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 NPHP4 261734 hgsc.bcm.edu hg19 1 5965397 5965397 + Missense_Mutation SNP C C G novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . NPHP4 NM_015102 exon15 c.G1910C p.C637S TGTAGACAATCTG . 119.0 44.0 119.0 0.0 . 119 . . . none . . PASS Atlas-SNP UBR4 23352 hgsc.bcm.edu hg19 1 19526229 19526229 + Missense_Mutation SNP C C G novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . UBR4 NM_020765 exon3 c.G294C p.Q98H CACTGACTGAAGT . 96.0 30.0 84.0 0.0 . 415 . . . none . . PASS Atlas-SNP GPBP1L1 60313 hgsc.bcm.edu hg19 1 46120388 46120388 + Missense_Mutation SNP C C T novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . GPBP1L1 NM_021639 exon6 c.G304A p.G102S CATGACCTCGGGA . 113.0 42.0 134.0 0.0 . 43 . . . none . . PASS Atlas-SNP PTGER3 5733 hgsc.bcm.edu hg19 1 71513083 71513083 + Missense_Mutation SNP G G T novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . PTGER3 NM_001126044 exon1 c.C178A p.L60I CAGTGAGCAGCAT . 269.0 92.0 288.0 0.0 . 246 . . . none . . PASS Atlas-SNP PTGER3 5733 hgsc.bcm.edu hg19 1 71513084 71513084 + Silent SNP C C A novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . PTGER3 NM_001126044 exon1 c.G177T p.L59L AGTGAGCAGCATG . 271.0 92.0 285.0 0.0 . 246 . . . none . . PASS Atlas-SNP ADORA3 140 hgsc.bcm.edu hg19 1 112029234 112029234 + Missense_Mutation SNP T T A novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . ADORA3 NM_020683 exon4 c.A846T p.K282N GACAACTTTGGGA . 75.0 35.0 69.0 0.0 . 104 . . . none . . PASS Atlas-SNP PDE4DIP 9659 hgsc.bcm.edu hg19 1 144882724 144882724 + Missense_Mutation SNP G G T novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 PDE4DIP_ENST00000369356,bladder,carcinoma,0,2 PDE4DIP NM_014644 exon24 c.C3295A p.Q1099K CAGCCTGAAGGCT . 140.0 29.0 164.0 0.0 . 817 . . . none . . PASS Atlas-SNP THEM4 117145 hgsc.bcm.edu hg19 1 151867562 151867562 + Missense_Mutation SNP C C G novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . THEM4 NM_053055 exon2 c.G208C p.D70H AGCCGTCTTCACA . 108.0 39.0 146.0 0.0 . 19 . . . none . . PASS Atlas-SNP ADAM15 8751 hgsc.bcm.edu hg19 1 155034762 155034762 + Missense_Mutation SNP G G A novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 ADAM15,colon,carcinoma,0,1 ADAM15 NM_001261465 exon20 c.G2321A p.C774Y GCCACTGCCTGCC . 82.0 36.0 106.0 0.0 . 92 . . . none . . PASS Atlas-SNP POU2F1 5451 hgsc.bcm.edu hg19 1 167343431 167343431 + Missense_Mutation SNP C C G novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . POU2F1 NM_002697 exon6 c.C489G p.H163Q GCAGCACTCCGCC . 198.0 81.0 188.0 0.0 . 120 . . . none . . PASS Atlas-SNP PRG4 10216 hgsc.bcm.edu hg19 1 186277770 186277770 + Silent SNP T T C novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . PRG4 NM_005807 exon7 c.T2919C p.I973I CAAAATTACTACT . 151.0 62.0 163.0 0.0 . 259 . . . none . . PASS Atlas-SNP F13B 2165 hgsc.bcm.edu hg19 1 197026477 197026477 + Silent SNP G G T rs141627684 alternate_allele TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 F13B,NS,carcinoma,0,1 F13B NM_001994 exon6 c.C924A p.I308I CCCATGGATCTCA . 131.0 57.0 174.0 0.0 . 