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 DOCK7 85440 hgsc.bcm.edu hg19 1 63119731 63119731 + Missense_Mutation SNP A A G novel TCGA-B1-A47N-01A-11D-A25F-10 TCGA-B1-A47N-10A-01D-A25F-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq bd2cc59d-f5ce-46ed-beb0-4c80b24cbe71 2041c373-06a2-4ba8-b9f8-3c11c313e0db . DOCK7 NM_001271999 exon3 c.T244C p.F82L GAGGAAATTCAAT . 85.0 27.0 83.0 0.0 . 184 . . . none . . PASS Atlas-SNP PLEKHO1 51177 hgsc.bcm.edu hg19 1 150131515 150131515 + Missense_Mutation SNP C C A novel TCGA-B1-A47N-01A-11D-A25F-10 TCGA-B1-A47N-10A-01D-A25F-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq bd2cc59d-f5ce-46ed-beb0-4c80b24cbe71 2041c373-06a2-4ba8-b9f8-3c11c313e0db . PLEKHO1 NM_016274 exon6 c.C1027A p.P343T CGGTCTCCGCCGG . 127.0 19.0 132.0 0.0 . 37 . . . none . . PASS Atlas-SNP C2orf61 285051 hgsc.bcm.edu hg19 2 47382353 47382353 + Missense_Mutation SNP A A G novel TCGA-B1-A47N-01A-11D-A25F-10 TCGA-B1-A47N-10A-01D-A25F-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq bd2cc59d-f5ce-46ed-beb0-4c80b24cbe71 2041c373-06a2-4ba8-b9f8-3c11c313e0db . C2orf61 NM_173649 exon1 c.T38C p.I13T TCCCTTATTGAGG . 100.0 31.0 118.0 0.0 . 31 . . . none . . PASS Atlas-SNP ZNF2 7549 hgsc.bcm.edu hg19 2 95847510 95847510 + Missense_Mutation SNP C C G novel TCGA-B1-A47N-01A-11D-A25F-10 TCGA-B1-A47N-10A-01D-A25F-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq bd2cc59d-f5ce-46ed-beb0-4c80b24cbe71 2041c373-06a2-4ba8-b9f8-3c11c313e0db . ZNF2 NM_021088 exon5 c.C937G p.P313A AGGAAGCCTTATG . 153.0 53.0 168.0 0.0 . 21 . . . none . . PASS Atlas-SNP PGAP1 80055 hgsc.bcm.edu hg19 2 197750195 197750195 + Missense_Mutation SNP G G T novel TCGA-B1-A47N-01A-11D-A25F-10 TCGA-B1-A47N-10A-01D-A25F-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq bd2cc59d-f5ce-46ed-beb0-4c80b24cbe71 2041c373-06a2-4ba8-b9f8-3c11c313e0db . PGAP1 NM_024989 exon12 c.C1225A p.Q409K CCCCTTGCAGGCT . 71.0 5.0 105.0 0.0 . 84 . . . none . . PASS Atlas-SNP TPRG1 285386 hgsc.bcm.edu hg19 3 188925189 188925189 + Missense_Mutation SNP A A G novel TCGA-B1-A47N-01A-11D-A25F-10 TCGA-B1-A47N-10A-01D-A25F-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq bd2cc59d-f5ce-46ed-beb0-4c80b24cbe71 2041c373-06a2-4ba8-b9f8-3c11c313e0db . TPRG1 NM_198485 exon2 c.A16G p.S6G ATTGGGAGTTTTG . 149.0 23.0 132.0 0.0 . 32 . . . none . . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu hg19 3 195490958 195490958 + Missense_Mutation SNP G G A novel TCGA-B1-A47N-01A-11D-A25F-10 TCGA-B1-A47N-10A-01D-A25F-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq bd2cc59d-f5ce-46ed-beb0-4c80b24cbe71 2041c373-06a2-4ba8-b9f8-3c11c313e0db . MUC4 NM_018406 exon11 c.C14002T p.R4668W GGGGCCGCCTCTG . 