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 XPO1 7514 hgsc.bcm.edu hg19 2 61709536 61709536 + Missense_Mutation SNP G G A novel TCGA-BQ-5891-01A-11D-1589-08 TCGA-BQ-5891-11A-01D-1589-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 37d4ff42-0161-4f83-bd6f-13eb19d4eabf 28824279-2be9-45db-867a-b165d8191d0c . XPO1 NM_003400 exon23 c.C2951T p.S984L AAGGCCGACTTAA . 128.0 12.0 156.0 0.0 . 108 . . . none . . PASS Atlas-SNP LRP1B 53353 hgsc.bcm.edu hg19 2 141643776 141643776 + Missense_Mutation SNP G G C novel TCGA-BQ-5891-01A-11D-1589-08 TCGA-BQ-5891-11A-01D-1589-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 37d4ff42-0161-4f83-bd6f-13eb19d4eabf 28824279-2be9-45db-867a-b165d8191d0c LRP1B,NS,carcinoma,0,1 LRP1B NM_018557 exon24 c.C3895G p.Q1299E AACTTTGATTGAA . 97.0 80.0 97.0 0.0 . 1315 . . . none . . PASS Atlas-SNP IQCF2 389123 hgsc.bcm.edu hg19 3 51897176 51897176 + Silent SNP C C A novel TCGA-BQ-5891-01A-11D-1589-08 TCGA-BQ-5891-11A-01D-1589-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 37d4ff42-0161-4f83-bd6f-13eb19d4eabf 28824279-2be9-45db-867a-b165d8191d0c . IQCF2 NM_203424 exon3 c.C285A p.A95A GATCGCCTACGCA . 92.0 4.0 89.0 0.0 . 21 . . . none . . PASS Atlas-SNP ACTL6A 86 hgsc.bcm.edu hg19 3 179304341 179304341 + Missense_Mutation SNP G G A novel TCGA-BQ-5891-01A-11D-1589-08 TCGA-BQ-5891-11A-01D-1589-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 37d4ff42-0161-4f83-bd6f-13eb19d4eabf 28824279-2be9-45db-867a-b165d8191d0c . ACTL6A NM_004301 exon13 c.G1130A p.R377Q GTATGCGGTTGAA . 61.0 53.0 75.0 0.0 . 43 . . . none . . PASS Atlas-SNP KLHL3 26249 hgsc.bcm.edu hg19 5 136963990 136963990 + Silent SNP G G A novel TCGA-BQ-5891-01A-11D-1589-08 TCGA-BQ-5891-11A-01D-1589-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 37d4ff42-0161-4f83-bd6f-13eb19d4eabf 28824279-2be9-45db-867a-b165d8191d0c . KLHL3 NM_017415 exon13 c.C1587T p.N529N ACCTGCGTTGCGC . 260.0 90.0 145.0 0.0 . 54 . . . none . . PASS Atlas-SNP PCDHGA1 56114 hgsc.bcm.edu hg19 5 140711928 140711928 + Silent SNP G G A novel TCGA-BQ-5891-01A-11D-1589-08 TCGA-BQ-5891-11A-01D-1589-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 37d4ff42-0161-4f83-bd6f-13eb19d4eabf 28824279-2be9-45db-867a-b165d8191d0c . PCDHGA1 NM_018912 exon1 c.G1677A p.A559A CAACGCGCCCGAG . 431.0 204.0 320.0 0.0 . 397 . . . none . . PASS Atlas-SNP DRD1 1812 hgsc.bcm.edu hg19 5 174870046 174870046 + Silent SNP G G A novel TCGA-BQ-5891-01A-11D-1589-08 TCGA-BQ-5891-11A-01D-1589-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 37d4ff42-0161-4f83-bd6f-13eb19d4eabf 28824279-2be9-45db-867a-b165d8191d0c . DRD1 NM_000794 exon2 c.C57T p.D19D AGAGAAGTCCCTC . 190.0 77.0 122.0 0.0 . 