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 AKR1A1 10327 hgsc.bcm.edu hg19 1 46034873 46034873 + Missense_Mutation SNP A A G novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . AKR1A1 NM_001202413 exon9 c.A884G p.N295S ACAAAAATTGGAG . 112.0 37.0 113.0 0.0 . 25 . . . none . . PASS Atlas-SNP PEAR1 375033 hgsc.bcm.edu hg19 1 156878561 156878561 + Silent SNP C C T novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . PEAR1 NM_001080471 exon10 c.C1230T p.C410C TCTCTGCCTGCAC . 51.0 12.0 94.0 0.0 . 118 . . . none . . PASS Atlas-SNP SUCO 51430 hgsc.bcm.edu hg19 1 172543034 172543034 + Missense_Mutation SNP T T A novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . . NM_014283 exon10 c.T1053A p.F351L AAGGTTTGTTATT . 61.0 15.0 25.0 0.0 . . . . . none . . PASS Atlas-SNP USH2A 7399 hgsc.bcm.edu hg19 1 216495239 216495239 + Missense_Mutation SNP T T A novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . USH2A NM_007123 exon9 c.A1630T p.T544S CTTCAGTGAAGCT . 113.0 42.0 72.0 0.0 . 1168 . . . none . . PASS Atlas-SNP NUP133 55746 hgsc.bcm.edu hg19 1 229631660 229631660 + Missense_Mutation SNP T T A novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . NUP133 NM_018230 exon7 c.A954T p.E318D AATGTTTTCCTTC . 33.0 13.0 21.0 0.0 . 111 . . . none . . PASS Atlas-SNP PREPL 9581 hgsc.bcm.edu hg19 2 44549877 44549877 + Silent SNP T T C novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . PREPL NM_001171603 exon13 c.A2013G p.T671T TTCACCTGTGTCC . 95.0 35.0 54.0 0.0 . 69 . . . none . . PASS Atlas-SNP GPD2 2820 hgsc.bcm.edu hg19 2 157407170 157407170 + Missense_Mutation SNP G G A novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . GPD2 NM_001083112 exon8 c.G883A p.D295N TTCACGGACTCTG . 65.0 20.0 54.0 0.0 . 59 . . . none . . PASS Atlas-SNP ABCB6 10058 hgsc.bcm.edu hg19 2 220081117 220081117 + Missense_Mutation SNP C C G novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . ABCB6 NM_005689 exon4 c.G939C p.K313N GAGGAACTTGAGG . 151.0 46.0 144.0 0.0 . 76 . . . none . . PASS Atlas-SNP KIF1A 547 hgsc.bcm.edu hg19 2 241689964 241689964 + Silent SNP C C T novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . KIF1A NM_001244008 exon28 c.G2859A p.R953R GAAGGCCCTGGGG . 88.0 29.0 135.0 0.0 . 152 . . . none . . PASS Atlas-SNP RBM6 10180 hgsc.bcm.edu hg19 3 50103677 50103677 + Silent SNP T T G novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . RBM6 NM_005777 exon17 c.T2685G p.P895P CCAGCCTAAAGTG . 72.0 25.0 77.0 0.0 . 85 . . . none . . PASS Atlas-SNP HERC6 55008 hgsc.bcm.edu hg19 4 89361324 89361324 + Missense_Mutation SNP C C A novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . HERC6 NM_017912 exon22 c.C2764A p.Q922K GGATACCAAAAAT . 152.0 52.0 109.0 0.0 . 104 . . . none . . PASS Atlas-SNP CMYA5 202333 hgsc.bcm.edu hg19 5 79025276 79025276 + Missense_Mutation SNP A A C rs114327893 bycluster;by1000genomes;alternate_allele TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . CMYA5 NM_153610 exon2 c.A688C p.K230Q AAAATTAAGATGT . 264.0 85.0 134.0 0.0 . 643 . . . alt A|0.999;G|0.001 . PASS Atlas-SNP GPR98 84059 hgsc.bcm.edu hg19 5 90073763 90073763 + Missense_Mutation SNP T T G novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . GPR98 NM_032119 exon62 c.T12569G p.F4190C CAGTGTTCTGGAG . 127.0 57.0 96.0 0.0 . 