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 LRP1B 53353 hgsc.bcm.edu hg19 2 141122239 141122239 + Missense_Mutation SNP C C A rs200747526 bycluster;by1000genomes;alternate_allele TCGA-KV-A74V-01A-11D-A33Q-10 TCGA-KV-A74V-10A-01D-A33Q-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq df25a569-f993-4bbe-9766-cdc2a7c40750 9a716ea4-aa7c-4d1a-b9ec-9fb71edb7024 . LRP1B NM_018557 exon72 c.G11122T p.D3708Y ACATATCAGGGGC . 258.0 27.0 233.0 0.0 . 1315 . . . alt C|1.000;G|0.000 . PASS Atlas-SNP DHRS9 10170 hgsc.bcm.edu hg19 2 169952139 169952139 + Missense_Mutation SNP T T G novel TCGA-KV-A74V-01A-11D-A33Q-10 TCGA-KV-A74V-10A-01D-A33Q-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq df25a569-f993-4bbe-9766-cdc2a7c40750 9a716ea4-aa7c-4d1a-b9ec-9fb71edb7024 . DHRS9 NM_005771 exon8 c.T822G p.S274R AACAAGTCTCTTC . 275.0 181.0 220.0 0.0 . 29 . . . none . . PASS Atlas-SNP UNC80 285175 hgsc.bcm.edu hg19 2 210636827 210636827 + Nonsense_Mutation SNP G G T novel TCGA-KV-A74V-01A-11D-A33Q-10 TCGA-KV-A74V-10A-01D-A33Q-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq df25a569-f993-4bbe-9766-cdc2a7c40750 9a716ea4-aa7c-4d1a-b9ec-9fb71edb7024 . UNC80 NM_182587 exon1 c.G31T p.E11X GGCCAGGAGCAGG . 321.0 37.0 273.0 0.0 . 280 . . . none . . PASS Atlas-SNP TTLL4 9654 hgsc.bcm.edu hg19 2 219617904 219617904 + Missense_Mutation SNP C C A novel TCGA-KV-A74V-01A-11D-A33Q-10 TCGA-KV-A74V-10A-01D-A33Q-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq df25a569-f993-4bbe-9766-cdc2a7c40750 9a716ea4-aa7c-4d1a-b9ec-9fb71edb7024 . TTLL4 NM_014640 exon18 c.C3254A p.P1085Q CTGCTCCAGTGGT . 65.0 40.0 68.0 0.0 . 96 . . . none . . PASS Atlas-SNP LYAR 55646 hgsc.bcm.edu hg19 4 4270271 4270271 + Nonsense_Mutation SNP T T A novel TCGA-KV-A74V-01A-11D-A33Q-10 TCGA-KV-A74V-10A-01D-A33Q-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq df25a569-f993-4bbe-9766-cdc2a7c40750 9a716ea4-aa7c-4d1a-b9ec-9fb71edb7024 . LYAR NM_017816 exon9 c.A991T p.K331X TTAGCTTTTTGAT . 62.0 9.0 89.0 0.0 . 36 . . . none . . PASS Atlas-SNP SULT1B1 27284 hgsc.bcm.edu hg19 4 70620844 70620844 + Missense_Mutation SNP A A G novel TCGA-KV-A74V-01A-11D-A33Q-10 TCGA-KV-A74V-10A-01D-A33Q-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq df25a569-f993-4bbe-9766-cdc2a7c40750 9a716ea4-aa7c-4d1a-b9ec-9fb71edb7024 . SULT1B1 NM_014465 exon2 c.T92C p.I31T TGTTCAATTTTTT . 98.0 10.0 106.0 0.0 . 46 . . . none . . PASS Atlas-SNP ATOH1 474 hgsc.bcm.edu hg19 4 94750489 94750489 + Missense_Mutation SNP G G T novel TCGA-KV-A74V-01A-11D-A33Q-10 TCGA-KV-A74V-10A-01D-A33Q-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq df25a569-f993-4bbe-9766-cdc2a7c40750 9a716ea4-aa7c-4d1a-b9ec-9fb71edb7024 . ATOH1 NM_005172 exon1 c.G412T p.D138Y GTGGTAGACGAGC . 