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 WRAP73 49856 hgsc.bcm.edu hg19 1 3548777 3548777 + Missense_Mutation SNP C C T novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . WRAP73 NM_017818 exon10 c.G1048A p.D350N ACTGACCGTTCCT . 110.0 18.0 86.0 0.0 . 43 . . Atlas-SNP ARHGAP29 9411 hgsc.bcm.edu hg19 1 94652058 94652058 + Missense_Mutation SNP T T G novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . ARHGAP29 NM_004815 exon16 c.A1777C p.T593P TACCAGTTTCTGA . 108.0 16.0 146.0 0.0 . 132 . . Atlas-SNP DBT 1629 hgsc.bcm.edu hg19 1 100672083 100672083 + Missense_Mutation SNP C C T rs150934375 TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . DBT NM_001918 exon9 c.G1127A p.R376H TGGAGGCGGTTCA . 84.0 24.0 87.0 0.0 . 39 . C|1.000;T|0.000 Atlas-SNP ADAMTSL4 54507 hgsc.bcm.edu hg19 1 150531572 150531572 + Silent SNP T T C novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . ADAMTSL4 NM_019032 exon16 c.T2694C p.P898P GCCCCCTGACATG . 90.0 45.0 71.0 0.0 . 101 . . Atlas-SNP HRNR 388697 hgsc.bcm.edu hg19 1 152185637 152185637 + Missense_Mutation SNP C C A rs150101773 bycluster;byfrequency;alternate_allele TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . HRNR NM_001009931 exon3 c.G8468T p.S2823I CCAGAACTTCCCC . 551.0 54.0 358.0 0.0 . 403 . C|1.000;T|0.000 Atlas-SNP LY9 4063 hgsc.bcm.edu hg19 1 160769681 160769681 + Missense_Mutation SNP C C A novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . LY9 NM_001261457 exon2 c.C263A p.A88D CTCTTGCTTTCGC . 200.0 13.0 113.0 0.0 . 115 . . Atlas-SNP DARS2 55157 hgsc.bcm.edu hg19 1 173825830 173825830 + Silent SNP G G A novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . DARS2 NM_018122 exon16 c.G1701A p.L567L CCATCTGCTCCAG . 107.0 8.0 58.0 0.0 . 61 . . Atlas-SNP NUAK2 81788 hgsc.bcm.edu hg19 1 205290713 205290713 + Missense_Mutation SNP G G A novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . NUAK2 NM_030952 exon1 c.C44T p.S15L GCGGCCGAGGGAG . 81.0 21.0 55.0 0.0 . 107 . . Atlas-SNP RYR2 6262 hgsc.bcm.edu hg19 1 237893654 237893654 + Missense_Mutation SNP G G A novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 RYR2,NS,chondrosarcoma,0,1 RYR2 NM_001035 exon77 c.G10933A p.A3645T GATTTAGCAGTAT . 144.0 17.0 91.0 0.0 . 1273 . . Atlas-SNP INO80B 83444 hgsc.bcm.edu hg19 2 74683301 74683301 + Missense_Mutation SNP G G A novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . INO80B NM_031288 exon4 c.G442A p.E148K GAAGAGGAGGAAC . 257.0 19.0 240.0 0.0 . 37 . . Atlas-SNP IWS1 55677 hgsc.bcm.edu hg19 2 128247508 128247508 + Missense_Mutation SNP T T A novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . IWS1 NM_017969 exon11 c.A2059T p.R687W TAGGCCTAGACCA . 391.0 50.0 357.0 0.0 . 61 . . Atlas-SNP BAZ2B 29994 hgsc.bcm.edu hg19 2 160194151 160194151 + Missense_Mutation SNP C C G novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . BAZ2B NM_013450 exon32 c.G5587C p.E1863Q TCCGTTCTAGTGC . 185.0 28.0 169.0 0.0 . 196 . . Atlas-SNP PLCD4 84812 hgsc.bcm.edu hg19 2 219501200 219501200 + Missense_Mutation SNP G G A novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . PLCD4 NM_032726 exon16 c.G2189A p.R730H GTTACCGCCACAT . 112.0 31.0 117.0 0.0 . 51 . . Atlas-SNP PLXND1 23129 hgsc.bcm.edu hg19 3 129286593 129286593 + Silent SNP C C A novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . PLXND1 NM_015103 exon21 c.G3921T p.T1307T CAGCAGCGTCTTC . 35.0 5.0 64.0 0.0 . 149 . . Atlas-SNP ALB 213 hgsc.bcm.edu hg19 4 74283866 74283866 + Missense_Mutation SNP T T A novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . ALB NM_000477 exon12 c.T1490A p.V497D ACAGAGTCACCAA . 