56 . . . none . . PASS Atlas-SNP UBR2 23304 hgsc.bcm.edu hg19 6 42657391 42657391 + Silent SNP G G A novel TCGA-BQ-5891-01A-11D-1589-08 TCGA-BQ-5891-11A-01D-1589-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 37d4ff42-0161-4f83-bd6f-13eb19d4eabf 28824279-2be9-45db-867a-b165d8191d0c . UBR2 NM_015255 exon46 c.G5109A p.E1703E TGGGGAGACCGAC . 393.0 351.0 495.0 0.0 . 134 . . . none . . PASS Atlas-SNP DOPEY1 23033 hgsc.bcm.edu hg19 6 83862077 83862077 + Silent SNP A A G novel TCGA-BQ-5891-01A-11D-1589-08 TCGA-BQ-5891-11A-01D-1589-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 37d4ff42-0161-4f83-bd6f-13eb19d4eabf 28824279-2be9-45db-867a-b165d8191d0c . DOPEY1 NM_015018 exon30 c.A6120G p.L2040L GACATTACTCTCT . 66.0 4.0 62.0 0.0 . 190 . . . none . . PASS Atlas-SNP USP45 85015 hgsc.bcm.edu hg19 6 99930682 99930682 + Missense_Mutation SNP C C A novel TCGA-BQ-5891-01A-11D-1589-08 TCGA-BQ-5891-11A-01D-1589-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 37d4ff42-0161-4f83-bd6f-13eb19d4eabf 28824279-2be9-45db-867a-b165d8191d0c . USP45 NM_001080481 exon8 c.G792T p.E264D TTCAGTCTCCTTC . 86.0 80.0 100.0 0.0 . 56 . . . none . . PASS Atlas-SNP IRF5 3663 hgsc.bcm.edu hg19 7 128587532 128587532 + Missense_Mutation SNP C C T novel TCGA-BQ-5891-01A-11D-1589-08 TCGA-BQ-5891-11A-01D-1589-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 37d4ff42-0161-4f83-bd6f-13eb19d4eabf 28824279-2be9-45db-867a-b165d8191d0c . IRF5 NM_001098629 exon6 c.C730T p.P244S AGCCTGCCCCCTG . 54.0 23.0 40.0 0.0 . 40 . . . none . . PASS Atlas-SNP SORCS1 114815 hgsc.bcm.edu hg19 10 108427534 108427534 + Missense_Mutation SNP T T C novel TCGA-BQ-5891-01A-11D-1589-08 TCGA-BQ-5891-11A-01D-1589-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 37d4ff42-0161-4f83-bd6f-13eb19d4eabf 28824279-2be9-45db-867a-b165d8191d0c . SORCS1 NM_001206572 exon17 c.A2216G p.N739S TGGCCATTGCTGT . 34.0 31.0 36.0 0.0 . 534 . . . none . . PASS Atlas-SNP OR52J3 119679 hgsc.bcm.edu hg19 11 5068288 5068288 + Missense_Mutation SNP A A T novel TCGA-BQ-5891-01A-11D-1589-08 TCGA-BQ-5891-11A-01D-1589-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 37d4ff42-0161-4f83-bd6f-13eb19d4eabf 28824279-2be9-45db-867a-b165d8191d0c OR52J3,NS,carcinoma,0,1 OR52J3 NM_001001916 exon1 c.A533T p.H178L TAGCCCATTCCTA . 117.0 112.0 163.0 0.0 . 77 . . . none . . PASS Atlas-SNP IL10RA 3587 hgsc.bcm.edu hg19 11 117866403 117866403 + Missense_Mutation SNP G G A rs145975996 bycluster TCGA-BQ-5891-01A-11D-1589-08 TCGA-BQ-5891-11A-01D-1589-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 37d4ff42-0161-4f83-bd6f-13eb19d4eabf 28824279-2be9-45db-867a-b165d8191d0c . IL10RA NM_001558 exon6 c.G788A p.R263Q GGCGCCGAAAGAA . 42.0 20.0 43.0 0.0 . 