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 ECE1 1889 hgsc.bcm.edu hg19 1 21585300 21585300 + Silent SNP G G T novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . ECE1 NM_001397 exon6 c.C648A p.A216A GTCCTTGGCCCAG . 106.0 35.0 106.0 0.0 . 76 . . . none . . PASS Atlas-SNP KCNC4 3749 hgsc.bcm.edu hg19 1 110768796 110768796 + Silent SNP G G A novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . KCNC4 NM_001039574 exon3 c.G1815A p.R605R TGTCCGGAAAGGT . 96.0 37.0 70.0 0.0 . 113 . . . none . . PASS Atlas-SNP ITLN2 142683 hgsc.bcm.edu hg19 1 160924190 160924190 + Missense_Mutation SNP A A T rs145856391 alternate_allele TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . ITLN2 NM_080878 exon2 c.T66A p.S22R GCACCCACTGGTG . 10.0 6.0 16.0 0.0 . 35 . . . alt A|1.000;G|0.000 . PASS Atlas-SNP NIT1 4817 hgsc.bcm.edu hg19 1 161090544 161090544 + Missense_Mutation SNP C C A novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . NIT1 NM_005600 exon7 c.C973A p.P325T GGTCACCCACTGT . 85.0 33.0 110.0 0.0 . 41 . . . none . . PASS Atlas-SNP LTBP1 4052 hgsc.bcm.edu hg19 2 33622241 33622241 + Missense_Mutation SNP G G T novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 LTBP1,NS,carcinoma,0,1 LTBP1 NM_206943 exon33 c.G4876T p.G1626C GAATGCGGCATCC . 69.0 3.0 80.0 0.0 . 317 . . . none . . PASS Atlas-SNP C2orf78 388960 hgsc.bcm.edu hg19 2 74043217 74043217 + Silent SNP C C A novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . C2orf78 NM_001080474 exon3 c.C1867A p.R623R AAGCCCCGAAGCT . 97.0 4.0 109.0 0.0 . 150 . . . none . . PASS Atlas-SNP DARS 1615 hgsc.bcm.edu hg19 2 136680361 136680361 + Missense_Mutation SNP A A C novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . DARS NM_001349 exon9 c.T804G p.I268M TGGTCCAATAGAG . 170.0 78.0 159.0 0.0 . 44 . . . none . . PASS Atlas-SNP PPIG 9360 hgsc.bcm.edu hg19 2 170460568 170460568 + Missense_Mutation SNP A A G novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . PPIG NM_004792 exon3 c.A17G p.Q6R AGGTTCAACGTCC . 127.0 46.0 113.0 0.0 . 100 . . . none . . PASS Atlas-SNP ZAK 0 hgsc.bcm.edu hg19 2 174097114 174097114 + Missense_Mutation SNP G G T novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . ZAK NM_016653 exon14 c.G1130T p.R377L GGAAGCGGCTGCT . 330.0 160.0 348.0 0.0 . 62 . . . none . . PASS Atlas-SNP GLS 2744 hgsc.bcm.edu hg19 2 191827660 191827660 + Missense_Mutation SNP A A G novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . GLS NM_014905 exon18 c.A1958G p.D653G ATTCTGACAACGG . 119.0 50.0 117.0 0.0 . 47 . . . none . . PASS Atlas-SNP CYP20A1 57404 hgsc.bcm.edu hg19 2 204154489 204154489 + Missense_Mutation SNP T T C novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . CYP20A1 NM_177538 exon10 c.T973C p.Y325H AACAGATATTGTC . 132.0 60.0 153.0 0.0 . 40 . . . none . . PASS Atlas-SNP HDLBP 3069 hgsc.bcm.edu hg19 2 242170343 242170343 + Missense_Mutation SNP G G C novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . HDLBP NM_005336 exon25 c.C3305G p.T1102S GTGATGGTAATTT . 99.0 42.0 109.0 0.0 . 118 . . . none . . PASS Atlas-SNP ZNF501 115560 hgsc.bcm.edu hg19 3 44776081 44776081 + Silent SNP A A G novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 ZNF501,NS,neuroblastoma,0,1 ZNF501 NM_001258280 exon3 c.A168G p.G56G ATGTGGAAGTTGT . 200.0 62.0 128.0 0.0 . 