104.0 24.0 90.0 0.0 . 132 . . Atlas-SNP USP38 84640 hgsc.bcm.edu hg19 4 144107245 144107245 + Silent SNP G G A novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . USP38 NM_032557 exon1 c.G642A p.L214L ACTACTGCCTTCC . 126.0 33.0 124.0 0.0 . 92 . . Atlas-SNP NR3C2 4306 hgsc.bcm.edu hg19 4 149357349 149357349 + Missense_Mutation SNP T T A rs374672844 TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . NR3C2 NM_001166104 exon2 c.A664T p.S222C GAAAACTGCCAAA . 68.0 13.0 60.0 0.0 . 94 . . Atlas-SNP PRR16 51334 hgsc.bcm.edu hg19 5 120021723 120021723 + Missense_Mutation SNP C C A novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . PRR16 NM_016644 exon3 c.C165A p.D55E AACGGACACGCTG . 97.0 24.0 71.0 0.0 . 71 . . Atlas-SNP GFOD1 54438 hgsc.bcm.edu hg19 6 13365402 13365402 + Missense_Mutation SNP A A G novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . GFOD1 NM_018988 exon2 c.T746C p.V249A ACAGTGACATCCT . 38.0 10.0 38.0 0.0 . 38 . . Atlas-SNP C6orf62 81688 hgsc.bcm.edu hg19 6 24714631 24714631 + Missense_Mutation SNP A A C novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . C6orf62 NM_030939 exon3 c.T344G p.L115R GGCCAAAGAATGA . 143.0 29.0 187.0 0.0 . 18 . . Atlas-SNP LRFN2 57497 hgsc.bcm.edu hg19 6 40400289 40400289 + Silent SNP G G A novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . LRFN2 NM_020737 exon2 c.C564T p.I188I CTCGGCGATGTGA . 76.0 13.0 101.0 0.0 . 133 . . Atlas-SNP COL28A1 340267 hgsc.bcm.edu hg19 7 7571282 7571282 + Missense_Mutation SNP T T A novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . COL28A1 NM_001037763 exon3 c.A378T p.L126F CCCTATTAAATTC . 168.0 59.0 106.0 0.0 . 113 . . Atlas-SNP COBL 23242 hgsc.bcm.edu hg19 7 51095517 51095517 + Silent SNP C C T novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . COBL NM_015198 exon10 c.G3276A p.K1092K TTTTTTCTTCGGC . 346.0 116.0 397.0 1.0 . 167 . . Atlas-SNP PCLO 27445 hgsc.bcm.edu hg19 7 82595462 82595462 + Silent SNP G G A novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . PCLO NM_014510 exon4 c.C3642T p.L1214L TTCAGGGAGTGGC . 843.0 325.0 785.0 2.0 . 1506 . . Atlas-SNP ATP5J2-PTCD1 100526740 hgsc.bcm.edu hg19 7 99030913 99030913 + Missense_Mutation SNP G G C novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . . NM_001198879 exon4 c.C729G p.N243K GTAGAGGTTGAAG . 81.0 34.0 78.0 0.0 . . . . Atlas-SNP HAS2 3037 hgsc.bcm.edu hg19 8 122641077 122641077 + Silent SNP C C T novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . HAS2 NM_005328 exon2 c.G504A p.S168S GTGTTGCGAGCTT . 307.0 174.0 128.0 0.0 . 87 . . Atlas-SNP AKR1C1 1645 hgsc.bcm.edu hg19 10 5005692 5005692 + Missense_Mutation SNP T T G novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . AKR1C1 NM_001353 exon1 c.T56G p.L19R CTGTCCTGGGATT . 180.0 16.0 222.0 0.0 . 39 . . Atlas-SNP MKI67 4288 hgsc.bcm.edu hg19 10 129901194 129901194 + Silent SNP G G A novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . MKI67 NM_002417 exon13 c.C8910T p.P2970P TCCCACGGGTTCT . 98.0 26.0 88.0 0.0 . 363 . . Atlas-SNP SSH3 54961 hgsc.bcm.edu hg19 11 67077797 67077797 + Missense_Mutation SNP G G T novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . SSH3 NM_017857 exon13 c.G1670T p.S557I AGACCAGTGACAT . 74.0 15.0 80.0 0.0 . 54 . . Atlas-SNP FAT3 120114 hgsc.bcm.edu hg19 11 92534030 92534030 + Silent SNP C C T novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . FAT3 NM_001008781 exon9 c.C7851T p.H2617H GGGCCACTTGGTC . 58.0 12.0 77.0 0.0 . 