTATGATTA . 189.0 40.0 148.0 0.0 . 97 . . . none . . PASS Atlas-SNP RFX4 5992 hgsc.bcm.edu hg19 12 107154995 107154995 + Silent SNP T T A novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . RFX4 NM_001206691 exon18 c.T1983A p.T661T CCCCACTTCCCGG . 528.0 282.0 430.0 1.0 . 218 . . . none . . PASS Atlas-SNP NOS1 4842 hgsc.bcm.edu hg19 12 117655909 117655909 + Missense_Mutation SNP T T C novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . NOS1 NM_001204218 exon29 c.A4333G p.N1445D GGCGGTTGGTCAC . 603.0 135.0 458.0 0.0 . 240 . . . none . . PASS Atlas-SNP RIMBP2 23504 hgsc.bcm.edu hg19 12 130919339 130919339 + Silent SNP G G A novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . RIMBP2 NM_015347 exon11 c.C2142T p.D714D CTTGAAGTCTGGA . 206.0 30.0 167.0 0.0 . 220 . . . none . . PASS Atlas-SNP TP53BP1 7158 hgsc.bcm.edu hg19 15 43749140 43749140 + Missense_Mutation SNP T T A novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . TP53BP1 NM_001141980 exon12 c.A1666T p.M556L GAGACATGGGTTC . 66.0 27.0 108.0 0.0 . 157 . . . none . . PASS Atlas-SNP MYO1E 4643 hgsc.bcm.edu hg19 15 59501015 59501015 + Silent SNP G G A novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . MYO1E NM_004998 exon14 c.C1395T p.D465D GCACACGTCATCC . 71.0 16.0 73.0 0.0 . 99 . . . none . . PASS Atlas-SNP TLN2 83660 hgsc.bcm.edu hg19 15 63011987 63011987 + Missense_Mutation SNP C C G novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . TLN2 NM_015059 exon22 c.C2899G p.Q967E ATCCCTCAGCTGG . 36.0 13.0 52.0 0.0 . 253 . . . none . . PASS Atlas-SNP RASGRF1 5923 hgsc.bcm.edu hg19 15 79264261 79264261 + Nonsense_Mutation SNP G G A novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . RASGRF1 NM_002891 exon27 c.C3676T p.R1226X TCTCTCGGATAAT . 216.0 75.0 233.0 0.0 . 168 . . . none . . PASS Atlas-SNP ZP2 7783 hgsc.bcm.edu hg19 16 21215430 21215430 + Missense_Mutation SNP T T A novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . ZP2 NM_003460 exon9 c.A893T p.Q298L TGCAGCTGGCTCA . 88.0 33.0 102.0 0.0 . 92 . . . none . . PASS Atlas-SNP FOXC2 2303 hgsc.bcm.edu hg19 16 86601010 86601010 + Missense_Mutation SNP T T G novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . FOXC2 NM_005251 exon1 c.T69G p.N23K GCAGAATTACTAC . 85.0 32.0 93.0 0.0 . 46 . . . none . . PASS Atlas-SNP TSR1 55720 hgsc.bcm.edu hg19 17 2232753 2232753 + Missense_Mutation SNP A A T novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . TSR1 NM_018128 exon11 c.T1787A p.M596K ACCACCATATTCA . 75.0 26.0 68.0 0.0 . 57 . . . none . . PASS Atlas-SNP PITPNM3 83394 hgsc.bcm.edu hg19 17 6375990 6375990 + Silent SNP C C T novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . PITPNM3 NM_031220 exon11 c.G1416A p.Q472Q GAGGGACTGCCCA . 28.0 15.0 33.0 0.0 . 91 . . . none . . PASS Atlas-SNP ST6GALNAC2 10610 hgsc.bcm.edu hg19 17 74570497 74570497 + Missense_Mutation SNP C C T novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de ST6GALNAC2,colon,carcinoma,0,1 ST6GALNAC2 NM_006456 exon3 c.G311A p.R104H CTCAGGCGGTCCC . 44.0 16.0 40.0 0.0 . 29 . . . none . . PASS Atlas-SNP TRMT1 55621 hgsc.bcm.edu hg19 19 13226494 13226494 + Missense_Mutation SNP T T A novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . TRMT1 NM_001136035 exon4 c.A399T p.E133D CAGGTTTTCACTC . 299.0 114.0 280.0 0.0 . 31 . . . none . . PASS Atlas-SNP SIN3B 23309 hgsc.bcm.edu hg19 19 16964967 16964967 + Missense_Mutation SNP T T C novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . SIN3B NM_015260 exon8 c.T953C p.L318P GGGTGCTGAAGAG . 65.0 28.0 64.0 0.0 . 90 . . . none . . PASS Atlas-SNP LSR 51599 hgsc.bcm.edu hg19 19 35757260 35757260 + Splice_Site SNP A A G novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . LSR NM_015925 exon5 c.866-2A>G . CCTCACAGTGTAT . 140.0 39.0 175.0 0.0 . 60 . . . none . . PASS Atlas-SNP ZSCAN4 201516 hgsc.bcm.edu hg19 19 58187881 58187881 + Missense_Mutation SNP C C G novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . ZSCAN4 NM_152677 exon3 c.C368G p.T123S ACCTGACTGATGA . 73.0 26.0 73.0 0.0 . 