27 . . . none . . PASS Atlas-SNP RUVBL1 8607 hgsc.bcm.edu hg19 3 127831784 127831784 + Missense_Mutation SNP G G A novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . RUVBL1 NM_003707 exon3 c.C308T p.S103L TCAGTTGAGTAAA . 255.0 91.0 193.0 0.0 . 38 . . . none . . PASS Atlas-SNP PCDH1 5097 hgsc.bcm.edu hg19 5 141233645 141233645 + Missense_Mutation SNP C C G novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 PCDH1,NS,carcinoma,0,1 PCDH1 NM_032420 exon5 c.G3676C p.A1226P CAGATGCCGGTGT . 39.0 21.0 46.0 0.0 . 119 . . . none . . PASS Atlas-SNP SNRNP48 154007 hgsc.bcm.edu hg19 6 7601644 7601644 + Missense_Mutation SNP G G C rs143226311 bycluster;by1000genomes;alternate_allele TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . SNRNP48 NM_152551 exon5 c.G482C p.R161P CTGATCGTCTTGC . 174.0 63.0 228.0 0.0 . 32 . . . alt G|1.000;A|0.000 . PASS Atlas-SNP OR2B3 442184 hgsc.bcm.edu hg19 6 29054989 29054989 + Missense_Mutation SNP T T G rs139090624 alternate_allele TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . OR2B3 NM_001005226 exon1 c.A37C p.I13L GTAGTATAAACTC . 107.0 45.0 102.0 0.0 . 44 . . . alt T|1.000;C|0.000 . PASS Atlas-SNP CDK13 8621 hgsc.bcm.edu hg19 7 40127807 40127807 + Missense_Mutation SNP T T C novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . CDK13 NM_003718 exon12 c.T3112C p.S1038P GATGTTTCCACAA . 208.0 97.0 105.0 0.0 . 114 . . . none . . PASS Atlas-SNP CUX1 1523 hgsc.bcm.edu hg19 7 101837159 101837159 + Missense_Mutation SNP G G A novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . CUX1 NM_001202543 exon13 c.G1147A p.A383T GAGGGCGCTGGGA . 100.0 58.0 84.0 0.0 . 253 . . . none . . PASS Atlas-SNP SLC13A1 6561 hgsc.bcm.edu hg19 7 122774491 122774491 + Missense_Mutation SNP C C G novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . SLC13A1 NM_022444 exon8 c.G905C p.W302S TGAAGCCAGATCC . 156.0 72.0 88.0 0.0 . 110 . . . none . . PASS Atlas-SNP KAT6B 23522 hgsc.bcm.edu hg19 10 76602897 76602897 + Silent SNP G G T novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . . NM_001256469 exon3 c.G282T p.G94G CAAGGGGTCTAGA . 467.0 142.0 347.0 0.0 . . . . . none . . PASS Atlas-SNP LRP4 4038 hgsc.bcm.edu hg19 11 46897384 46897384 + Nonsense_Mutation SNP G G A novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . LRP4 NM_002334 exon26 c.C3670T p.Q1224X GCAGTTGGGAGCT . 101.0 40.0 108.0 0.0 . 160 . . . none . . PASS Atlas-SNP OR5I1 10798 hgsc.bcm.edu hg19 11 55703836 55703836 + Missense_Mutation SNP A A T novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . OR5I1 NM_006637 exon1 c.T41A p.F14Y AGAATAAACTCAG . 85.0 34.0 88.0 0.0 . 110 . . . none . . PASS Atlas-SNP RBM4 5936 hgsc.bcm.edu hg19 11 66411450 66411450 + Silent SNP T T A novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . RBM4 NM_002896 exon3 c.T942A p.A314A TCGCGCTACAGCC . 161.0 59.0 136.0 0.0 . 34 . . . none . . PASS Atlas-SNP PCF11 51585 hgsc.bcm.edu hg19 11 82877725 82877725 + Missense_Mutation SNP A A G novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 PCF11_ENST00000298281,bladder,carcinoma,0,2 PCF11 NM_015885 exon5 c.A1786G p.R596G GCCAAAAGATGGA . 154.0 72.0 166.0 0.0 . 220 . . . none . . PASS Atlas-SNP C11orf65 160140 hgsc.bcm.edu hg19 11 108276173 108276173 + Missense_Mutation SNP T T C novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . C11orf65 NM_152587 exon6 c.A543G p.I181M CCACTCTATTTTT . 107.0 49.0 98.0 0.0 . 