46 . . . weak G|1.000;A|0.000 0.000 PASS Atlas-SNP ARHGAP9 64333 hgsc.bcm.edu hg19 12 57869643 57869643 + Silent SNP G G T novel TCGA-BQ-5891-01A-11D-1589-08 TCGA-BQ-5891-11A-01D-1589-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 37d4ff42-0161-4f83-bd6f-13eb19d4eabf 28824279-2be9-45db-867a-b165d8191d0c . ARHGAP9 NM_001080157 exon9 c.C1284A p.R428R CAGCGCGCGGTGC . 65.0 4.0 31.0 0.0 . 79 . . . none . . PASS Atlas-SNP EFHA1 221154 hgsc.bcm.edu hg19 13 22088516 22088516 + Silent SNP C C T novel TCGA-BQ-5891-01A-11D-1589-08 TCGA-BQ-5891-11A-01D-1589-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 37d4ff42-0161-4f83-bd6f-13eb19d4eabf 28824279-2be9-45db-867a-b165d8191d0c . EFHA1 NM_152726 exon7 c.G639A p.V213V AGTTTTCACTGTC . 93.0 9.0 98.0 0.0 . 33 . . . none . . PASS Atlas-SNP KL 9365 hgsc.bcm.edu hg19 13 33591076 33591076 + Silent SNP C C T novel TCGA-BQ-5891-01A-11D-1589-08 TCGA-BQ-5891-11A-01D-1589-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 37d4ff42-0161-4f83-bd6f-13eb19d4eabf 28824279-2be9-45db-867a-b165d8191d0c . KL NM_004795 exon1 c.C498T p.N166N CCCCAACCGCGAG . 18.0 6.0 23.0 0.0 . 106 . . . none . . PASS Atlas-SNP RANBP10 57610 hgsc.bcm.edu hg19 16 67840335 67840335 + Silent SNP C C T novel TCGA-BQ-5891-01A-11D-1589-08 TCGA-BQ-5891-11A-01D-1589-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 37d4ff42-0161-4f83-bd6f-13eb19d4eabf 28824279-2be9-45db-867a-b165d8191d0c . RANBP10 NM_020850 exon1 c.G105A p.L35L CCGGCTCAGCTCC . 18.0 6.0 14.0 0.0 . 56 . . . none . . PASS Atlas-SNP AKAP10 11216 hgsc.bcm.edu hg19 17 19861611 19861611 + Missense_Mutation SNP A A G novel TCGA-BQ-5891-01A-11D-1589-08 TCGA-BQ-5891-11A-01D-1589-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 37d4ff42-0161-4f83-bd6f-13eb19d4eabf 28824279-2be9-45db-867a-b165d8191d0c . AKAP10 NM_007202 exon4 c.T593C p.F198S GTTAAAAAAGACG . 99.0 49.0 73.0 0.0 . 47 . . . none . . PASS Atlas-SNP MUC16 94025 hgsc.bcm.edu hg19 19 9065718 9065718 + Missense_Mutation SNP G G T novel TCGA-BQ-5891-01A-11D-1589-08 TCGA-BQ-5891-11A-01D-1589-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 37d4ff42-0161-4f83-bd6f-13eb19d4eabf 28824279-2be9-45db-867a-b165d8191d0c . MUC16 NM_024690 exon3 c.C21728A p.S7243Y CTCAGGGAGGAAA . 220.0 16.0 198.0 0.0 . 4315 . . . none . . PASS Atlas-SNP LOC643669 0 hgsc.bcm.edu hg19 19 39401467 39401467 + Missense_Mutation SNP C C G novel TCGA-BQ-5891-01A-11D-1589-08 TCGA-BQ-5891-11A-01D-1589-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 37d4ff42-0161-4f83-bd6f-13eb19d4eabf 28824279-2be9-45db-867a-b165d8191d0c . . NM_001243212 exon4 c.G447C p.E149D AAAGGTCTCCATG . 