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 dbSNP_AF Algorithm DHCR24 1718 hgsc.bcm.edu hg19 1 55340777 55340777 + Nonsense_Mutation SNP G G A novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . DHCR24 NM_014762 exon4 c.C601T p.R201X TGCATCGCACAAA . 80.0 33.0 107.0 0.0 . 31 . . Atlas-SNP C1orf43 25912 hgsc.bcm.edu hg19 1 154184832 154184832 + Missense_Mutation SNP A A G novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . C1orf43 NM_001098616 exon6 c.T530C p.L177P TAGCGTAGGTACT . 110.0 69.0 106.0 0.0 . 36 . . Atlas-SNP PMVK 10654 hgsc.bcm.edu hg19 1 154904854 154904854 + Missense_Mutation SNP C C T novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . PMVK NM_006556 exon2 c.G133A p.G45S GTGGACCAGAGAG . 235.0 59.0 180.0 0.0 . 17 . . Atlas-SNP FMO2 2327 hgsc.bcm.edu hg19 1 171174626 171174626 + Missense_Mutation SNP G G C novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . FMO2 NM_001460 exon7 c.G1036C p.E346Q AAAGTAGAGAATA . 119.0 25.0 95.0 0.0 . 66 . . Atlas-SNP PPFIA4 8497 hgsc.bcm.edu hg19 1 203037705 203037705 + Silent SNP C C T rs200137584 bycluster TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . PPFIA4 NM_015053 exon14 c.C1755T p.F585F GAACTTCGACCAC . 104.0 59.0 94.0 0.0 . 139 . C|0.998;T|0.002 Atlas-SNP DNAH14 127602 hgsc.bcm.edu hg19 1 225510419 225510419 + Missense_Mutation SNP T T C novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . DNAH14 NM_001373 exon60 c.T9110C p.I3037T TGTGTATTCTTCT . 247.0 50.0 222.0 0.0 . 300 . . Atlas-SNP MAP4K3 8491 hgsc.bcm.edu hg19 2 39535117 39535117 + Silent SNP T T C novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . MAP4K3 NM_003618 exon15 c.A1086G p.S362S TTCTTCTGAACTG . 52.0 11.0 73.0 0.0 . 109 . . Atlas-SNP ZC3H6 376940 hgsc.bcm.edu hg19 2 113067682 113067682 + Missense_Mutation SNP G G A novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . ZC3H6 NM_198581 exon4 c.G557A p.G186E CTTTAGGGTCATC . 71.0 31.0 112.0 0.0 . 93 . . Atlas-SNP NFE2L2 4780 hgsc.bcm.edu hg19 2 178098799 178098799 + Missense_Mutation SNP T T G novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 NFE2L2,NS,carcinoma,0,9 NFE2L2 NM_006164 exon2 c.A246C p.E82D GAGAAATTCACCT . 127.0 52.0 180.0 0.0 . 225 . . Atlas-SNP ANKZF1 55139 hgsc.bcm.edu hg19 2 220095010 220095010 + Missense_Mutation SNP C C G novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . ANKZF1 NM_001042410 exon2 c.C31G p.P11A CCGGCTCCTGCGT . 140.0 38.0 218.0 0.0 . 45 . . Atlas-SNP PAX3 5077 hgsc.bcm.edu hg19 2 223084872 223084872 + Missense_Mutation SNP C C T novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . PAX3 NM_181457 exon7 c.G1160A p.G387D GAGAGGCCATTGC . 118.0 42.0 180.0 0.0 . 106 . . Atlas-SNP HJURP 55355 hgsc.bcm.edu hg19 2 234749510 234749510 + Missense_Mutation SNP A A C novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . HJURP NM_018410 exon8 c.T1916G p.L639W GATGGCAACTTCT . 30.0 8.0 47.0 0.0 . 72 . . Atlas-SNP CTNNB1 1499 hgsc.bcm.edu hg19 3 41266100 41266100 + Missense_Mutation SNP T T C novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 CTNNB1,gallbladder,other,-1,1 CTNNB1 NM_001098209 exon3 c.T97C p.S33P CTGGACTCTGGAA . 245.0 78.0 339.0 0.0 . 4904 . . Atlas-SNP KIAA1257 57501 hgsc.bcm.edu hg19 3 128712024 128712024 + Missense_Mutation SNP T T C novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . KIAA1257 NM_020741 exon2 c.A124G p.R42G GGGCCCTGGCCTT . 131.0 45.0 203.0 0.0 . 