605 . . . none . . PASS Atlas-SNP ZNF318 24149 hgsc.bcm.edu hg19 6 43305308 43305308 + Missense_Mutation SNP G G A novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . ZNF318 NM_014345 exon10 c.C6428T p.S2143F AATTGGGAAGATT . 89.0 32.0 77.0 0.0 . 175 . . . none . . PASS Atlas-SNP CDC5L 988 hgsc.bcm.edu hg19 6 44392211 44392211 + Missense_Mutation SNP A A G novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . CDC5L NM_001253 exon11 c.A1460G p.K487R CCCCTAAGAATGA . 117.0 39.0 78.0 0.0 . 86 . . . none . . PASS Atlas-SNP SYNJ2 8871 hgsc.bcm.edu hg19 6 158504535 158504535 + Silent SNP G G A novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . SYNJ2 NM_003898 exon21 c.G2940A p.R980R CATTCGGAAACGA . 76.0 26.0 99.0 0.0 . 111 . . . none . . PASS Atlas-SNP FAM20C 56975 hgsc.bcm.edu hg19 7 208977 208977 + Splice_Site SNP G G A novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . FAM20C NM_020223 exon3 c.863+1G>A . CATGAAGTAAGTG . 49.0 12.0 95.0 0.0 . 18 . . . none . . PASS Atlas-SNP SLC4A2 6522 hgsc.bcm.edu hg19 7 150771852 150771852 + Missense_Mutation SNP G G A novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . SLC4A2 NM_003040 exon19 c.G2971A p.V991M TTCCCTGTGTGGA . 73.0 24.0 92.0 0.0 . 98 . . . none . . PASS Atlas-SNP PTK2 5747 hgsc.bcm.edu hg19 8 141669756 141669756 + Silent SNP A A G novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . PTK2 NM_005607 exon32 c.T3034C p.L1012L AGTTCAATAGCTT . 121.0 42.0 90.0 0.0 . 311 . . . none . . PASS Atlas-SNP GAPVD1 26130 hgsc.bcm.edu hg19 9 128116940 128116940 + Missense_Mutation SNP G G A novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . GAPVD1 NM_015635 exon23 c.G3658A p.A1220T AAAAGAGCCCCAT . 82.0 25.0 61.0 0.0 . 124 . . . none . . PASS Atlas-SNP LAMC3 10319 hgsc.bcm.edu hg19 9 133884789 133884789 + Missense_Mutation SNP C C A novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . LAMC3 NM_006059 exon1 c.C188A p.P63H TCTGTCCCCACGT . 46.0 21.0 76.0 0.0 . 167 . . . none . . PASS Atlas-SNP OR51D1 390038 hgsc.bcm.edu hg19 11 4661150 4661150 + Missense_Mutation SNP C C A novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . OR51D1 NM_001004751 exon1 c.C130A p.L44M TTCCCACTGTGTT . 72.0 21.0 82.0 0.0 . 49 . . . none . . PASS Atlas-SNP OR52E2 119678 hgsc.bcm.edu hg19 11 5080608 5080608 + Missense_Mutation SNP G G A novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . OR52E2 NM_001005164 exon1 c.C250T p.L84F TTCCAAGCATCTT . 126.0 40.0 91.0 0.0 . 63 . . . none . . PASS Atlas-SNP OR52E2 119678 hgsc.bcm.edu hg19 11 5080609 5080609 + Missense_Mutation SNP C C T rs369925067 alternate_allele TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . OR52E2 NM_001005164 exon1 c.G249A p.M83I TCCAAGCATCTTA . 126.0 40.0 93.0 0.0 . 63 . . . alt . . PASS Atlas-SNP MYBPC3 4607 hgsc.bcm.edu hg19 11 47373013 47373013 + Silent SNP T T C novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . MYBPC3 NM_000256 exon2 c.A69G p.A23A GCTGCCTGCGGCC . 22.0 4.0 49.0 0.0 . 102 . . . none . . PASS Atlas-SNP GRM5 2915 hgsc.bcm.edu hg19 11 88300498 88300498 + Missense_Mutation SNP A A T novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . GRM5 NM_000842 exon8 c.T2353A p.W785R CTAGCCATATAAT . 56.0 18.0 59.0 0.0 . 414 . . . none . . PASS Atlas-SNP MAML2 84441 hgsc.bcm.edu hg19 11 95826314 95826314 + Missense_Mutation SNP C C G novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . MAML2 NM_032427 exon2 c.G881C p.G294A TCGTCTCCGTACC . 