210.0 10.0 330.0 0.0 . 1505 . . . none . . PASS Atlas-SNP UBA6 55236 hgsc.bcm.edu hg19 4 68534339 68534339 + Silent SNP T T C novel TCGA-B1-A47N-01A-11D-A25F-10 TCGA-B1-A47N-10A-01D-A25F-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq bd2cc59d-f5ce-46ed-beb0-4c80b24cbe71 2041c373-06a2-4ba8-b9f8-3c11c313e0db . UBA6 NM_018227 exon9 c.A723G p.T241T TTGTCCTGTCTCC . 94.0 5.0 76.0 0.0 . 98 . . . none . . PASS Atlas-SNP ASIC5 51802 hgsc.bcm.edu hg19 4 156784757 156784757 + Missense_Mutation SNP G G A novel TCGA-B1-A47N-01A-11D-A25F-10 TCGA-B1-A47N-10A-01D-A25F-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq bd2cc59d-f5ce-46ed-beb0-4c80b24cbe71 2041c373-06a2-4ba8-b9f8-3c11c313e0db . . NM_017419 exon2 c.C190T p.L64F ACCAGAGCACCCT . 149.0 56.0 144.0 0.0 . . . . . none . . PASS Atlas-SNP BTN2A2 10385 hgsc.bcm.edu hg19 6 26384118 26384118 + Silent SNP T T C novel TCGA-B1-A47N-01A-11D-A25F-10 TCGA-B1-A47N-10A-01D-A25F-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq bd2cc59d-f5ce-46ed-beb0-4c80b24cbe71 2041c373-06a2-4ba8-b9f8-3c11c313e0db . BTN2A2 NM_181531 exon2 c.T69C p.L23L CCTCCTTCTCAGC . 143.0 10.0 148.0 0.0 . 87 . . . none . . PASS Atlas-SNP SYNGAP1 8831 hgsc.bcm.edu hg19 6 33400480 33400480 + Missense_Mutation SNP C C T novel TCGA-B1-A47N-01A-11D-A25F-10 TCGA-B1-A47N-10A-01D-A25F-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq bd2cc59d-f5ce-46ed-beb0-4c80b24cbe71 2041c373-06a2-4ba8-b9f8-3c11c313e0db . SYNGAP1 NM_006772 exon5 c.C406T p.R136W AGCCGACGGCTAA . 54.0 16.0 59.0 0.0 . 202 . . . none . . PASS Atlas-SNP LPA 4018 hgsc.bcm.edu hg19 6 161026202 161026202 + Missense_Mutation SNP A A G novel TCGA-B1-A47N-01A-11D-A25F-10 TCGA-B1-A47N-10A-01D-A25F-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq bd2cc59d-f5ce-46ed-beb0-4c80b24cbe71 2041c373-06a2-4ba8-b9f8-3c11c313e0db . LPA NM_005577 exon19 c.T2821C p.Y941H CGTGGTAGCACTC . 55.0 32.0 66.0 0.0 . 237 . . . none . . PASS Atlas-SNP TAX1BP1 8887 hgsc.bcm.edu hg19 7 27856559 27856559 + Nonsense_Mutation SNP A A T novel TCGA-B1-A47N-01A-11D-A25F-10 TCGA-B1-A47N-10A-01D-A25F-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq bd2cc59d-f5ce-46ed-beb0-4c80b24cbe71 2041c373-06a2-4ba8-b9f8-3c11c313e0db . TAX1BP1 NM_006024 exon15 c.A1987T p.R663X CCTGTCAGAGTCC . 74.0 44.0 31.0 0.0 . 71 . . . none . . PASS Atlas-SNP ZNF727 442319 hgsc.bcm.edu hg19 7 63538777 63538777 + Silent SNP G G A novel TCGA-B1-A47N-01A-11D-A25F-10 TCGA-B1-A47N-10A-01D-A25F-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq bd2cc59d-f5ce-46ed-beb0-4c80b24cbe71 2041c373-06a2-4ba8-b9f8-3c11c313e0db ZNF727,NS,carcinoma,0,1 ZNF727 NM_001159522 exon4 c.G1350A p.K450K AGAGAAGCCCTAC . 