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 KLHL17 339451 hgsc.bcm.edu hg19 1 898748 898748 + Missense_Mutation SNP G G A novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . KLHL17 NM_198317 exon8 c.G1219A p.E407K ACCGTGGAGTCCT . 177.0 124.0 166.0 1.0 . 31 . . . none . . PASS Atlas-SNP CD1C 911 hgsc.bcm.edu hg19 1 158261919 158261919 + Missense_Mutation SNP G G A novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . CD1C NM_001765 exon3 c.G374A p.G125E ATTCTGGAAAGAG . 192.0 89.0 154.0 0.0 . 100 . . . none . . PASS Atlas-SNP SHCBP1L 81626 hgsc.bcm.edu hg19 1 182898789 182898789 + Missense_Mutation SNP G G T novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . SHCBP1L NM_030933 exon6 c.C1175A p.T392N ATTTCAGTAGTCA . 38.0 16.0 21.0 0.0 . 64 . . . none . . PASS Atlas-SNP SMC6 79677 hgsc.bcm.edu hg19 2 17847696 17847696 + Missense_Mutation SNP T T G novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . SMC6 NM_001142286 exon27 c.A3152C p.Q1051P ATGCTTTGAGGTG . 43.0 22.0 33.0 0.0 . 102 . . . none . . PASS Atlas-SNP TTN 7273 hgsc.bcm.edu hg19 2 179547441 179547441 + Missense_Mutation SNP T T G novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . TTN NM_001267550 exon135 c.A33077C p.H11026P TCTTCATGCTCTT . 107.0 55.0 82.0 0.0 . 18412 . . . none . . PASS Atlas-SNP FSIP2 401024 hgsc.bcm.edu hg19 2 186671593 186671593 + Nonsense_Mutation SNP C C T novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . FSIP2 NM_173651 exon17 c.C17827T p.Q5943X GGAAATCAGTTCC . 90.0 23.0 65.0 0.0 . 251 . . . none . . PASS Atlas-SNP TNP1 7141 hgsc.bcm.edu hg19 2 217724631 217724631 + Missense_Mutation SNP G G A novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 TNP1,NS,carcinoma,0,1 TNP1 NM_003284 exon1 c.C127T p.R43W CGCCCCGTTTCCT . 156.0 74.0 126.0 0.0 . 10 . . . none . . PASS Atlas-SNP AGFG1 3267 hgsc.bcm.edu hg19 2 228399580 228399580 + Silent SNP C C G novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . AGFG1 NM_001135187 exon9 c.C1116G p.G372G AAGTGGCTTTGGG . 218.0 130.0 186.0 1.0 . 80 . . . none . . PASS Atlas-SNP SH3BP4 23677 hgsc.bcm.edu hg19 2 235943690 235943690 + Missense_Mutation SNP C C T novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . SH3BP4 NM_014521 exon3 c.C44T p.P15L GCCTCCCTCGCTG . 80.0 30.0 76.0 0.0 . 109 . . . none . . PASS Atlas-SNP GPR87 53836 hgsc.bcm.edu hg19 3 151012432 151012432 + Missense_Mutation SNP A A T novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . GPR87 NM_023915 exon3 c.T602A p.V201D CATTTGACCCCCA . 178.0 36.0 125.0 0.0 . 52 . . . none . . PASS Atlas-SNP BOD1L1 259282 hgsc.bcm.edu hg19 4 13602646 13602646 + Missense_Mutation SNP T T G novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . . NM_148894 exon10 c.A5878C p.S1960R CTGCACTGGTCAC . 152.0 14.0 114.0 0.0 . . . . . none . . PASS Atlas-SNP SLC10A4 201780 hgsc.bcm.edu hg19 4 48485850 48485850 + Missense_Mutation SNP C C G novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . SLC10A4 NM_152679 exon1 c.C272G p.P91R GGGCGCCCCACGC . 