1822 . . Atlas-SNP ETS1 2113 hgsc.bcm.edu hg19 11 128426289 128426289 + Missense_Mutation SNP G G C novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . ETS1 NM_001143820 exon3 c.C111G p.N37K ACCACAGTTCATT . 164.0 38.0 147.0 0.0 . 123 . . Atlas-SNP USP5 8078 hgsc.bcm.edu hg19 12 6974387 6974387 + Missense_Mutation SNP G G A novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . USP5 NM_001098536 exon19 c.G2458A p.V820I CACTACGTCTGCC . 131.0 13.0 114.0 0.0 . 124 . . Atlas-SNP PZP 5858 hgsc.bcm.edu hg19 12 9344850 9344850 + Silent SNP G G T novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . PZP NM_002864 exon13 c.C1485A p.I495I AGCCATGATCTGA . 90.0 7.0 77.0 0.0 . 422 . . Atlas-SNP TAS2R46 259292 hgsc.bcm.edu hg19 12 11214459 11214459 + Missense_Mutation SNP A A C novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 TAS2R46,NS,carcinoma,0,1 TAS2R46 NM_176887 exon1 c.T435G p.F145L TATCACAAAAAGA . 275.0 13.0 256.0 0.0 . 43 . . Atlas-SNP TAS2R46 259292 hgsc.bcm.edu hg19 12 11214707 11214707 + Missense_Mutation SNP C C A novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . TAS2R46 NM_176887 exon1 c.G187T p.V63L TTAATACTAATAC . 280.0 20.0 236.0 0.0 . 43 . . Atlas-SNP TAS2R46 259292 hgsc.bcm.edu hg19 12 11214720 11214720 + Silent SNP T T C novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . TAS2R46 NM_176887 exon1 c.A174G p.L58L CCAGAGTAAACCA . 297.0 19.0 279.0 0.0 . 43 . . Atlas-SNP TAS2R46 259292 hgsc.bcm.edu hg19 12 11214756 11214756 + Silent SNP T T C rs375315747 TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . TAS2R46 NM_176887 exon1 c.A138G p.Q46Q GAGAATTTGGTCA . 343.0 20.0 308.0 0.0 . 43 . . Atlas-SNP NCKAP5L 57701 hgsc.bcm.edu hg19 12 50185782 50185782 + Missense_Mutation SNP G G A rs372382126 TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . NCKAP5L NM_001037806 exon13 c.C3845T p.T1282M TGGGGCGTAGGGG . 65.0 19.0 38.0 0.0 . 142 . . Atlas-SNP NR4A1 3164 hgsc.bcm.edu hg19 12 52448249 52448249 + Missense_Mutation SNP C C T novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . NR4A1 NM_001202233 exon3 c.C176T p.A59V CCGCTGCCCCCAC . 56.0 7.0 74.0 0.0 . 77 . . Atlas-SNP OLFM4 10562 hgsc.bcm.edu hg19 13 53617269 53617269 + Silent SNP G G A novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . OLFM4 NM_006418 exon4 c.G600A p.K200K AGAGAAGCTTGAG . 119.0 13.0 104.0 0.0 . 94 . . Atlas-SNP BCL2L2-PABPN1 100529063 hgsc.bcm.edu hg19 14 23793427 23793427 + Silent SNP C C T novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . . NM_001199864 exon8 c.C891T p.T297T CCGGACCACCAAC . 88.0 9.0 104.0 0.0 . . . . Atlas-SNP WHAMM 123720 hgsc.bcm.edu hg19 15 83491939 83491939 + Missense_Mutation SNP A A G novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . WHAMM NM_001080435 exon6 c.A1358G p.D453G AGGATGATAAGAA . 230.0 45.0 295.0 0.0 . 63 . . Atlas-SNP KIF7 374654 hgsc.bcm.edu hg19 15 90189142 90189142 + Missense_Mutation SNP C C T novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . KIF7 NM_198525 exon8 c.G1904A p.R635Q AAGGTCCGCCTGG . 36.0 5.0 48.0 0.0 . 130 . . Atlas-SNP CLEC19A 728276 hgsc.bcm.edu hg19 16 19310149 19310149 + Silent SNP C C T novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . CLEC19A NM_001256720 exon2 c.C243T p.A81A GCTGGCCTCCATC . 94.0 25.0 88.0 0.0 . 4 . . Atlas-SNP SALL1 6299 hgsc.bcm.edu hg19 16 51173341 51173341 + Missense_Mutation SNP G G T rs140924793 alternate_allele TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . SALL1 NM_002968 exon2 c.C2792A p.P931Q TTGGACGGGGACA . 125.0 5.0 122.0 0.0 . 