95.0 5.0 54.0 0.0 . 35 . . . none . . PASS Atlas-SNP PCLO 27445 hgsc.bcm.edu hg19 7 82581494 82581494 + Missense_Mutation SNP T T A rs78195222 bycluster TCGA-B1-A47N-01A-11D-A25F-10 TCGA-B1-A47N-10A-01D-A25F-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq bd2cc59d-f5ce-46ed-beb0-4c80b24cbe71 2041c373-06a2-4ba8-b9f8-3c11c313e0db Q9Y6V0-3,rectum,carcinoma,0,15 PCLO NM_014510 exon5 c.A8775T p.E2925D TTCATCTTCTATT . 90.0 11.0 40.0 1.0 . 1506 . . . weak T|0.500;A|0.500 0.500 PASS Atlas-SNP NFX1 4799 hgsc.bcm.edu hg19 9 33319097 33319097 + Silent SNP C C T novel TCGA-B1-A47N-01A-11D-A25F-10 TCGA-B1-A47N-10A-01D-A25F-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq bd2cc59d-f5ce-46ed-beb0-4c80b24cbe71 2041c373-06a2-4ba8-b9f8-3c11c313e0db . NFX1 NM_147134 exon9 c.C1878T p.C626C AGTGTGCGGCAAG . 96.0 4.0 97.0 0.0 . 85 . . . none . . PASS Atlas-SNP LAMC3 10319 hgsc.bcm.edu hg19 9 133948708 133948708 + Missense_Mutation SNP G G A novel TCGA-B1-A47N-01A-11D-A25F-10 TCGA-B1-A47N-10A-01D-A25F-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq bd2cc59d-f5ce-46ed-beb0-4c80b24cbe71 2041c373-06a2-4ba8-b9f8-3c11c313e0db . LAMC3 NM_006059 exon20 c.G3494A p.S1165N CCAGGAGGTGAGT . 17.0 7.0 55.0 0.0 . 167 . . . none . . PASS Atlas-SNP ARHGAP21 57584 hgsc.bcm.edu hg19 10 24873803 24873803 + Silent SNP T T C novel TCGA-B1-A47N-01A-11D-A25F-10 TCGA-B1-A47N-10A-01D-A25F-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq bd2cc59d-f5ce-46ed-beb0-4c80b24cbe71 2041c373-06a2-4ba8-b9f8-3c11c313e0db . ARHGAP21 NM_020824 exon26 c.A5415G p.G1805G GTGCCCTCCTAGT . 86.0 32.0 77.0 0.0 . 185 . . . none . . PASS Atlas-SNP ARHGAP1 392 hgsc.bcm.edu hg19 11 46702650 46702650 + Silent SNP G G A novel TCGA-B1-A47N-01A-11D-A25F-10 TCGA-B1-A47N-10A-01D-A25F-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq bd2cc59d-f5ce-46ed-beb0-4c80b24cbe71 2041c373-06a2-4ba8-b9f8-3c11c313e0db ARHGAP1,NS,carcinoma,0,1 ARHGAP1 NM_004308 exon7 c.C546T p.F182F CTGCCCGAACTTG . 58.0 5.0 106.0 0.0 . 27 . . . none . . PASS Atlas-SNP AHNAK 79026 hgsc.bcm.edu hg19 11 62296065 62296065 + Missense_Mutation SNP C C T novel TCGA-B1-A47N-01A-11D-A25F-10 TCGA-B1-A47N-10A-01D-A25F-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq bd2cc59d-f5ce-46ed-beb0-4c80b24cbe71 2041c373-06a2-4ba8-b9f8-3c11c313e0db . AHNAK NM_001620 exon5 c.G5824A p.V1942M CCGACACATCCAC . 188.0 14.0 194.0 0.0 . 532 . . . none . . PASS Atlas-SNP PC 5091 hgsc.bcm.edu hg19 11 66636384 66636384 + Missense_Mutation SNP T T C novel TCGA-B1-A47N-01A-11D-A25F-10 TCGA-B1-A47N-10A-01D-A25F-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq bd2cc59d-f5ce-46ed-beb0-4c80b24cbe71 2041c373-06a2-4ba8-b9f8-3c11c313e0db . PC NM_000920 exon9 c.A955G p.K319E AGTGCTTGCCGTG . 