137 . . . alt G|1.000;A|0.000 . PASS Atlas-SNP PKP1 5317 hgsc.bcm.edu hg19 1 201292313 201292313 + Missense_Mutation SNP G G A novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . PKP1 NM_000299 exon10 c.G1739A p.G580E GCAAGGGGCTGGT . 53.0 21.0 65.0 0.0 . 127 . . . none . . PASS Atlas-SNP SMYD3 64754 hgsc.bcm.edu hg19 1 246670463 246670463 + Silent SNP G G T novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . SMYD3 NM_001167740 exon1 c.C57A p.R19R CACGGCGCGCAGC . 153.0 65.0 174.0 0.0 . 77 . . . none . . PASS Atlas-SNP ALMS1 7840 hgsc.bcm.edu hg19 2 73613065 73613065 + Silent SNP G G A novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . ALMS1 NM_015120 exon1 c.G69A p.E23E GGAGGAGGAGGAA . 564.0 66.0 646.0 0.0 . 384 . . . none . . PASS Atlas-SNP LRP2 4036 hgsc.bcm.edu hg19 2 170097724 170097724 + Silent SNP T T C novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . LRP2 NM_004525 exon25 c.A3819G p.S1273S ATATGATGAAGGG . 133.0 42.0 133.0 0.0 . 751 . . . none . . PASS Atlas-SNP TTN 7273 hgsc.bcm.edu hg19 2 179424376 179424376 + Missense_Mutation SNP T T C novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . TTN NM_001267550 exon326 c.A86483G p.Q28828R ACATTCTGAATTG . 104.0 35.0 91.0 0.0 . 18412 . . . none . . PASS Atlas-SNP FASTKD2 22868 hgsc.bcm.edu hg19 2 207655298 207655298 + Missense_Mutation SNP T T C novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . FASTKD2 NM_001136193 exon11 c.T1901C p.V634A TCAGAGTAGCTGT . 54.0 21.0 51.0 0.0 . 49 . . . none . . PASS Atlas-SNP AQP12B 653437 hgsc.bcm.edu hg19 2 241621833 241621833 + Missense_Mutation SNP T T A novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . AQP12B NM_001102467 exon1 c.A422T p.H141L AGCAGGTGCAGGT . 194.0 48.0 207.0 0.0 . 33 . . . none . . PASS Atlas-SNP D2HGDH 728294 hgsc.bcm.edu hg19 2 242683053 242683053 + Missense_Mutation SNP G G T novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . D2HGDH NM_152783 exon5 c.G507T p.Q169H TTGCCAGGCGGGC . 34.0 11.0 42.0 0.0 . 39 . . . none . . PASS Atlas-SNP SCN5A 6331 hgsc.bcm.edu hg19 3 38592252 38592252 + Silent SNP G G A novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . SCN5A NM_198056 exon28 c.C5611T p.L1871L TCTTCAGGGCGTC . 130.0 43.0 81.0 0.0 . 634 . . . none . . PASS Atlas-SNP CCDC66 285331 hgsc.bcm.edu hg19 3 56649243 56649243 + Missense_Mutation SNP A A G novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . CCDC66 NM_001141947 exon12 c.A1654G p.I552V CAAAGAATCCGAG . 848.0 444.0 717.0 2.0 . 145 . . . none . . PASS Atlas-SNP GOLGB1 2804 hgsc.bcm.edu hg19 3 121410064 121410064 + Missense_Mutation SNP T T A novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . GOLGB1 NM_001256486 exon14 c.A8147T p.D2716V ACCAAATCTCTTG . 112.0 13.0 77.0 0.0 . 319 . . . none . . PASS Atlas-SNP CHST2 9435 hgsc.bcm.edu hg19 3 142840256 142840256 + Missense_Mutation SNP G G A novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . CHST2 NM_004267 exon2 c.G598A p.V200I TGGCATGTATGGC . 166.0 109.0 133.0 0.0 . 67 . . . none . . PASS Atlas-SNP DSPP 1834 hgsc.bcm.edu hg19 4 88536436 88536436 + Silent SNP C C T novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . DSPP NM_014208 exon5 c.C2622T p.S874S CAGCAGCAACAGC . 