5.0 5.0 4.0 0.0 . . . . . none . . PASS Atlas-SNP ZNF761 388561 hgsc.bcm.edu hg19 19 53958709 53958709 + Missense_Mutation SNP T T A novel TCGA-BQ-5891-01A-11D-1589-08 TCGA-BQ-5891-11A-01D-1589-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 37d4ff42-0161-4f83-bd6f-13eb19d4eabf 28824279-2be9-45db-867a-b165d8191d0c . ZNF761 NM_001008401 exon7 c.T948A p.H316Q AAGACATAGGATA . 114.0 97.0 114.0 0.0 . 104 . . . none . . PASS Atlas-SNP ZNF761 388561 hgsc.bcm.edu hg19 19 53958711 53958711 + Missense_Mutation SNP G G A novel TCGA-BQ-5891-01A-11D-1589-08 TCGA-BQ-5891-11A-01D-1589-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 37d4ff42-0161-4f83-bd6f-13eb19d4eabf 28824279-2be9-45db-867a-b165d8191d0c . ZNF761 NM_001008401 exon7 c.G950A p.R317K GACATAGGATAAT . 114.0 98.0 115.0 0.0 . 104 . . . none . . PASS Atlas-SNP GGTLC1 92086 hgsc.bcm.edu hg19 20 23967129 23967129 + Silent SNP C C T novel TCGA-BQ-5891-01A-11D-1589-08 TCGA-BQ-5891-11A-01D-1589-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 37d4ff42-0161-4f83-bd6f-13eb19d4eabf 28824279-2be9-45db-867a-b165d8191d0c . GGTLC1 NM_178311 exon2 c.G120A p.L40L CACAGACAGGTGA . 101.0 56.0 56.0 0.0 . 37 . . . none . . PASS Atlas-SNP TMPRSS15 5651 hgsc.bcm.edu hg19 21 19685347 19685347 + Silent SNP T T G rs111276490 alternate_allele TCGA-BQ-5891-01A-11D-1589-08 TCGA-BQ-5891-11A-01D-1589-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 37d4ff42-0161-4f83-bd6f-13eb19d4eabf 28824279-2be9-45db-867a-b165d8191d0c . TMPRSS15 NM_002772 exon18 c.A2080C p.R694R GGATTCTGAACCG . 114.0 107.0 119.0 0.0 . 189 . . . alt T|0.500;C|0.500 . PASS Atlas-SNP CCDC116 164592 hgsc.bcm.edu hg19 22 21989095 21989095 + Nonsense_Mutation SNP C C G novel TCGA-BQ-5891-01A-11D-1589-08 TCGA-BQ-5891-11A-01D-1589-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 37d4ff42-0161-4f83-bd6f-13eb19d4eabf 28824279-2be9-45db-867a-b165d8191d0c . CCDC116 NM_152612 exon4 c.C743G p.S248X TGGGCTCAAGCTC . 181.0 8.0 171.0 0.0 . 56 . . . none . . PASS Atlas-SNP ATP8 0 hgsc.bcm.edu hg19 MT 8368 8368 + Silent SNP G G A novel TCGA-BQ-5891-01A-11D-1589-08 TCGA-BQ-5891-11A-01D-1589-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 37d4ff42-0161-4f83-bd6f-13eb19d4eabf 28824279-2be9-45db-867a-b165d8191d0c . . ENST00000361851 exon1 c.G3A p.M1M TGAAATGCCCCAA . 14.0 9.0 18.0 0.0 . . . . . none . . PASS Atlas-SNP SETD2 29072 hgsc.bcm.edu hg19 3 47162849 47162850 + Frame_Shift_Del DEL TT TT - novel TCGA-BQ-5891-01A-11D-1589-08 TCGA-BQ-5891-11A-01D-1589-08 TT TT . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 37d4ff42-0161-4f83-bd6f-13eb19d4eabf 28824279-2be9-45db-867a-b165d8191d0c . SETD2 NM_014159 exon3 c.3277_3278del p.1093_1093del . . 141.0 121.0 167.0 0.0 . 721 . 0.858156 0 none . . PASS Atlas-INDEL