190.0 65.0 336.0 1.0 . 116 . . . none . . PASS Atlas-SNP MAML2 84441 hgsc.bcm.edu hg19 11 95825248 95825248 + Silent SNP C C T novel TCGA-B1-A47N-01A-11D-A25F-10 TCGA-B1-A47N-10A-01D-A25F-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq bd2cc59d-f5ce-46ed-beb0-4c80b24cbe71 2041c373-06a2-4ba8-b9f8-3c11c313e0db . MAML2 NM_032427 exon2 c.G1947A p.Q649Q CTGCTGCTGCTGC . 139.0 25.0 80.0 0.0 . 94 . . . none . . PASS Atlas-SNP MAML2 84441 hgsc.bcm.edu hg19 11 95825254 95825254 + Silent SNP C C T rs61749250 bycluster TCGA-B1-A47N-01A-11D-A25F-10 TCGA-B1-A47N-10A-01D-A25F-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq bd2cc59d-f5ce-46ed-beb0-4c80b24cbe71 2041c373-06a2-4ba8-b9f8-3c11c313e0db MAML2,caecum,carcinoma,0,2 MAML2 NM_032427 exon2 c.G1941A p.Q647Q CTGCTGCTGTTGT . 140.0 28.0 75.0 1.0 . 94 . . . weak . . PASS Atlas-SNP SLC6A12 6539 hgsc.bcm.edu hg19 12 306024 306024 + Missense_Mutation SNP A A G novel TCGA-B1-A47N-01A-11D-A25F-10 TCGA-B1-A47N-10A-01D-A25F-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq bd2cc59d-f5ce-46ed-beb0-4c80b24cbe71 2041c373-06a2-4ba8-b9f8-3c11c313e0db . SLC6A12 NM_001122848 exon11 c.T1100C p.F367S TTGGGGAAGGCGA . 85.0 24.0 116.0 0.0 . 60 . . . none . . PASS Atlas-SNP GALNT9 50614 hgsc.bcm.edu hg19 12 132834320 132834320 + Silent SNP G G A novel TCGA-B1-A47N-01A-11D-A25F-10 TCGA-B1-A47N-10A-01D-A25F-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq bd2cc59d-f5ce-46ed-beb0-4c80b24cbe71 2041c373-06a2-4ba8-b9f8-3c11c313e0db . GALNT9 NM_001122636 exon5 c.C867T p.N289N GGCGGCGTTCGCA . 72.0 18.0 95.0 0.0 . 74 . . . none . . PASS Atlas-SNP GPR12 2835 hgsc.bcm.edu hg19 13 27332981 27332981 + Silent SNP C C T novel TCGA-B1-A47N-01A-11D-A25F-10 TCGA-B1-A47N-10A-01D-A25F-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq bd2cc59d-f5ce-46ed-beb0-4c80b24cbe71 2041c373-06a2-4ba8-b9f8-3c11c313e0db . GPR12 NM_005288 exon2 c.G984A p.A328A CGAGCGCGCTCTC . 127.0 56.0 155.0 0.0 . 67 . . . none . . PASS Atlas-SNP FRY 10129 hgsc.bcm.edu hg19 13 32823745 32823745 + Missense_Mutation SNP G G T rs372186855 alternate_allele TCGA-B1-A47N-01A-11D-A25F-10 TCGA-B1-A47N-10A-01D-A25F-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq bd2cc59d-f5ce-46ed-beb0-4c80b24cbe71 2041c373-06a2-4ba8-b9f8-3c11c313e0db . FRY NM_023037 exon49 c.G7091T p.R2364L TCACCCGGAGCAC . 77.0 4.0 67.0 0.0 . 312 . . . alt . . PASS Atlas-SNP PRPF39 55015 hgsc.bcm.edu hg19 14 45564665 45564665 + Missense_Mutation SNP G G A novel TCGA-B1-A47N-01A-11D-A25F-10 TCGA-B1-A47N-10A-01D-A25F-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq bd2cc59d-f5ce-46ed-beb0-4c80b24cbe71 2041c373-06a2-4ba8-b9f8-3c11c313e0db . PRPF39 NM_017922 exon2 c.G223A p.A75T ACAGAAGCAAATT . 