101.0 48.0 114.0 0.0 . 40 . . . none . . PASS Atlas-SNP LPL 4023 hgsc.bcm.edu hg19 8 19813385 19813385 + Missense_Mutation SNP G G A rs118204062 TCGA-KV-A74V-01A-11D-A33Q-10 TCGA-KV-A74V-10A-01D-A33Q-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq df25a569-f993-4bbe-9766-cdc2a7c40750 9a716ea4-aa7c-4d1a-b9ec-9fb71edb7024 . LPL NM_000237 exon6 c.G809A p.R270H ACGAGCGCTCCAT . 86.0 25.0 83.0 0.0 . 78 . . . weak . . PASS Atlas-SNP ZFAND1 79752 hgsc.bcm.edu hg19 8 82615255 82615255 + Missense_Mutation SNP A A T novel TCGA-KV-A74V-01A-11D-A33Q-10 TCGA-KV-A74V-10A-01D-A33Q-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq df25a569-f993-4bbe-9766-cdc2a7c40750 9a716ea4-aa7c-4d1a-b9ec-9fb71edb7024 . ZFAND1 NM_001170797 exon7 c.T585A p.F195L AGCGGCAAAGTCT . 135.0 49.0 160.0 0.0 . 29 . . . none . . PASS Atlas-SNP PSD 5662 hgsc.bcm.edu hg19 10 104173691 104173691 + Missense_Mutation SNP G G T novel TCGA-KV-A74V-01A-11D-A33Q-10 TCGA-KV-A74V-10A-01D-A33Q-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq df25a569-f993-4bbe-9766-cdc2a7c40750 9a716ea4-aa7c-4d1a-b9ec-9fb71edb7024 . PSD NM_001270965 exon6 c.C1388A p.P463H TCAAGAGGGGCAA . 103.0 38.0 147.0 0.0 . 164 . . . none . . PASS Atlas-SNP PSD 5662 hgsc.bcm.edu hg19 10 104173704 104173704 + Missense_Mutation SNP C C T novel TCGA-KV-A74V-01A-11D-A33Q-10 TCGA-KV-A74V-10A-01D-A33Q-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq df25a569-f993-4bbe-9766-cdc2a7c40750 9a716ea4-aa7c-4d1a-b9ec-9fb71edb7024 . PSD NM_001270965 exon6 c.G1375A p.A459T GTGGGGCGGGAGC . 99.0 40.0 134.0 0.0 . 164 . . . none . . PASS Atlas-SNP C11orf95 65998 hgsc.bcm.edu hg19 11 63533337 63533337 + Silent SNP C C T novel TCGA-KV-A74V-01A-11D-A33Q-10 TCGA-KV-A74V-10A-01D-A33Q-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq df25a569-f993-4bbe-9766-cdc2a7c40750 9a716ea4-aa7c-4d1a-b9ec-9fb71edb7024 . . NM_001144936 exon2 c.G579A p.E193E TTCTTCCTCCTCC . 25.0 4.0 19.0 0.0 . . . . . none . . PASS Atlas-SNP MAP1A 4130 hgsc.bcm.edu hg19 15 43819753 43819753 + Missense_Mutation SNP T T G novel TCGA-KV-A74V-01A-11D-A33Q-10 TCGA-KV-A74V-10A-01D-A33Q-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq df25a569-f993-4bbe-9766-cdc2a7c40750 9a716ea4-aa7c-4d1a-b9ec-9fb71edb7024 . MAP1A NM_002373 exon4 c.T6082G p.S2028A CTCCAGTCTGACA . 47.0 26.0 55.0 0.0 . 