33 . . Atlas-SNP BFSP2 8419 hgsc.bcm.edu hg19 3 133185754 133185754 + Nonsense_Mutation SNP C C A novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 BFSP2,bladder,carcinoma,0,1 BFSP2 NM_003571 exon5 c.C974A p.S325X ACACTTCGTGCCA . 196.0 20.0 241.0 0.0 . 48 . . Atlas-SNP HTR3E 285242 hgsc.bcm.edu hg19 3 183822009 183822009 + Missense_Mutation SNP T T A novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . HTR3E NM_182589 exon3 c.T364A p.C122S GAGGAATGTGAGG . 49.0 11.0 66.0 0.0 . 65 . . Atlas-SNP CRYGS 1427 hgsc.bcm.edu hg19 3 186256648 186256648 + Missense_Mutation SNP C C A novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . CRYGS NM_017541 exon3 c.G374T p.R125L ATCTCTCGCATGT . 127.0 53.0 165.0 0.0 . 23 . . Atlas-SNP FGFR3 2261 hgsc.bcm.edu hg19 4 1808893 1808893 + Silent SNP G G A novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . FGFR3 NM_001163213 exon18 c.G2331A p.Q777Q TGGCCAGGACACC . 133.0 43.0 204.0 0.0 . 3320 . . Atlas-SNP PROM1 8842 hgsc.bcm.edu hg19 4 16014922 16014922 + Missense_Mutation SNP G G T rs137853006 alternate_allele TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . PROM1 NM_006017 exon10 c.C1117A p.R373S TTTGGCGTTGTAC . 66.0 20.0 90.0 0.0 . 91 . . Atlas-SNP PTTG2 10744 hgsc.bcm.edu hg19 4 37962092 37962092 + Nonsense_Mutation SNP G G T novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . PTTG2 NM_006607 exon1 c.G37T p.E13X ATTGGAGAACCAG . 164.0 57.0 187.0 0.0 . 15 . . Atlas-SNP TTC29 83894 hgsc.bcm.edu hg19 4 147824847 147824847 + Silent SNP A A T novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . TTC29 NM_031956 exon6 c.T435A p.A145A GGCCAGAGCATAC . 95.0 45.0 130.0 0.0 . 63 . . Atlas-SNP FNIP2 57600 hgsc.bcm.edu hg19 4 159782775 159782775 + Missense_Mutation SNP C C G novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . FNIP2 NM_020840 exon12 c.C1312G p.L438V GCCTTACTGACTG . 170.0 49.0 222.0 0.0 . 90 . . Atlas-SNP ADAMTS19 171019 hgsc.bcm.edu hg19 5 128958013 128958013 + Missense_Mutation SNP C C G novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 ADAMTS19,right_upper_lobe,carcinoma,0,1 ADAMTS19 NM_133638 exon10 c.C1724G p.P575R TTGGGCCATTGGC . 241.0 55.0 247.0 0.0 . 216 . . Atlas-SNP HAVCR1 26762 hgsc.bcm.edu hg19 5 156479625 156479625 + Silent SNP G G A novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 HAVCR1,NS,carcinoma,-1,1 HAVCR1 NM_001099414 exon4 c.C420T p.T140T CGTGACGGTTGGA . 296.0 21.0 308.0 0.0 . 84 . . Atlas-SNP TULP1 7287 hgsc.bcm.edu hg19 6 35471393 35471393 + Silent SNP G G A novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . TULP1 NM_003322 exon13 c.C1266T p.T422T GATGACGGTCATG . 56.0 13.0 81.0 0.0 . 51 . . Atlas-SNP BAI3 577 hgsc.bcm.edu hg19 6 69703824 69703824 + Silent SNP A A G novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 BAI3,colon,carcinoma,+1,1 BAI3 NM_001704 exon11 c.A1899G p.A633A AAGGGCAAGTTAC . 94.0 28.0 92.0 0.0 . 451 . . Atlas-SNP LCA5 167691 hgsc.bcm.edu hg19 6 80196750 80196750 + Missense_Mutation SNP C C A novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . LCA5 NM_001122769 exon8 c.G2065T p.D689Y TTTCATCTTCTAC . 100.0 39.0 128.0 0.0 . 71 . . Atlas-SNP MOXD1 26002 hgsc.bcm.edu hg19 6 132649562 132649562 + Missense_Mutation SNP C C A novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . MOXD1 NM_015529 exon5 c.G835T p.G279C CTCCACCAATAGC . 102.0 5.0 119.0 0.0 . 