55.0 23.0 52.0 0.0 . 46 . . . none . . PASS Atlas-SNP SIN3A 25942 hgsc.bcm.edu hg19 15 75673957 75673957 + Silent SNP T T A novel TCGA-B1-A47N-01A-11D-A25F-10 TCGA-B1-A47N-10A-01D-A25F-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq bd2cc59d-f5ce-46ed-beb0-4c80b24cbe71 2041c373-06a2-4ba8-b9f8-3c11c313e0db . SIN3A NM_001145358 exon18 c.A3285T p.A1095A TACCTCTGCTTCC . 170.0 77.0 152.0 0.0 . 152 . . . none . . PASS Atlas-SNP SIN3A 25942 hgsc.bcm.edu hg19 15 75673982 75673982 + Missense_Mutation SNP T T A novel TCGA-B1-A47N-01A-11D-A25F-10 TCGA-B1-A47N-10A-01D-A25F-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq bd2cc59d-f5ce-46ed-beb0-4c80b24cbe71 2041c373-06a2-4ba8-b9f8-3c11c313e0db . SIN3A NM_001145358 exon18 c.A3260T p.E1087V GAATTCTCCTCTT . 173.0 75.0 169.0 0.0 . 152 . . . none . . PASS Atlas-SNP FA2H 79152 hgsc.bcm.edu hg19 16 74750468 74750468 + Missense_Mutation SNP G G C novel TCGA-B1-A47N-01A-11D-A25F-10 TCGA-B1-A47N-10A-01D-A25F-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq bd2cc59d-f5ce-46ed-beb0-4c80b24cbe71 2041c373-06a2-4ba8-b9f8-3c11c313e0db . FA2H NM_024306 exon6 c.C816G p.F272L AGGGGGGAAGACC . 39.0 16.0 34.0 0.0 . 21 . . . none . . PASS Atlas-SNP WDR81 124997 hgsc.bcm.edu hg19 17 1630052 1630052 + Missense_Mutation SNP C C T novel TCGA-B1-A47N-01A-11D-A25F-10 TCGA-B1-A47N-10A-01D-A25F-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq bd2cc59d-f5ce-46ed-beb0-4c80b24cbe71 2041c373-06a2-4ba8-b9f8-3c11c313e0db . WDR81 NM_001163809 exon1 c.C1799T p.P600L TTGCCCCCGAGCC . 35.0 20.0 19.0 0.0 . 180 . . . none . . PASS Atlas-SNP MYBBP1A 10514 hgsc.bcm.edu hg19 17 4445767 4445767 + Missense_Mutation SNP G G T rs200492249 by1000genomes;alternate_allele TCGA-B1-A47N-01A-11D-A25F-10 TCGA-B1-A47N-10A-01D-A25F-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq bd2cc59d-f5ce-46ed-beb0-4c80b24cbe71 2041c373-06a2-4ba8-b9f8-3c11c313e0db . MYBBP1A NM_014520 exon22 c.C3079A p.R1027S GATGACGGGGCCG . 149.0 48.0 116.0 0.0 . 69 . . . alt G|0.999;A|0.001 . PASS Atlas-SNP CDC27 996 hgsc.bcm.edu hg19 17 45234397 45234397 + Missense_Mutation SNP G G A rs7350908 bycluster;byhapmap TCGA-B1-A47N-01A-11D-A25F-10 TCGA-B1-A47N-10A-01D-A25F-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq bd2cc59d-f5ce-46ed-beb0-4c80b24cbe71 2041c373-06a2-4ba8-b9f8-3c11c313e0db . CDC27 NM_001114091 exon7 c.C724T p.P242S TATCAGGTGAAAT . 49.0 4.0 45.0 0.0 . 337 . . . weak G|1.000;|0.000 . PASS Atlas-SNP PPM1E 22843 hgsc.bcm.edu hg19 17 56833457 56833457 + Silent SNP G G C rs74256772 TCGA-B1-A47N-01A-11D-A25F-10 TCGA-B1-A47N-10A-01D-A25F-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq bd2cc59d-f5ce-46ed-beb0-4c80b24cbe71 2041c373-06a2-4ba8-b9f8-3c11c313e0db PPM1E,colon,carcinoma,0,1 PPM1E NM_014906 exon1 c.G99C p.P33P GGAGCCGGAACCC . 