34.0 10.0 2.0 0.0 . 23 . . . none . . PASS Atlas-SNP KIAA1109 84162 hgsc.bcm.edu hg19 4 123260393 123260393 + Missense_Mutation SNP T T A novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . KIAA1109 NM_015312 exon70 c.T12182A p.V4061E TACCAGTATCAAG . 121.0 66.0 115.0 0.0 . 424 . . . none . . PASS Atlas-SNP TENM3 55714 hgsc.bcm.edu hg19 4 183713663 183713663 + Silent SNP C C T novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . . NM_001080477 exon25 c.C5838T p.V1946V GAGGGTCTTATTC . 206.0 69.0 149.0 0.0 . . . . . none . . PASS Atlas-SNP NKD2 85409 hgsc.bcm.edu hg19 5 1033498 1033498 + Missense_Mutation SNP G G A rs144426465 bycluster TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . NKD2 NM_001271082 exon5 c.G214A p.A72T CTCCCCGCTGAGA . 226.0 51.0 90.0 0.0 . 39 . . . weak G|1.000;A|0.000 0.000 PASS Atlas-SNP DEPDC1B 55789 hgsc.bcm.edu hg19 5 59893587 59893587 + Missense_Mutation SNP C C T novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 DEPDC1B,NS,carcinoma,-1,1 DEPDC1B NM_018369 exon11 c.G1583A p.R528Q TACATTCGAAAAC . 77.0 21.0 71.0 0.0 . 56 . . . none . . PASS Atlas-SNP AP3B1 8546 hgsc.bcm.edu hg19 5 77521385 77521385 + Missense_Mutation SNP A A C novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . AP3B1 NM_003664 exon6 c.T584G p.L195R TTCAGAAGTTTTT . 88.0 54.0 46.0 0.0 . 94 . . . none . . PASS Atlas-SNP IK 3550 hgsc.bcm.edu hg19 5 140037217 140037217 + Missense_Mutation SNP C C T novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . IK NM_006083 exon10 c.C880T p.R294C GGAACCCGTAACA . 269.0 59.0 203.0 0.0 . 46 . . . none . . PASS Atlas-SNP FAM65B 9750 hgsc.bcm.edu hg19 6 24836059 24836059 + Missense_Mutation SNP C C T novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . FAM65B NM_014722 exon16 c.G2143A p.E715K GCGCTTCACTGAG . 252.0 75.0 170.0 0.0 . 134 . . . none . . PASS Atlas-SNP HIST1H1C 3006 hgsc.bcm.edu hg19 6 26056096 26056096 + Silent SNP T T C novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . HIST1H1C NM_005319 exon1 c.A561G p.K187K AGCACTTTTGGCA . 143.0 12.0 95.0 0.0 . 80 . . . none . . PASS Atlas-SNP SLC26A5 375611 hgsc.bcm.edu hg19 7 103050896 103050896 + Missense_Mutation SNP G G C novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . SLC26A5 NM_206883 exon7 c.C671G p.S224C AACATGGAGGTGA . 83.0 26.0 86.0 0.0 . 231 . . . none . . PASS Atlas-SNP STAU2 27067 hgsc.bcm.edu hg19 8 74464271 74464271 + Silent SNP A A G novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . STAU2 NM_001164380 exon13 c.T1506C p.Y502Y TGCTAAATATTCC . 143.0 61.0 152.0 0.0 . 148 . . . none . . PASS Atlas-SNP OR13F1 138805 hgsc.bcm.edu hg19 9 107267461 107267461 + Missense_Mutation SNP T T G novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . OR13F1 NM_001004485 exon1 c.T918G p.I306M GCTGATTAGAAAT . 44.0 18.0 69.0 0.0 . 