220.0 17.0 250.0 0.0 . 174 . . . none . . PASS Atlas-SNP LRBA 987 hgsc.bcm.edu hg19 4 151520233 151520233 + Missense_Mutation SNP C C T novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . LRBA NM_006726 exon38 c.G5972A p.R1991H CGCCGGCGCCGCA . 95.0 41.0 67.0 0.0 . 253 . . . none . . PASS Atlas-SNP SLC12A7 10723 hgsc.bcm.edu hg19 5 1087045 1087045 + Nonsense_Mutation SNP A A T novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . SLC12A7 NM_006598 exon6 c.T648A p.Y216X CAAAATATACATG . 224.0 84.0 311.0 0.0 . 97 . . . none . . PASS Atlas-SNP HEXB 3074 hgsc.bcm.edu hg19 5 74009349 74009349 + Missense_Mutation SNP C C A novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . HEXB NM_000521 exon7 c.C790A p.H264N TTGTCTCATGTTT . 116.0 49.0 105.0 0.0 . 34 . . . none . . PASS Atlas-SNP LNPEP 4012 hgsc.bcm.edu hg19 5 96329525 96329525 + Missense_Mutation SNP G G T novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . LNPEP NM_005575 exon6 c.G1257T p.L419F AGATTTGGTGGCT . 76.0 34.0 69.0 0.0 . 80 . . . none . . PASS Atlas-SNP KIAA0141 9812 hgsc.bcm.edu hg19 5 141313856 141313856 + Missense_Mutation SNP T T C novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . KIAA0141 NM_001142603 exon9 c.T949C p.Y317H GCTCAGTACCGCT . 130.0 56.0 119.0 0.0 . 44 . . . none . . PASS Atlas-SNP DHX16 8449 hgsc.bcm.edu hg19 6 30638231 30638231 + Missense_Mutation SNP C C G novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . DHX16 NM_003587 exon4 c.G622C p.A208P TCTGAGCCTCTTC . 45.0 12.0 58.0 0.0 . 119 . . . none . . PASS Atlas-SNP NFYA 4800 hgsc.bcm.edu hg19 6 41046900 41046900 + Missense_Mutation SNP G G T novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . NFYA NM_002505 exon2 c.G72T p.Q24H TCAGCAGCAGGTA . 60.0 4.0 82.0 0.0 . 33 . . . none . . PASS Atlas-SNP PHF3 23469 hgsc.bcm.edu hg19 6 64395141 64395141 + Silent SNP G G A rs149984169 alternate_allele TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 PHF3,NS,carcinoma,0,2 PHF3 NM_015153 exon3 c.G1518A p.P506P TGCTCCGAAGAAA . 298.0 114.0 336.0 0.0 . 191 . . . alt G|1.000;T|0.000 . PASS Atlas-SNP OGFRL1 79627 hgsc.bcm.edu hg19 6 72011551 72011551 + Silent SNP C C T novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . OGFRL1 NM_024576 exon7 c.C1155T p.S385S GCCCAGCAATGAA . 387.0 153.0 398.0 0.0 . 44 . . . none . . PASS Atlas-SNP MYO6 4646 hgsc.bcm.edu hg19 6 76621412 76621412 + Missense_Mutation SNP T T G novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . MYO6 NM_004999 exon33 c.T3436G p.S1146A AACAATTCACGTA . 325.0 137.0 446.0 0.0 . 124 . . . none . . PASS Atlas-SNP SLC2A12 154091 hgsc.bcm.edu hg19 6 134350058 134350058 + Missense_Mutation SNP G G A novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . SLC2A12 NM_145176 exon2 c.C905T p.S302L ACAGTTGATGCAT . 109.0 50.0 114.0 0.0 . 43 . . . none . . PASS Atlas-SNP SGK1 6446 hgsc.bcm.edu hg19 6 134495179 134495179 + Missense_Mutation SNP C C A novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . SGK1 NM_001143676 exon5 c.G477T p.Q159H AGGCTCCTGAGGT . 107.0 41.0 138.0 0.0 . 