82.0 31.0 55.0 0.0 . 94 . . . none . . PASS Atlas-SNP MAML2 84441 hgsc.bcm.edu hg19 11 95826315 95826315 + Nonsense_Mutation SNP C C A rs369905258 alternate_allele TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . MAML2 NM_032427 exon2 c.G880T p.G294X CGTCTCCGTACCT . 80.0 28.0 55.0 0.0 . 94 . . . alt . . PASS Atlas-SNP ITGA5 3678 hgsc.bcm.edu hg19 12 54801981 54801981 + Missense_Mutation SNP A A T novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . ITGA5 NM_002205 exon7 c.T730A p.S244T AATAAGATTCTGC . 53.0 24.0 69.0 0.0 . 99 . . . none . . PASS Atlas-SNP BAZ2A 11176 hgsc.bcm.edu hg19 12 56992544 56992544 + Missense_Mutation SNP G G A novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . BAZ2A NM_013449 exon29 c.C5576T p.A1859V TCAGCCGCAAACT . 50.0 15.0 60.0 0.0 . 263 . . . none . . PASS Atlas-SNP ATP6V0A2 23545 hgsc.bcm.edu hg19 12 124236887 124236887 + Nonsense_Mutation SNP C C T novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . ATP6V0A2 NM_012463 exon17 c.C2113T p.Q705X GGAAGCCAAGATA . 116.0 38.0 83.0 0.0 . 68 . . . none . . PASS Atlas-SNP HECTD1 25831 hgsc.bcm.edu hg19 14 31637663 31637663 + Missense_Mutation SNP G G A novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . HECTD1 NM_015382 exon10 c.C1463T p.P488L TTAACTGGACACA . 65.0 25.0 50.0 0.0 . 159 . . . none . . PASS Atlas-SNP NAA30 122830 hgsc.bcm.edu hg19 14 57857993 57857993 + Silent SNP G G C novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . NAA30 NM_001011713 exon2 c.G318C p.L106L GGTCCTGAGCGTA . 107.0 33.0 146.0 0.0 . 30 . . . none . . PASS Atlas-SNP ZFYVE1 53349 hgsc.bcm.edu hg19 14 73442299 73442299 + Missense_Mutation SNP T T C novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . ZFYVE1 NM_021260 exon9 c.A1766G p.Q589R GCGATCTGGTCTG . 78.0 26.0 90.0 0.0 . 67 . . . none . . PASS Atlas-SNP C15orf62 643338 hgsc.bcm.edu hg19 15 41063134 41063134 + Silent SNP C C T novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . C15orf62 NM_001130448 exon1 c.C441T p.L147L CTTCCTCTCCTTC . 71.0 22.0 101.0 0.0 . 3 . . . none . . PASS Atlas-SNP SSTR5 6755 hgsc.bcm.edu hg19 16 1129708 1129708 + Silent SNP C C T novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . SSTR5 NM_001172560 exon2 c.C840T p.P280P GGAGCCCGCCTCC . 98.0 46.0 64.0 0.0 . 36 . . . none . . PASS Atlas-SNP GRIN2A 2903 hgsc.bcm.edu hg19 16 10031887 10031887 + Silent SNP G G A novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . GRIN2A NM_000833 exon4 c.C936T p.Y312Y GGGGATGTAGGAG . 143.0 78.0 94.0 0.0 . 366 . . . none . . PASS Atlas-SNP KARS 3735 hgsc.bcm.edu hg19 16 75662551 75662551 + Silent SNP C C T novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . KARS NM_001130089 exon14 c.G1695A p.L565L ATATTCCAGGGCA . 129.0 72.0 89.0 0.0 . 77 . . . none . . PASS Atlas-SNP RAP1GAP2 23108 hgsc.bcm.edu hg19 17 2888281 2888281 + Missense_Mutation SNP C C A novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . RAP1GAP2 NM_015085 exon11 c.C734A p.S245Y AGGCCTCCCAAAT . 62.0 20.0 49.0 0.0 . 90 . . . none . . PASS Atlas-SNP FBF1 85302 hgsc.bcm.edu hg19 17 73916469 73916469 + Missense_Mutation SNP G G C novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . FBF1 NM_001080542 exon17 c.C1671G p.S557R TTCTGTGCTCGGC . 107.0 32.0 170.0 0.0 . 