75 . . . none . . PASS Atlas-SNP SPTAN1 6709 hgsc.bcm.edu hg19 9 131379924 131379924 + Missense_Mutation SNP A A G novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . SPTAN1 NM_001130438 exon42 c.A5363G p.K1788R GGGAGAAGAAGCT . 143.0 50.0 118.0 0.0 . 266 . . . none . . PASS Atlas-SNP EHMT1 79813 hgsc.bcm.edu hg19 9 140710514 140710514 + Missense_Mutation SNP G G A novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . EHMT1 NM_024757 exon23 c.G3374A p.R1125K GTCTCAGGTGAGA . 67.0 35.0 57.0 0.0 . 196 . . . none . . PASS Atlas-SNP CUBN 8029 hgsc.bcm.edu hg19 10 17169853 17169853 + Missense_Mutation SNP C C A novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . CUBN NM_001081 exon3 c.G323T p.S108I ATTTGACTAGATA . 39.0 19.0 58.0 0.0 . 515 . . . none . . PASS Atlas-SNP SLC25A28 81894 hgsc.bcm.edu hg19 10 101370968 101370968 + Missense_Mutation SNP T T A novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . SLC25A28 NM_031212 exon4 c.A733T p.T245S CATAGGTCATGAA . 137.0 44.0 185.0 0.0 . 34 . . . none . . PASS Atlas-SNP VAX1 11023 hgsc.bcm.edu hg19 10 118893699 118893699 + Silent SNP C C T novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . VAX1 NM_001112704 exon3 c.G825A p.L275L CACCGGCAGGCTG . 15.0 8.0 7.0 0.0 . 50 . . . none . . PASS Atlas-SNP KCNQ1 3784 hgsc.bcm.edu hg19 11 2798240 2798240 + Silent SNP C C G novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . KCNQ1 NM_000218 exon14 c.C1710G p.P570P GAAGCCCTCACTG . 185.0 53.0 142.0 0.0 . 60 . . . none . . PASS Atlas-SNP KCNA4 3739 hgsc.bcm.edu hg19 11 30032894 30032894 + Silent SNP T T C novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . KCNA4 NM_002233 exon2 c.A1332G p.R444R AATGATTCTGAGG . 104.0 30.0 71.0 0.0 . 158 . . . none . . PASS Atlas-SNP C12orf39 80763 hgsc.bcm.edu hg19 12 21680692 21680692 + Silent SNP G G C novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . C12orf39 NM_030572 exon4 c.G177C p.R59R GAGCCGGAGAAAG . 215.0 158.0 203.0 1.0 . 18 . . . none . . PASS Atlas-SNP MLL2 8085 hgsc.bcm.edu hg19 12 49436945 49436945 + Missense_Mutation SNP G G A novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . MLL2 NM_003482 exon25 c.C5558T p.A1853V GGGGATGCCTTCA . 104.0 8.0 96.0 0.0 . 1173 . . . none . . PASS Atlas-SNP PABPC3 5042 hgsc.bcm.edu hg19 13 25671122 25671122 + Silent SNP C C T rs79072440 bycluster TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . PABPC3 NM_030979 exon1 c.C786T p.Y262Y AATTTACGTTGGT . 196.0 12.0 134.0 0.0 . 129 . . . weak C|0.500;T|0.500 0.500 PASS Atlas-SNP MYH7 4625 hgsc.bcm.edu hg19 14 23886422 23886422 + Missense_Mutation SNP C C T novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . MYH7 NM_000257 exon32 c.G4459A p.A1487T CATAGGCGTTCTT . 83.0 34.0 97.0 0.0 . 349 . . . none . . PASS Atlas-SNP ABHD12B 145447 hgsc.bcm.edu hg19 14 51368558 51368558 + Silent SNP C C T novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . ABHD12B NM_001206673 exon10 c.C792T p.N264N CCGGAACATTCCA . 68.0 45.0 108.0 0.0 . 