189 . . . none . . PASS Atlas-SNP RTTN 25914 hgsc.bcm.edu hg19 18 67816232 67816232 + Silent SNP G G T novel TCGA-KV-A74V-01A-11D-A33Q-10 TCGA-KV-A74V-10A-01D-A33Q-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq df25a569-f993-4bbe-9766-cdc2a7c40750 9a716ea4-aa7c-4d1a-b9ec-9fb71edb7024 . RTTN NM_173630 exon17 c.C2214A p.L738L TAGAAGGAGAATG . 71.0 12.0 117.0 0.0 . 184 . . . none . . PASS Atlas-SNP HUNK 30811 hgsc.bcm.edu hg19 21 33371184 33371184 + Missense_Mutation SNP T T A novel TCGA-KV-A74V-01A-11D-A33Q-10 TCGA-KV-A74V-10A-01D-A33Q-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq df25a569-f993-4bbe-9766-cdc2a7c40750 9a716ea4-aa7c-4d1a-b9ec-9fb71edb7024 . HUNK NM_014586 exon11 c.T1832A p.L611H CGCCTCTCCATAC . 41.0 34.0 101.0 0.0 . 74 . . . none . . PASS Atlas-SNP BRD1 23774 hgsc.bcm.edu hg19 22 50170697 50170697 + Missense_Mutation SNP C C T novel TCGA-KV-A74V-01A-11D-A33Q-10 TCGA-KV-A74V-10A-01D-A33Q-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq df25a569-f993-4bbe-9766-cdc2a7c40750 9a716ea4-aa7c-4d1a-b9ec-9fb71edb7024 . BRD1 NM_014577 exon9 c.G2713A p.A905T TCCTGGCCGCCTT . 80.0 35.0 83.0 0.0 . 144 . . . none . . PASS Atlas-SNP NEFH 4744 hgsc.bcm.edu hg19 22 29885585 29885586 + In_Frame_Ins INS - - AAGTCCCCTGAGAAGGCC novel TCGA-KV-A74V-01A-11D-A33Q-10 TCGA-KV-A74V-10A-01D-A33Q-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq df25a569-f993-4bbe-9766-cdc2a7c40750 9a716ea4-aa7c-4d1a-b9ec-9fb71edb7024 .,1 NEFH NM_021076 exon4 c.1956_1957insAAGTCCCCTGAGAAGGCC p.A652delinsAKSPEKA . . 142.0 33.0 142.0 0.0 . 178 . 0.232394 0 none . . PASS Atlas-INDEL AFF1 4299 hgsc.bcm.edu hg19 4 88048262 88048262 + Frame_Shift_Del DEL T T - novel TCGA-KV-A74V-01A-11D-A33Q-10 TCGA-KV-A74V-10A-01D-A33Q-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq df25a569-f993-4bbe-9766-cdc2a7c40750 9a716ea4-aa7c-4d1a-b9ec-9fb71edb7024 . AFF1 NM_001166693 exon15 c.2895delG p.K965fs . . 61.0 25.0 69.0 0.0 . 102 . 0.409836 0 none . . PASS Atlas-Indel,Pindel ARHGEF38 54848 hgsc.bcm.edu hg19 4 106473951 106473951 + Frame_Shift_Del DEL A A - novel TCGA-KV-A74V-01A-11D-A33Q-10 TCGA-KV-A74V-10A-01D-A33Q-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq df25a569-f993-4bbe-9766-cdc2a7c40750 9a716ea4-aa7c-4d1a-b9ec-9fb71edb7024 . ARHGEF38 NM_017700 exon1 c.28delG p.E10fs . . 83.0 13.0 89.0 0.0 . 52 . 0.156627 0 none . . PASS Atlas-Indel,Pindel TSC2 7249 hgsc.bcm.edu hg19 16 2135239 2135240 + Frame_Shift_Ins INS - - T novel TCGA-KV-A74V-01A-11D-A33Q-10 TCGA-KV-A74V-10A-01D-A33Q-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq df25a569-f993-4bbe-9766-cdc2a7c40750 9a716ea4-aa7c-4d1a-b9ec-9fb71edb7024 . TSC2 NM_000548 exon36 c.4578_4579insT p.S1526fs . . 93.0 10.0 76.0 0.0 . 364 . 0.107527 0 none . . PASS Atlas-INDEL