136 . . Atlas-SNP TIAM2 26230 hgsc.bcm.edu hg19 6 155498016 155498016 + Missense_Mutation SNP A A T novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . TIAM2 NM_012454 exon9 c.A2428T p.I810F TGGGAAATCCAGA . 71.0 37.0 99.0 0.0 . 161 . . Atlas-SNP HECW1 23072 hgsc.bcm.edu hg19 7 43484273 43484273 + Missense_Mutation SNP A A G novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . HECW1 NM_015052 exon11 c.A1502G p.E501G GGGAAGAAGAGGA . 96.0 8.0 93.0 0.0 . 540 . . Atlas-SNP SEMA3D 223117 hgsc.bcm.edu hg19 7 84628838 84628838 + Missense_Mutation SNP T T G novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . SEMA3D NM_152754 exon17 c.A2252C p.K751T ATGTGCTTCCACT . 313.0 84.0 319.0 0.0 . 177 . . Atlas-SNP ST18 9705 hgsc.bcm.edu hg19 8 53085080 53085080 + Missense_Mutation SNP C C T novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . ST18 NM_014682 exon10 c.G341A p.R114K TCCTTCCTACTGG . 66.0 8.0 38.0 0.0 . 212 . . Atlas-SNP ARHGAP39 80728 hgsc.bcm.edu hg19 8 145773562 145773562 + Missense_Mutation SNP G G A novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 ARHGAP39,NS,carcinoma,0,1 ARHGAP39 NM_025251 exon6 c.C908T p.S303F CGCGGGGAGGAGG . 62.0 11.0 66.0 0.0 . 80 . . Atlas-SNP GLDC 2731 hgsc.bcm.edu hg19 9 6592200 6592200 + Silent SNP T T C novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . GLDC NM_000170 exon11 c.A1425G p.T475T ATTGACTGTTTCA . 46.0 21.0 69.0 0.0 . 118 . . Atlas-SNP ZFAND5 7763 hgsc.bcm.edu hg19 9 74970914 74970914 + Silent SNP T T C novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . ZFAND5 NM_001102421 exon6 c.A597G p.R199R CTCTTTTCTGATT . 161.0 40.0 281.0 0.0 . 14 . . Atlas-SNP SWI5 375757 hgsc.bcm.edu hg19 9 131038585 131038585 + Missense_Mutation SNP C C T novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . . NM_001040011 exon1 c.C161T p.P54L CTGGCCCGGTGCA . 82.0 29.0 134.0 0.0 . . . . Atlas-SNP COMMD3-BMI1 0 hgsc.bcm.edu hg19 10 22606855 22606855 + Missense_Mutation SNP A A G novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . . NM_001204062 exon2 c.A182G p.H61R TAAAACATTGTCA . 193.0 69.0 296.0 0.0 . . . . Atlas-SNP OR51S1 119692 hgsc.bcm.edu hg19 11 4869815 4869815 + Silent SNP A A G novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . OR51S1 NM_001004758 exon1 c.T624C p.F208F AACCACAAATAGG . 46.0 16.0 90.0 0.0 . 83 . . Atlas-SNP HOXC9 3225 hgsc.bcm.edu hg19 12 54394044 54394044 + Silent SNP A A G novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . HOXC9 NM_006897 exon1 c.A72G p.L24L CCTCCTAGCGTCC . 110.0 27.0 133.0 0.0 . 25 . . Atlas-SNP NOS1 4842 hgsc.bcm.edu hg19 12 117658021 117658021 + Silent SNP G G T novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . NOS1 NM_001204218 exon28 c.C4131A p.A1377A CTTCAGGGCTCGG . 41.0 11.0 60.0 0.0 . 240 . . Atlas-SNP NOS1 4842 hgsc.bcm.edu hg19 12 117658022 117658022 + Missense_Mutation SNP G G T novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . NOS1 NM_001204218 exon28 c.C4130A p.A1377D TTCAGGGCTCGGT . 40.0 11.0 60.0 0.0 . 240 . . Atlas-SNP WASF3 10810 hgsc.bcm.edu hg19 13 27255234 27255234 + Missense_Mutation SNP C C T novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . WASF3 NM_006646 exon8 c.C760T p.P254S GCTACTCCCAACC . 107.0 32.0 209.0 0.0 . 68 . . Atlas-SNP SYNE2 23224 hgsc.bcm.edu hg19 14 64497758 64497758 + Nonsense_Mutation SNP C C T novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . SYNE2 NM_182914 exon45 c.C6904T p.Q2302X AGTTTACAAGATG . 