53 . . . none . . PASS Atlas-SNP MPP5 64398 hgsc.bcm.edu hg19 14 67787027 67787027 + Silent SNP T T C novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . MPP5 NM_022474 exon12 c.T1450C p.L484L ATCATCTTGATTG . 40.0 30.0 47.0 0.0 . 46 . . . none . . PASS Atlas-SNP YLPM1 56252 hgsc.bcm.edu hg19 14 75248111 75248111 + Nonsense_Mutation SNP G G A novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . YLPM1 NM_019589 exon4 c.G1365A p.W455X AGAATGGGAGCGA . 166.0 124.0 197.0 0.0 . 298 . . . none . . PASS Atlas-SNP CATSPERB 79820 hgsc.bcm.edu hg19 14 92195753 92195753 + Missense_Mutation SNP T T C novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . CATSPERB NM_024764 exon2 c.A71G p.Y24C TTATTATATACTA . 152.0 68.0 173.0 0.0 . 114 . . . none . . PASS Atlas-SNP CASC5 57082 hgsc.bcm.edu hg19 15 40913801 40913801 + Nonsense_Mutation SNP A A T novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . CASC5 NM_170589 exon11 c.A1417T p.R473X AATATGAGAGAGG . 146.0 57.0 184.0 0.0 . 269 . . . none . . PASS Atlas-SNP RNF111 54778 hgsc.bcm.edu hg19 15 59344604 59344604 + Missense_Mutation SNP G G T rs137923008 byfrequency;alternate_allele TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . RNF111 NM_017610 exon3 c.G981T p.E327D AGTGGAGATTGTA . 61.0 23.0 74.0 0.0 . 179 . . . alt G|0.998;A|0.002 . PASS Atlas-SNP VPS13C 54832 hgsc.bcm.edu hg19 15 62155703 62155703 + Nonsense_Mutation SNP C C A novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . VPS13C NM_020821 exon82 c.G10888T p.E3630X AAGTCTCTCCTTC . 115.0 41.0 151.0 0.0 . 506 . . . none . . PASS Atlas-SNP PIAS1 8554 hgsc.bcm.edu hg19 15 68434644 68434644 + Missense_Mutation SNP A A G novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . PIAS1 NM_016166 exon4 c.A571G p.K191E GGGACCAAATGTG . 150.0 55.0 131.0 0.0 . 42 . . . none . . PASS Atlas-SNP IL16 3603 hgsc.bcm.edu hg19 15 81517938 81517938 + Silent SNP A A G novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . IL16 NM_001172128 exon2 c.A198G p.T66T AGACACATCGGAG . 116.0 29.0 127.0 0.0 . 254 . . . none . . PASS Atlas-SNP FANCI 55215 hgsc.bcm.edu hg19 15 89856164 89856164 + Silent SNP A A T novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . FANCI NM_001113378 exon35 c.A3681T p.G1227G TACGGGAGAGAAA . 51.0 21.0 61.0 0.0 . 129 . . . none . . PASS Atlas-SNP FAHD1 81889 hgsc.bcm.edu hg19 16 1877593 1877593 + Silent SNP G G T novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . FAHD1 NM_031208 exon1 c.G363T p.L121L GACTCTGGCGAAG . 273.0 39.0 114.0 0.0 . 18 . . . none . . PASS Atlas-SNP CMTM4 146223 hgsc.bcm.edu hg19 16 66670440 66670440 + Silent SNP T T A novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . CMTM4 NM_178818 exon2 c.A231T p.A77A GGAGCATGCCATG . 95.0 5.0 120.0 0.0 . 19 . . . none . . PASS Atlas-SNP PRDM7 11105 hgsc.bcm.edu hg19 16 90127007 90127007 + Missense_Mutation SNP A A T novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . PRDM7 NM_001098173 exon9 c.T975A p.D325E CTCTTCATCATCC . 210.0 119.0 343.0 0.0 . 