34.0 3.0 44.0 0.0 . 97 . . . weak . . PASS Atlas-SNP SIN3B 23309 hgsc.bcm.edu hg19 19 16977317 16977317 + Missense_Mutation SNP G G T novel TCGA-B1-A47N-01A-11D-A25F-10 TCGA-B1-A47N-10A-01D-A25F-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq bd2cc59d-f5ce-46ed-beb0-4c80b24cbe71 2041c373-06a2-4ba8-b9f8-3c11c313e0db . SIN3B NM_015260 exon13 c.G1852T p.A618S ACCAAGGCCCTGC . 116.0 5.0 164.0 0.0 . 90 . . . none . . PASS Atlas-SNP ZNF880 400713 hgsc.bcm.edu hg19 19 52877551 52877551 + Splice_Site SNP G G A novel TCGA-B1-A47N-01A-11D-A25F-10 TCGA-B1-A47N-10A-01D-A25F-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq bd2cc59d-f5ce-46ed-beb0-4c80b24cbe71 2041c373-06a2-4ba8-b9f8-3c11c313e0db . ZNF880 NM_001145434 exon3 c.140-1G>A . TAAATAGGAATCT . 78.0 11.0 58.0 0.0 . 45 . . . none . . PASS Atlas-SNP TSPYL2 64061 hgsc.bcm.edu hg19 X 53114044 53114044 + Silent SNP C C A novel TCGA-B1-A47N-01A-11D-A25F-10 TCGA-B1-A47N-10A-01D-A25F-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq bd2cc59d-f5ce-46ed-beb0-4c80b24cbe71 2041c373-06a2-4ba8-b9f8-3c11c313e0db . TSPYL2 NM_022117 exon3 c.C993A p.R331R CAACCGCTCAGGT . 60.0 56.0 75.0 0.0 . 53 . . . none . . PASS Atlas-SNP HOXD8 3234 hgsc.bcm.edu hg19 2 176996164 176996165 + Frame_Shift_Ins INS - - CCCTAGCCCT novel TCGA-B1-A47N-01A-11D-A25F-10 TCGA-B1-A47N-10A-01D-A25F-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq bd2cc59d-f5ce-46ed-beb0-4c80b24cbe71 2041c373-06a2-4ba8-b9f8-3c11c313e0db . HOXD8 NM_019558 exon2 c.697_698insCCCTAGCCCT p.A233fs . . 52.0 11.0 87.0 0.0 . 24 . 0.211538 0 none . . PASS Atlas-Indel,Pindel LAMTOR5 10542 hgsc.bcm.edu hg19 1 110950347 110950347 + Frame_Shift_Del DEL C C - novel TCGA-B1-A47N-01A-11D-A25F-10 TCGA-B1-A47N-10A-01D-A25F-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq bd2cc59d-f5ce-46ed-beb0-4c80b24cbe71 2041c373-06a2-4ba8-b9f8-3c11c313e0db . . NM_006402 exon1 c.143delC p.A48fs . . 216.0 42.0 297.0 0.0 . . . 0.194 . none . . PASS Pindel TAF15 8148 hgsc.bcm.edu hg19 17 34171711 34171755 + In_Frame_Del DEL GGCTATGGAGGAGACCGAGGAGGTGGCTATGGAGGAGATCGAGGT GGCTATGGAGGAGACCGAGGAGGTGGCTATGGAGGAGATCGAGGT - novel TCGA-B1-A47N-01A-11D-A25F-10 TCGA-B1-A47N-10A-01D-A25F-10 GGCTATGGAGGAGACCGAGGAGGTGGCTATGGAGGAGATCGAGGT GGCTATGGAGGAGACCGAGGAGGTGGCTATGGAGGAGATCGAGGT . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq bd2cc59d-f5ce-46ed-beb0-4c80b24cbe71 2041c373-06a2-4ba8-b9f8-3c11c313e0db . TAF15 NM_139215 exon15 c.1407_1451del p.469_484del . . 68.0 10.0 53.0 0.0 . 46 . 0.147 . none . . PASS Pindel