29 . . . none . . PASS Atlas-SNP PRH1 5554 hgsc.bcm.edu hg19 12 11035282 11035282 + Missense_Mutation SNP T T A novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . PRH1 NM_006250 exon3 c.A116T p.E39V AACTGCTCAGAGT . 311.0 80.0 244.0 0.0 . 17 . . . none . . PASS Atlas-SNP LRP6 4040 hgsc.bcm.edu hg19 12 12317326 12317326 + Missense_Mutation SNP T T G novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . LRP6 NM_002336 exon9 c.A1933C p.I645L GAGAAATTCGTCT . 238.0 82.0 172.0 0.0 . 170 . . . none . . PASS Atlas-SNP KRT85 3891 hgsc.bcm.edu hg19 12 52756665 52756665 + Silent SNP C C G rs1621938 bycluster;byfrequency;byhapmap;by1000genomes;alternate_allele TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 KRT85,caecum,carcinoma,0,1 KRT85 NM_002283 exon6 c.G1050C p.T350T CTCGGCCGTCAGC . 199.0 67.0 144.0 1.0 . 78 . . . alt C|0.975;T|0.025 . PASS Atlas-SNP DDX55 57696 hgsc.bcm.edu hg19 12 124093348 124093348 + Nonsense_Mutation SNP A A T novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . DDX55 NM_020936 exon6 c.A523T p.R175X GCAGACAGACTTC . 136.0 85.0 81.0 0.0 . 51 . . . none . . PASS Atlas-SNP ARHGEF40 55701 hgsc.bcm.edu hg19 14 21546590 21546590 + Missense_Mutation SNP C C G novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . ARHGEF40 NM_018071 exon10 c.C2189G p.A730G TGACGGCACTGCA . 168.0 44.0 238.0 0.0 . 84 . . . none . . PASS Atlas-SNP ACIN1 22985 hgsc.bcm.edu hg19 14 23564436 23564436 + Missense_Mutation SNP A A C novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . ACIN1 NM_001164814 exon1 c.T60G p.N20K CCCTCGATTACCA . 196.0 90.0 240.0 0.0 . 147 . . . none . . PASS Atlas-SNP REC8 9985 hgsc.bcm.edu hg19 14 24648037 24648037 + Missense_Mutation SNP C C T novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . REC8 NM_001048205 exon14 c.C1115T p.P372L AGCCACCCCCAAA . 448.0 185.0 450.0 0.0 . 47 . . . none . . PASS Atlas-SNP AKAP6 9472 hgsc.bcm.edu hg19 14 33291241 33291241 + Missense_Mutation SNP G G A rs376840822 alternate_allele TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . AKAP6 NM_004274 exon13 c.G4222A p.V1408M GTTAACGTGTTAA . 121.0 50.0 127.0 0.0 . 308 . . . alt . . PASS Atlas-SNP ZC3H7A 29066 hgsc.bcm.edu hg19 16 11859408 11859408 + Missense_Mutation SNP C C A novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . ZC3H7A NM_014153 exon14 c.G1656T p.K552N GTTAATCTTTCCA . 246.0 72.0 186.0 0.0 . 72 . . . none . . PASS Atlas-SNP ABCC12 94160 hgsc.bcm.edu hg19 16 48173154 48173154 + Missense_Mutation SNP A A G novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . ABCC12 NM_033226 exon5 c.T751C p.C251R CCGCACAAAAGAC . 238.0 67.0 174.0 0.0 . 190 . . . none . . PASS Atlas-SNP DNAAF1 123872 hgsc.bcm.edu hg19 16 84203896 84203896 + Missense_Mutation SNP C C G rs375641621 alternate_allele TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . DNAAF1 NM_178452 exon8 c.C1462G p.R488G GGAGATCGAGAGC . 139.0 6.0 85.0 0.0 . 81 . . . alt . . PASS Atlas-SNP RNMTL1 55178 hgsc.bcm.edu hg19 17 694912 694912 + Missense_Mutation SNP A A T novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . RNMTL1 NM_018146 exon4 c.A866T p.N289I CTGACAACTGTGG . 365.0 202.0 349.0 1.0 . 25 . . . none . . PASS Atlas-SNP NEURL4 84461 hgsc.bcm.edu hg19 17 7230249 7230249 + Silent SNP G G A novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . NEURL4 NM_001005408 exon4 c.C873T p.N291N GCTCAGGTTCACA . 