53 . . . none . . PASS Atlas-SNP SHPK 23729 hgsc.bcm.edu hg19 17 3514081 3514081 + Silent SNP G G T novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . SHPK NM_013276 exon7 c.C1210A p.R404R TGCCTCGGCACAG . 169.0 99.0 126.0 0.0 . 34 . . . none . . PASS Atlas-SNP P2RX1 5023 hgsc.bcm.edu hg19 17 3808622 3808622 + Missense_Mutation SNP G G C novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . P2RX1 NM_002558 exon2 c.C177G p.S59R GAGGCCGCTCGAG . 117.0 31.0 99.0 0.0 . 38 . . . none . . PASS Atlas-SNP MYO15A 51168 hgsc.bcm.edu hg19 17 18023902 18023902 + Silent SNP G G C novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . MYO15A NM_016239 exon2 c.G1788C p.R596R GGCCCGGGCGGGC . 88.0 4.0 12.0 0.0 . 268 . . . none . . PASS Atlas-SNP TP53I13 90313 hgsc.bcm.edu hg19 17 27899239 27899239 + Missense_Mutation SNP C C G novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . TP53I13 NM_138349 exon6 c.C593G p.S198C AGCCCTCTTCTAG . 37.0 15.0 32.0 0.0 . 17 . . . none . . PASS Atlas-SNP ATAD5 79915 hgsc.bcm.edu hg19 17 29220519 29220519 + Nonsense_Mutation SNP A A T novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . ATAD5 NM_024857 exon21 c.A4648T p.K1550X GCTAGGAAACACT . 93.0 54.0 70.0 0.0 . 150 . . . none . . PASS Atlas-SNP AZI1 22994 hgsc.bcm.edu hg19 17 79166615 79166615 + Missense_Mutation SNP A A T novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . AZI1 NM_014984 exon19 c.T2350A p.W784R GCGCCCACTGCTC . 97.0 4.0 3.0 0.0 . 145 . . . none . . PASS Atlas-SNP PIEZO2 63895 hgsc.bcm.edu hg19 18 10691260 10691260 + Nonsense_Mutation SNP T T A novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . . NM_022068 exon44 c.A6973T p.K2325X AGCTCTTGGTGAG . 272.0 76.0 194.0 0.0 . . . . . none . . PASS Atlas-SNP RBBP8 5932 hgsc.bcm.edu hg19 18 20606136 20606136 + Missense_Mutation SNP C C G novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 RBBP8_ENST00000399725,NS,carcinoma,0,2 RBBP8 NM_002894 exon19 c.C2627G p.P876R CTTGTCCTCGTCC . 305.0 78.0 232.0 0.0 . 138 . . . none . . PASS Atlas-SNP PCSK4 54760 hgsc.bcm.edu hg19 19 1481811 1481811 + Missense_Mutation SNP G G A rs377189780 alternate_allele TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . PCSK4 NM_017573 exon15 c.C2215T p.R739C TGGCACGGGAGAG . 104.0 12.0 75.0 0.0 . 44 . . . alt . . PASS Atlas-SNP NRTN 4902 hgsc.bcm.edu hg19 19 5827909 5827909 + Missense_Mutation SNP G G A rs375707068 TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . NRTN NM_004558 exon2 c.G319A p.E107K CTGCGCGAGCTGG . 9.0 8.0 0.0 0.0 . 4 . . . weak . . PASS Atlas-SNP TBCB 1155 hgsc.bcm.edu hg19 19 36606539 36606539 + Missense_Mutation SNP A A T novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . TBCB NM_001281 exon1 c.A77T p.K26M CCGAGAAGCGATA . 159.0 72.0 98.0 0.0 . 13 . . . none . . PASS Atlas-SNP FBL 2091 hgsc.bcm.edu hg19 19 40330915 40330915 + Silent SNP G G A novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . FBL NM_001436 exon4 c.C336T p.V112V CCCAGGGACCAGG . 93.0 26.0 172.0 0.0 . 