48 . . . none . . PASS Atlas-SNP TNRC6C 57690 hgsc.bcm.edu hg19 17 76087521 76087521 + Missense_Mutation SNP C C G novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . TNRC6C NM_018996 exon15 c.C3803G p.A1268G CTTTAGCTGGACT . 91.0 35.0 83.0 0.0 . 173 . . . none . . PASS Atlas-SNP USP36 57602 hgsc.bcm.edu hg19 17 76802272 76802272 + Missense_Mutation SNP C C T novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . USP36 NM_025090 exon15 c.G2182A p.V728I CAACGACGGGGTG . 68.0 17.0 98.0 0.0 . 243 . . . none . . PASS Atlas-SNP PTPRM 5797 hgsc.bcm.edu hg19 18 7774145 7774145 + Splice_Site SNP A A C novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . PTPRM NM_002845 exon2 c.74-2A>C . CATTTTAGGTGGC . 82.0 26.0 64.0 0.0 . 185 . . . none . . PASS Atlas-SNP EPG5 57724 hgsc.bcm.edu hg19 18 43503240 43503240 + Missense_Mutation SNP C C T novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . EPG5 NM_020964 exon15 c.G2832A p.M944I CTGCTTCATACTT . 34.0 11.0 32.0 0.0 . 199 . . . none . . PASS Atlas-SNP DSEL 92126 hgsc.bcm.edu hg19 18 65179563 65179563 + Silent SNP A A G novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . DSEL NM_032160 exon2 c.T2313C p.H771H CCTATCATGTCTT . 87.0 33.0 70.0 0.0 . 196 . . . none . . PASS Atlas-SNP CNDP2 55748 hgsc.bcm.edu hg19 18 72186228 72186228 + Missense_Mutation SNP C C T novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . CNDP2 NM_018235 exon11 c.C1255T p.P419S AGTATTCCCGTGA . 108.0 31.0 131.0 0.0 . 55 . . . none . . PASS Atlas-SNP OXT 5020 hgsc.bcm.edu hg19 20 3052889 3052889 + Missense_Mutation SNP G G A novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e OXT,NS,carcinoma,0,1 OXT NM_000915 exon2 c.G287A p.G96D GCGGGGGCCGCTG . 235.0 75.0 434.0 0.0 . 9 . . . none . . PASS Atlas-SNP HELZ2 85441 hgsc.bcm.edu hg19 20 62199985 62199985 + Missense_Mutation SNP C C T novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . . NM_001037335 exon6 c.G1456A p.D486N GTGTGTCCACTGC . 51.0 16.0 47.0 0.0 . . . . . none . . PASS Atlas-SNP PNPLA5 150379 hgsc.bcm.edu hg19 22 44287719 44287719 + Missense_Mutation SNP G G T novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . PNPLA5 NM_138814 exon1 c.C42A p.F14L GCCGGAGAAGGAC . 206.0 11.0 347.0 0.0 . 46 . . . none . . PASS Atlas-SNP SLC9A7 84679 hgsc.bcm.edu hg19 X 46541773 46541773 + Missense_Mutation SNP T T C novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . SLC9A7 NM_001257291 exon2 c.A523G p.K175E TCACCTTCCGTAG . 60.0 30.0 51.0 0.0 . 73 . . . none . . PASS Atlas-SNP IQSEC2 23096 hgsc.bcm.edu hg19 X 53350189 53350189 + Missense_Mutation SNP C C T novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . IQSEC2 NM_001111125 exon1 c.G133A p.E45K GCTCCTCGATGCG . 46.0 19.0 97.0 0.0 . 195 . . . none . . PASS Atlas-SNP ND4L 0 hgsc.bcm.edu hg19 MT 10535 10535 + Silent SNP T T C novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . . ENST00000361335 exon1 c.T66C p.Y22Y AGTATATCGCTCA . 8.0 6.0 27.0 0.0 . . . . . none . . PASS Atlas-SNP PTEN 5728 hgsc.bcm.edu hg19 10 89624274 89624274 + Frame_Shift_Del DEL T T - novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e PTEN,NS,adenocarcinoma,-1,1 PTEN NM_000314 exon1 c.47delA p.Y16fs . . 64.0 39.0 58.0 0.0 . 3652 . 0.609375 0 none . . PASS Atlas-Indel,Pindel GAPVD1 26130 hgsc.bcm.edu hg19 9 128116938 128116939 + Frame_Shift_Ins INS - - A novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . GAPVD1 NM_015635 exon23 c.3656_3657insA p.R1219fs . . 