258.0 85.0 393.0 1.0 . 577 . . Atlas-SNP ZNF770 54989 hgsc.bcm.edu hg19 15 35274530 35274530 + Missense_Mutation SNP C C T novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . ZNF770 NM_014106 exon3 c.G1106A p.C369Y AGATCACAATTTC . 77.0 19.0 128.0 0.0 . 64 . . Atlas-SNP DUOXA1 90527 hgsc.bcm.edu hg19 15 45413291 45413291 + Missense_Mutation SNP G G C novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . DUOXA1 NM_144565 exon6 c.C334G p.L112V CTGTGAGTGTGAT . 110.0 37.0 115.0 0.0 . 32 . . Atlas-SNP DIS3L 115752 hgsc.bcm.edu hg19 15 66604085 66604085 + Silent SNP T T A novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . DIS3L NM_001143688 exon5 c.T582A p.P194P CTGGCCTGATTTA . 30.0 12.0 63.0 0.0 . 175 . . Atlas-SNP FBXL16 146330 hgsc.bcm.edu hg19 16 745857 745857 + Missense_Mutation SNP C C A novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . FBXL16 NM_153350 exon3 c.G700T p.A234S GCCCGGCCTCGGT . 111.0 47.0 195.0 0.0 . 25 . . Atlas-SNP PDF 64146 hgsc.bcm.edu hg19 16 69363005 69363005 + Missense_Mutation SNP G G T novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . PDF NM_022341 exon2 c.C652A p.H218N GCAGGTGGTCCAT . 67.0 23.0 83.0 0.0 . 4 . . Atlas-SNP WDR81 124997 hgsc.bcm.edu hg19 17 1634133 1634133 + Missense_Mutation SNP T T C novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . WDR81 NM_001163809 exon3 c.T3860C p.L1287P CGGTCCTGGGCGA . 80.0 29.0 119.0 0.0 . 180 . . Atlas-SNP DHX33 56919 hgsc.bcm.edu hg19 17 5365670 5365670 + Missense_Mutation SNP C C A novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . DHX33 NM_020162 exon3 c.G647T p.R216M TTTCTCCTCTTCT . 185.0 57.0 202.0 0.0 . 41 . . Atlas-SNP BRCA1 672 hgsc.bcm.edu hg19 17 41203109 41203109 + Missense_Mutation SNP C C T novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . BRCA1 NM_007300 exon21 c.G5366A p.C1789Y CCATAGCAACAGA . 59.0 20.0 101.0 0.0 . 304 . . Atlas-SNP ATXN7L3 56970 hgsc.bcm.edu hg19 17 42273177 42273177 + Missense_Mutation SNP A A T novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . ATXN7L3 NM_020218 exon7 c.T564A p.D188E AAAAGGATCCGAA . 39.0 13.0 68.0 0.0 . 31 . . Atlas-SNP MRC2 9902 hgsc.bcm.edu hg19 17 60767531 60767531 + Silent SNP C C A novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . MRC2 NM_006039 exon26 c.C3757A p.R1253R CCTCCCCGAAGAA . 252.0 74.0 366.0 1.0 . 126 . . Atlas-SNP ABCA10 10349 hgsc.bcm.edu hg19 17 67210857 67210857 + Nonsense_Mutation SNP G G A rs200246933 by1000genomes;alternate_allele TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . ABCA10 NM_080282 exon10 c.C994T p.R332X AAACTCGCTCAAA . 95.0 24.0 127.0 0.0 . 209 . G|1.000;C|0.000 Atlas-SNP SLC26A11 284129 hgsc.bcm.edu hg19 17 78222437 78222437 + Missense_Mutation SNP G G A novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . SLC26A11 NM_173626 exon15 c.G1486A p.A496T ATGGAGGCTCTGC . 186.0 56.0 249.0 0.0 . 60 . . Atlas-SNP NOL4 8715 hgsc.bcm.edu hg19 18 31685081 31685081 + Missense_Mutation SNP C C T novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . NOL4 NM_003787 exon3 c.G458A p.R153Q AGAAATCGTGTCA . 147.0 56.0 180.0 0.0 . 139 . . Atlas-SNP THEG 51298 hgsc.bcm.edu hg19 19 375911 375911 + Missense_Mutation SNP C C A novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . THEG NM_016585 exon1 c.G60T p.R20S TTCCGACCTGCCC . 46.0 10.0 40.0 0.0 . 