37 . . . none . . PASS Atlas-SNP KLK5 25818 hgsc.bcm.edu hg19 19 51451945 51451945 + Missense_Mutation SNP T T G novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . KLK5 NM_012427 exon5 c.A677C p.D226A GTGTCATCTATCT . 114.0 53.0 138.0 0.0 . 37 . . . none . . PASS Atlas-SNP ZNF814 730051 hgsc.bcm.edu hg19 19 58385793 58385793 + Missense_Mutation SNP C C T rs113623532 bycluster TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . ZNF814 NM_001144989 exon3 c.G965A p.R322K TAAGGTCTTTTCC . 86.0 16.0 86.0 0.0 . 93 . . . weak C|0.500;T|0.500 0.500 PASS Atlas-SNP PCSK2 5126 hgsc.bcm.edu hg19 20 17417493 17417493 + Missense_Mutation SNP C C T novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . PCSK2 NM_002594 exon8 c.C850T p.L284F CGGGAGCTCACGC . 174.0 65.0 81.0 0.0 . 112 . . . none . . PASS Atlas-SNP BPIFB1 92747 hgsc.bcm.edu hg19 20 31892698 31892698 + Splice_Site SNP G G A novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . . NM_033197 exon13 c.1254+1G>A . TTCCAAGTAAGTG . 201.0 73.0 98.0 0.0 . . . . . none . . PASS Atlas-SNP MYT1 4661 hgsc.bcm.edu hg19 20 62859303 62859303 + Missense_Mutation SNP A A T novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . MYT1 NM_004535 exon18 c.A2654T p.K885M ACGACAAGGAGGA . 213.0 82.0 141.0 0.0 . 152 . . . none . . PASS Atlas-SNP ZNF280A 129025 hgsc.bcm.edu hg19 22 22869192 22869192 + Missense_Mutation SNP T T C novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . ZNF280A NM_080740 exon2 c.A763G p.I255V TTGAAATGTCTGT . 121.0 100.0 129.0 1.0 . 67 . . . none . . PASS Atlas-SNP CSF2RA 1438 hgsc.bcm.edu hg19 X 1407702 1407702 + Missense_Mutation SNP G G T novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . CSF2RA NM_172247 exon4 c.G394T p.D132Y AATGCGGATTTAA . 389.0 127.0 282.0 0.0 . 153 . . . none . . PASS Atlas-SNP NAA10 8260 hgsc.bcm.edu hg19 X 153198018 153198018 + Missense_Mutation SNP C C T novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . NAA10 NM_001256119 exon4 c.G199A p.V67M GGGGCACATCATC . 87.0 32.0 51.0 0.0 . 18 . . . none . . PASS Atlas-SNP PLXNA3 55558 hgsc.bcm.edu hg19 X 153700940 153700940 + Missense_Mutation SNP C C T novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . PLXNA3 NM_017514 exon33 c.C5528T p.T1843M TTCTCACGGCTCT . 205.0 178.0 137.0 0.0 . 156 . . . none . . PASS Atlas-SNP SSFA2 6744 hgsc.bcm.edu hg19 2 182765617 182765618 + Frame_Shift_Ins INS - - T novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . SSFA2 NM_001130445 exon7 c.698_699insT p.N233fs . . 84.0 19.0 69.0 0.0 . 130 . 0.22619 0 none . . PASS Atlas-Indel,Pindel SETD2 29072 hgsc.bcm.edu hg19 3 47098859 47098859 + Frame_Shift_Del DEL G G - novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . SETD2 NM_014159 exon15 c.6416delA p.Q2139fs . . 112.0 83.0 164.0 0.0 . 721 . 0.741071 0 none . . PASS Atlas-INDEL ITGA6 3655 hgsc.bcm.edu hg19 2 173352476 173352476 + Frame_Shift_Del DEL A A - novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . ITGA6 NM_000210 exon17 c.2264delT p.L755X . . 