72 . . . none . . PASS Atlas-SNP ENTPD6 955 hgsc.bcm.edu hg19 20 25198149 25198149 + Missense_Mutation SNP G G C novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de ENTPD6,right_upper_lobe,carcinoma,0,1 ENTPD6 NM_001247 exon9 c.G810C p.Q270H CCTGCAGGCCTCC . 131.0 32.0 132.0 0.0 . 57 . . . none . . PASS Atlas-SNP GSPT2 23708 hgsc.bcm.edu hg19 X 51486959 51486959 + Silent SNP G G T novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . GSPT2 NM_018094 exon1 c.G237T p.P79P TCAGCCGCCCACC . 28.0 9.0 21.0 0.0 . 57 . . . none . . PASS Atlas-SNP GSPT2 23708 hgsc.bcm.edu hg19 X 51486960 51486960 + Missense_Mutation SNP C C T novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . GSPT2 NM_018094 exon1 c.C238T p.P80S CAGCCGCCCACCC . 28.0 9.0 20.0 0.0 . 57 . . . none . . PASS Atlas-SNP LAS1L 81887 hgsc.bcm.edu hg19 X 64749564 64749564 + Nonsense_Mutation SNP C C A novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . LAS1L NM_031206 exon5 c.G709T p.E237X CTGACTCCGTACT . 218.0 75.0 235.0 0.0 . 72 . . . none . . PASS Atlas-SNP KIF4A 24137 hgsc.bcm.edu hg19 X 69637856 69637856 + Splice_Site SNP T T C novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . KIF4A NM_012310 exon29 c.3372+2T>C . GCAAGGTAGGATC . 115.0 44.0 134.0 0.0 . 118 . . . none . . PASS Atlas-SNP SLITRK2 84631 hgsc.bcm.edu hg19 X 144904633 144904633 + Missense_Mutation SNP G G C novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . SLITRK2 NM_001144005 exon5 c.G690C p.W230C GGCCTGGCTAGAC . 171.0 36.0 188.0 0.0 . 221 . . . none . . PASS Atlas-SNP SLITRK2 84631 hgsc.bcm.edu hg19 X 144904634 144904634 + Silent SNP C C T novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . SLITRK2 NM_001144005 exon5 c.C691T p.L231L GCCTGGCTAGACA . 171.0 37.0 187.0 0.0 . 221 . . . none . . PASS Atlas-SNP C16orf62 57020 hgsc.bcm.edu hg19 16 19711796 19711797 + Frame_Shift_Ins INS - - G novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . C16orf62 NM_020314 exon31 c.3157_3158insG p.X1053delinsW . . 85.0 28.0 99.0 0.0 . 164 . 0.329412 0 none . . PASS Atlas-INDEL PDE7B 27115 hgsc.bcm.edu hg19 6 136512787 136512788 + Frame_Shift_Ins INS - - A novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de PDE7B,NS,carcinoma,0,1 PDE7B NM_018945 exon13 c.1162_1163insA p.E388fs . . 35.0 12.0 38.0 0.0 . 55 . 0.342857 0 none . . PASS Atlas-INDEL ASPM 259266 hgsc.bcm.edu hg19 1 197073973 197073974 + Frame_Shift_Ins INS - - A novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . ASPM NM_018136 exon18 c.4408_4409insT p.I1470fs . . 58.0 45.0 69.0 0.0 . 444 . 0.775862 0 none . . PASS Atlas-INDEL ANKRD26 22852 hgsc.bcm.edu hg19 10 27349330 27349331 + In_Frame_Ins INS - - TCA novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . ANKRD26 NM_014915 exon15 c.1508_1509insTGA p.K503delinsMK . . 143.0 44.0 171.0 0.0 . 179 . 0.307692 0 none . . PASS Atlas-INDEL MGA 23269 hgsc.bcm.edu hg19 15 42041819 42041837 + Frame_Shift_Del DEL CTAATGTAATAAAACAAAA CTAATGTAATAAAACAAAA - novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 CTAATGTAATAAAACAAAA CTAATGTAATAAAACAAAA . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . MGA NM_001164273 exon17 c.6013_6031del p.2005_2011del . . 111.0 24.0 153.0 0.0 . 264 . 0.216216 0 none . . PASS Atlas-INDEL SETD2 29072 hgsc.bcm.edu hg19 3 47164114 47164114 + Frame_Shift_Del DEL A A - novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . SETD2 NM_014159 exon3 c.2013delA p.L671fs . . 85.0 70.0 102.0 0.0 . 721 . 0.823529 0 none . . PASS Atlas-INDEL NCAPD3 23310 hgsc.bcm.edu hg19 11 134038822 134038822 + Frame_Shift_Del DEL G G - novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . NCAPD3 NM_015261 exon25 c.3230delA p.Q1077fs . . 91.0 35.0 110.0 0.0 . 141 . 0.384615 0 none . . PASS Atlas-INDEL ZNF564 163050 hgsc.bcm.edu hg19 19 12639496 12639497 + Frame_Shift_Del DEL AG AG - novel TCGA-BQ-7061-01A-11D-1961-08 TCGA-BQ-7061-11A-01D-1961-08 AG AG . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ae48a526-0daa-42b6-b98e-1453e9dc631a 4968c132-2d26-4a31-ab07-6d7c154551de . ZNF564 NM_144976 exon2 c.18_19del p.6_7del . . 146.0 54.0 140.0 0.0 . 55 . 0.369863 0 none . . PASS Atlas-INDEL