79.0 23.0 60.0 0.0 . 124 . 0.291139 0 none . . PASS Atlas-INDEL NUP133 55746 hgsc.bcm.edu hg19 1 229631662 229631662 + Frame_Shift_Del DEL C C - novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . NUP133 NM_018230 exon7 c.953delA p.E318fs . . 34.0 14.0 20.0 0.0 . 111 . 0.411765 0 none . . PASS Atlas-INDEL KIF26A 26153 hgsc.bcm.edu hg19 14 104641420 104641420 + Frame_Shift_Del DEL C C - novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . KIF26A NM_015656 exon12 c.2294delA p.D765fs . . 66.0 22.0 113.0 0.0 . 84 . 0.333333 0 none . . PASS Atlas-Indel,Pindel EXTL1 2134 hgsc.bcm.edu hg19 1 26358007 26358007 + Frame_Shift_Del DEL C C - novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . EXTL1 NM_004455 exon6 c.1290delG p.Q430fs . . 118.0 43.0 168.0 0.0 . 61 . 0.364407 0 none . . PASS Atlas-Indel,Pindel GDAP2 54834 hgsc.bcm.edu hg19 1 118420604 118420614 + Frame_Shift_Del DEL TGAGGGAGAAC TGAGGGAGAAC - novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 TGAGGGAGAAC TGAGGGAGAAC . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . GDAP2 NM_001135589 exon13 c.1464_1474del p.488_492del . . 92.0 31.0 63.0 0.0 . 37 . 0.336957 0 none . . PASS Atlas-Indel,Pindel ZNF285 26974 hgsc.bcm.edu hg19 19 44892064 44892064 + Frame_Shift_Del DEL A A - novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . ZNF285 NM_152354 exon4 c.344delC p.S115fs . . 127.0 48.0 79.0 0.0 . 86 . 0.377953 0 none . . PASS Atlas-Indel,Pindel MYNN 55892 hgsc.bcm.edu hg19 3 169496760 169496761 + Frame_Shift_Ins INS - - G novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . MYNN NM_018657 exon3 c.471_472insG p.E157fs . . 71.0 23.0 57.0 0.0 . 36 . 0.323944 0 none . . PASS Atlas-Indel,Pindel SETDB1 9869 hgsc.bcm.edu hg19 1 150915165 150915168 + Frame_Shift_Del DEL GTAT GTAT - novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 GTAT GTAT . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . SETDB1 NM_012432 exon6 c.673_673del p.225_225del . . 110.0 34.0 78.0 0.0 . 204 . 0.309091 0 none . . PASS Atlas-INDEL GAPVD1 26130 hgsc.bcm.edu hg19 9 128116940 128116941 + Frame_Shift_Ins INS - - C novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . GAPVD1 NM_015635 exon23 c.3658_3659insC p.A1220fs . . 82.0 15.0 61.0 0.0 . 124 . 0.183 . none . . PASS Pindel SETDB1 9869 hgsc.bcm.edu hg19 1 150915166 150915170 + Splice_Site DEL TATGT TATGT - novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 TATGT TATGT . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . SETDB1 . . . . . . 109.0 27.0 79.0 0.0 . 204 . 0.248 . none . . PASS Pindel NUP133 55746 hgsc.bcm.edu hg19 1 229631660 229631662 + In_Frame_Del DEL TTC TTC - novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 TTC TTC . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . NUP133 NM_018230 exon7 c.953_955del p.318_319del . . 34.0 11.0 20.0 0.0 . 111 . 0.324 . none . . PASS Pindel PCNT 5116 hgsc.bcm.edu hg19 21 47831328 47831328 + Frame_Shift_Del DEL G G - novel TCGA-Y8-A897-01A-11D-A35Z-10 TCGA-Y8-A897-10A-01D-A35Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq a18fd0a9-7914-410c-8f2f-0b8c86803b88 56e7a4a9-632d-45d1-a1b1-f3ed4e689c9e . PCNT NM_006031 exon28 c.5340delC p.A1780fs . . 90.0 24.0 145.0 0.0 . 283 . 0.267 . none . . PASS Pindel