73.0 14.0 81.0 0.0 . 171 . 0.191781 0 none . . PASS Atlas-Indel,Pindel SENP5 205564 hgsc.bcm.edu hg19 3 196612951 196612952 + Frame_Shift_Ins INS - - T novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . SENP5 NM_152699 exon2 c.899_900insT p.S300fs . . 94.0 46.0 72.0 0.0 . 68 . 0.489362 0 none . . PASS Atlas-Indel,Pindel PDS5A 23244 hgsc.bcm.edu hg19 4 39851206 39851213 + Frame_Shift_Del DEL CTTCATAA CTTCATAA - novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 CTTCATAA CTTCATAA . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . PDS5A NM_001100399 exon27 c.3147_3154del p.1049_1052del . . 82.0 23.0 95.0 0.0 . 114 . 0.280488 0 none . . PASS Atlas-INDEL SERF1A 8293 hgsc.bcm.edu hg19 5 70196698 70196698 + Frame_Shift_Del DEL T T - novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . . NM_021967 exon1 c.1delA p.M1fs . . 307.0 48.0 119.0 0.0 . . . 0.156352 0 none . . PASS Atlas-INDEL TRIM44 54765 hgsc.bcm.edu hg19 11 35684955 35684956 + Frame_Shift_Ins INS - - T novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . TRIM44 NM_017583 exon1 c.296_297insT p.S99fs . . 253.0 66.0 174.0 0.0 . 29 . 0.26087 0 none . . PASS Atlas-Indel,Pindel ARMC8 25852 hgsc.bcm.edu hg19 3 137964017 137964040 + Frame_Shift_Del DEL CGGAAGAAGGTGAGTCTGGGAGAG CGGAAGAAGGTGAGTCTGGGAGAG - novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 CGGAAGAAGGTGAGTCTGGGAGAG CGGAAGAAGGTGAGTCTGGGAGAG . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . ARMC8 NM_015396 exon13 c.1083_1092del p.361_364del . . 139.0 22.0 147.0 0.0 . 79 . 0.158273 0 none . . PASS Atlas-Indel,Pindel PSIP1 11168 hgsc.bcm.edu hg19 9 15468982 15468982 + Frame_Shift_Del DEL G G - novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . PSIP1 NM_001128217 exon13 c.1180delA p.T394fs . . 51.0 28.0 99.0 0.0 . 93 . 0.54902 0 none . . PASS Atlas-Indel,Pindel FGGY 55277 hgsc.bcm.edu hg19 1 60019871 60019884 + Frame_Shift_Del DEL TCTGTGGAACGTCT TCTGTGGAACGTCT - novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 TCTGTGGAACGTCT TCTGTGGAACGTCT . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . FGGY NM_001113411 exon8 c.874_887del p.292_296del . . 157.0 48.0 236.0 0.0 . 99 . 0.306 . none . . PASS Pindel SETD2 29072 hgsc.bcm.edu hg19 3 47098859 47098860 + Frame_Shift_Del DEL GC GC - novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 GC GC . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . SETD2 NM_014159 exon15 c.6415_6416del p.2139_2139del . . 114.0 48.0 163.0 0.0 . 721 . 0.421 . none . . PASS Pindel PDS5A 23244 hgsc.bcm.edu hg19 4 39851206 39851214 + In_Frame_Del DEL CTTCATAAA CTTCATAAA - novel TCGA-A4-A5Y1-01A-11D-A28G-10 TCGA-A4-A5Y1-11A-11D-A28G-10 CTTCATAAA CTTCATAAA . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 39eb3bc2-c190-47cb-b9c7-20278d7e1692 2eeacc32-d82b-4e45-908f-19cb21710b93 . PDS5A NM_001100399 exon27 c.3146_3154del p.1049_1052del . . 86.0 11.0 93.0 0.0 . 114 . 0.128 . none . . PASS Pindel