210.0 116.0 154.0 0.0 . 192 . . . none . . PASS Atlas-SNP CDC27 996 hgsc.bcm.edu hg19 17 45214623 45214623 + Missense_Mutation SNP G G A rs75637741 bycluster TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 CDC27_ENST00000531206,rectum,carcinoma,0,2 CDC27 NM_001114091 exon14 c.C1826T p.A609V GTATAGGCATAAG . 166.0 12.0 144.0 1.0 . 337 . . . weak . . PASS Atlas-SNP HLF 3131 hgsc.bcm.edu hg19 17 53398135 53398135 + Silent SNP G G A novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . HLF NM_002126 exon4 c.G783A p.E261E CCTGGAGAAGGAG . 82.0 26.0 61.0 0.0 . 39 . . . none . . PASS Atlas-SNP GNA13 10672 hgsc.bcm.edu hg19 17 63049838 63049838 + Missense_Mutation SNP C C A novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . GNA13 NM_006572 exon2 c.G292T p.V98L CCAGCACCCTCAT . 361.0 195.0 301.0 0.0 . 69 . . . none . . PASS Atlas-SNP SOGA2 23255 hgsc.bcm.edu hg19 18 8825493 8825493 + Silent SNP T T C novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 CCDC165,NS,carcinoma,0,1 . NM_015210 exon15 c.T3985C p.L1329L GTGGGCTTGCAGA . 66.0 3.0 75.0 0.0 . . . . . none . . PASS Atlas-SNP CSNK2A1 1457 hgsc.bcm.edu hg19 20 467041 467041 + Missense_Mutation SNP T T C novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . CSNK2A1 NM_001895 exon12 c.A1039G p.S347G CGCTGCTGACGGG . 143.0 34.0 165.0 0.0 . 36 . . . none . . PASS Atlas-SNP MAGEB4 4115 hgsc.bcm.edu hg19 X 30261219 30261219 + Missense_Mutation SNP G G T novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . MAGEB4 NM_002367 exon1 c.G967T p.A323S GTTGCAGCCAGGC . 26.0 23.0 57.0 0.0 . 75 . . . none . . PASS Atlas-SNP DMD 1756 hgsc.bcm.edu hg19 X 32867885 32867885 + Missense_Mutation SNP C C T novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . DMD NM_004006 exon3 c.G146A p.R49H AGGAGGCGCCTCC . 98.0 8.0 118.0 0.0 . 2127 . . . none . . PASS Atlas-SNP WDFY3 23001 hgsc.bcm.edu hg19 4 85630153 85630153 + Frame_Shift_Del DEL A A - novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . WDFY3 NM_014991 exon53 c.8127delG p.L2709fs . . 210.0 92.0 233.0 0.0 . 314 . 0.438095 0 none . . PASS Atlas-INDEL XPNPEP2 7512 hgsc.bcm.edu hg19 X 128885748 128885749 + Frame_Shift_Del DEL TC TC - novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 TC TC . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . XPNPEP2 NM_003399 exon9 c.766_767del p.256_256del . . 282.0 234.0 377.0 0.0 . 84 . 0.829787 0 none . . PASS Atlas-INDEL ALDOB 229 hgsc.bcm.edu hg19 9 104190767 104190770 + Frame_Shift_Del DEL TTTG TTTG - novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 TTTG TTTG . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . ALDOB NM_000035 exon4 c.361_364del p.121_122del . . 283.0 104.0 335.0 0.0 . 69 . 0.367491 0 none . . PASS Atlas-INDEL MCCC2 64087 hgsc.bcm.edu hg19 5 70931074 70931075 + Splice_Site INS - - TA novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . MCCC2 NM_022132 exon10 c.999+1->TA . . . 115.0 48.0 175.0 0.0 . 47 . 0.417391 0 none . . PASS Atlas-INDEL SLIT3 6586 hgsc.bcm.edu hg19 5 168135045 168135045 + Frame_Shift_Del DEL T T - novel TCGA-B9-4617-01A-01D-1252-08 TCGA-B9-4617-10A-01D-1252-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq aed3977e-c899-4a95-b26a-957bdbd865a6 513c77a4-6151-4d55-9b91-4b9923b7d895 . SLIT3 NM_001271946 exon26 c.2802delT p.N934fs . . 100.0 48.0 117.0 0.0 . 224 . 0.48 0 none . . PASS Atlas-INDEL