58 . . Atlas-SNP ZNF77 58492 hgsc.bcm.edu hg19 19 2934207 2934207 + Silent SNP G G A novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . ZNF77 NM_021217 exon4 c.C918T p.S306S GTAACAGCTGAAT . 157.0 78.0 198.0 0.0 . 47 . . Atlas-SNP QTRT1 81890 hgsc.bcm.edu hg19 19 10823446 10823446 + Missense_Mutation SNP G G T novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 QTRT1,middle_lobe,carcinoma,0,1 QTRT1 NM_031209 exon8 c.G874T p.A292S GGCTCTGCCCTGG . 103.0 54.0 82.0 0.0 . 25 . . Atlas-SNP GMIP 51291 hgsc.bcm.edu hg19 19 19745726 19745726 + Missense_Mutation SNP C C T novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . GMIP NM_016573 exon17 c.G1762A p.V588I CGCTGACCCGGTA . 83.0 25.0 69.0 0.0 . 55 . . Atlas-SNP ZNF577 84765 hgsc.bcm.edu hg19 19 52375810 52375810 + Missense_Mutation SNP T T G novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . ZNF577 NM_032679 exon7 c.A1433C p.Y478S GTAAGATACAAGA . 69.0 24.0 57.0 0.0 . 63 . . Atlas-SNP RALY 22913 hgsc.bcm.edu hg19 20 32664868 32664868 + Silent SNP C C T novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . RALY NM_016732 exon8 c.C693T p.G231G CGCCGGCGGCGGC . 11.0 4.0 12.0 0.0 . 44 . . Atlas-SNP BIRC7 79444 hgsc.bcm.edu hg19 20 61870579 61870579 + Missense_Mutation SNP G G A novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . BIRC7 NM_139317 exon5 c.G643A p.E215K GCCCAGGAGCCAG . 48.0 22.0 47.0 0.0 . 25 . . Atlas-SNP ZNRF3 84133 hgsc.bcm.edu hg19 22 29438502 29438502 + Missense_Mutation SNP G G C novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . ZNRF3 NM_001206998 exon3 c.G446C p.R149P TACAGCGGGGAGC . 61.0 12.0 72.0 0.0 . 75 . . Atlas-SNP SBF1 6305 hgsc.bcm.edu hg19 22 50906873 50906873 + Missense_Mutation SNP C C A novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . SBF1 NM_002972 exon2 c.G73T p.G25C TCTGGCCCTGGCC . 52.0 14.0 50.0 0.0 . 211 . . Atlas-SNP DCAF8L2 347442 hgsc.bcm.edu hg19 X 27765411 27765411 + Silent SNP G G A novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . DCAF8L2 NM_001136533 exon1 c.G399A p.E133E GGAGGAGGAGGAG . 20.0 6.0 17.0 0.0 . 79 . . Atlas-SNP ARID1A 8289 hgsc.bcm.edu hg19 1 27105581 27105582 + Frame_Shift_Ins INS - - A novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . ARID1A NM_006015 exon20 c.5192_5193insA p.L1731fs . . 97.0 53.0 222.0 0.0 . 842 . . Atlas-INDEL CDH18 1016 hgsc.bcm.edu hg19 5 19838935 19838944 + Frame_Shift_Del DEL CCCCTTTTGG CCCCTTTTGG - novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 CCCCTTTTGG CCCCTTTTGG . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . CDH18 NM_001167667 exon3 c.153_162del p.51_54del . . 116.0 38.0 144.0 0.0 . 561 . . Atlas-Indel,Pindel SPTA1 6708 hgsc.bcm.edu hg19 1 158651436 158651436 + Frame_Shift_Del DEL G G - novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . SPTA1 NM_003126 exon4 c.413delA p.H138fs . . 226.0 70.0 184.0 0.0 . 720 . . Atlas-Indel,Pindel IKBIP 121457 hgsc.bcm.edu hg19 12 99020519 99020519 + Frame_Shift_Del DEL T T - novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . IKBIP NM_153687 exon3 c.324delG p.Q108fs . . 91.0 22.0 96.0 0.0 . 46 . . Atlas-Indel,Pindel PCSK1 5122 hgsc.bcm.edu hg19 5 95733104 95733104 + Frame_Shift_Del DEL A A - novel TCGA-DD-A39V-01A-11D-A20W-10 TCGA-DD-A39V-11A-11D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b73462a7-17f2-4187-87f1-9eb91590d20d 63c0be5f-ca62-4a05-a22d-9ddb8480fb65 . PCSK1 NM_000439 exon12 c.1659delC p.F553fs . . 149.0 39.0 158.0 0.0 . 93 . . Atlas-Indel,Pindel