301 . G|1.000;A|0.000 Atlas-SNP PRPF8 10594 hgsc.bcm.edu hg19 17 1564062 1564062 + Missense_Mutation SNP C C A novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . PRPF8 NM_006445 exon29 c.G4568T p.R1523L CCTGATCGCTGAG . 128.0 22.0 112.0 0.0 . 169 . . Atlas-SNP TDRD12 91646 hgsc.bcm.edu hg19 19 33233749 33233749 + Missense_Mutation SNP A A G novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . TDRD12 NM_001110822 exon4 c.A383G p.Y128C GCCTGTACTGCAC . 209.0 39.0 210.0 0.0 . 23 . . Atlas-SNP CYP2A13 1553 hgsc.bcm.edu hg19 19 41600227 41600227 + Missense_Mutation SNP T T C novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . CYP2A13 NM_000766 exon7 c.T1051C p.Y351H ATGCCCTACACAG . 212.0 39.0 215.0 0.0 . 90 . . Atlas-SNP AP2A1 160 hgsc.bcm.edu hg19 19 50302171 50302171 + Silent SNP C C T novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . AP2A1 NM_130787 exon8 c.C927T p.I309I CGCCATCCTCTTC . 90.0 17.0 104.0 0.0 . 108 . . Atlas-SNP SNRPB 6628 hgsc.bcm.edu hg19 20 2443295 2443295 + Silent SNP G G C novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . SNRPB NM_003091 exon6 c.C672G p.P224P CCCAGGGGGAGGA . 86.0 10.0 114.0 0.0 . 29 . . Atlas-SNP WFDC8 90199 hgsc.bcm.edu hg19 20 44181869 44181869 + Silent SNP C C T novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . WFDC8 NM_181510 exon5 c.G492A p.E164E TGGACACTCCTTA . 91.0 9.0 108.0 0.0 . 28 . . Atlas-SNP RBFOX2 23543 hgsc.bcm.edu hg19 22 36164375 36164375 + Missense_Mutation SNP C C T rs199852787 bycluster;by1000genomes;alternate_allele TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 RBFOX2_ENST00000438146,NS,carcinoma,0,2 RBFOX2 NM_001082578 exon6 c.G685A p.E229K TATTCTCGAAAGT . 90.0 8.0 111.0 0.0 . 62 . C|1.000;G|0.000 Atlas-SNP XRCC6 2547 hgsc.bcm.edu hg19 22 42042966 42042966 + Silent SNP T T A novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . XRCC6 NM_001469 exon7 c.T840A p.A280A GAAGGCTCTCAAG . 153.0 47.0 137.0 0.0 . 64 . . Atlas-SNP PCDH19 57526 hgsc.bcm.edu hg19 X 99662112 99662112 + Missense_Mutation SNP G G A novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . PCDH19 NM_001184880 exon1 c.C1484T p.S495L ACCTGCGACGGCA . 101.0 47.0 94.0 0.0 . 269 . . Atlas-SNP MMGT1 93380 hgsc.bcm.edu hg19 X 135049605 135049605 + Silent SNP T T G novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . MMGT1 NM_173470 exon3 c.A180C p.I60I ATGAACTATACCG . 220.0 106.0 193.0 0.0 . 14 . . Atlas-SNP COX1 5742 hgsc.bcm.edu hg19 MT 6177 6177 + Missense_Mutation SNP A A T novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . . ENST00000361624 exon1 c.A274T p.M92L CCCGATATGGCGT . 794.0 59.0 1196.0 0.0 . . . . Atlas-SNP ND4L 0 hgsc.bcm.edu hg19 MT 10635 10635 + Missense_Mutation SNP G G A novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . . ENST00000361335 exon1 c.G166A p.A56T CTCTTAGCCAATA . 1001.0 56.0 1292.0 0.0 . . . . Atlas-SNP ND5 0 hgsc.bcm.edu hg19 MT 12677 12677 + Missense_Mutation SNP T T C novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . . ENST00000361567 exon1 c.T341C p.I114T CAAACATTAATCA . 947.0 144.0 1353.0 0.0 . . . . Atlas-SNP MSH2 4436 hgsc.bcm.edu hg19 2 47707967 47707993 + In_Frame_Del DEL ATATCATGGAACCAGCAGCAAAGAAGT ATATCATGGAACCAGCAGCAAAGAAGT - novel TCGA-DD-A1E9-01A-21D-A152-10 TCGA-DD-A1E9-11A-11D-A152-10 ATATCATGGAACCAGCAGCAAAGAAGT ATATCATGGAACCAGCAGCAAAGAAGT . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 84a0bc36-9f29-4b23-aee1-bf5ff71f697b f37fe995-4af3-489f-988e-ca04430e4e57 . MSH2 NM_000251 exon15 c.2590_2616del p.864_872del . . 147.0 18.0 183.0 0.0 . 198 . . Atlas-Indel,Pindel