387 . . . none . . PASS Atlas-SNP AUTS2 26053 hgsc.bcm.edu hg19 7 70239070 70239070 + Silent SNP C C T rs143201197 alternate_allele TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . AUTS2 NM_015570 exon12 c.C1887T p.L629L TTTACTCCAAAAG . 137.0 58.0 103.0 0.0 . 173 . . . alt C|1.000;G|0.000 . PASS Atlas-SNP TFR2 7036 hgsc.bcm.edu hg19 7 100238449 100238449 + Silent SNP G G A novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . TFR2 NM_003227 exon3 c.C333T p.C111C GTCTCCGCACGCC . 169.0 78.0 110.0 0.0 . 53 . . . none . . PASS Atlas-SNP AASS 10157 hgsc.bcm.edu hg19 7 121755193 121755193 + Missense_Mutation SNP C C G novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . AASS NM_005763 exon9 c.G978C p.Q326H GAGACTCTGAGCA . 208.0 87.0 139.0 0.0 . 123 . . . none . . PASS Atlas-SNP ZNF467 168544 hgsc.bcm.edu hg19 7 149462502 149462502 + Silent SNP G G A novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . ZNF467 NM_207336 exon5 c.C1089T p.S363S GCCGAAGCTCAAG . 287.0 136.0 163.0 0.0 . 50 . . . none . . PASS Atlas-SNP BLK 640 hgsc.bcm.edu hg19 8 11412365 11412365 + Missense_Mutation SNP C C T novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . BLK NM_001715 exon7 c.C586T p.P196S ACCTTCCCCTCGC . 24.0 13.0 25.0 0.0 . 78 . . . none . . PASS Atlas-SNP ASPH 444 hgsc.bcm.edu hg19 8 62556523 62556523 + Missense_Mutation SNP C C A novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . ASPH NM_032466 exon8 c.G690T p.M230I CTCAGACATCATC . 145.0 69.0 157.0 0.0 . 87 . . . none . . PASS Atlas-SNP PYCRL 65263 hgsc.bcm.edu hg19 8 144689268 144689268 + Missense_Mutation SNP T T G novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . PYCRL NM_023078 exon3 c.A227C p.E76A AGCACCTCCTGGT . 112.0 46.0 114.0 0.0 . 14 . . . none . . PASS Atlas-SNP UNC13B 10497 hgsc.bcm.edu hg19 9 35396502 35396502 + Missense_Mutation SNP G G A novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . UNC13B NM_006377 exon26 c.G3091A p.A1031T AAAAGTGCTGACT . 65.0 31.0 78.0 0.0 . 153 . . . none . . PASS Atlas-SNP ECM2 1842 hgsc.bcm.edu hg19 9 95272295 95272295 + Silent SNP A A G novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . ECM2 NM_001393 exon6 c.T1192C p.L398L TATTCAAACGCAT . 76.0 4.0 72.0 0.0 . 147 . . . none . . PASS Atlas-SNP ERCC6L2 375748 hgsc.bcm.edu hg19 9 98684631 98684631 + Silent SNP C C T novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . . NM_001010895 exon8 c.C1377T p.Y459Y CAGTTACCTTACA . 52.0 18.0 71.0 0.0 . . . . . none . . PASS Atlas-SNP DDX31 64794 hgsc.bcm.edu hg19 9 135505682 135505682 + Missense_Mutation SNP A A G novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . DDX31 NM_022779 exon16 c.T1915C p.Y639H TGACATATTCTGC . 78.0 36.0 81.0 0.0 . 76 . . . none . . PASS Atlas-SNP ARID5B 84159 hgsc.bcm.edu hg19 10 63852419 63852419 + Missense_Mutation SNP C C T novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . ARID5B NM_032199 exon10 c.C3197T p.S1066L GCGGATCAGAAGG . 70.0 28.0 63.0 0.0 . 125 . . . none . . PASS Atlas-SNP WAPAL 23063 hgsc.bcm.edu hg19 10 88197365 88197365 + Missense_Mutation SNP A A G novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . WAPAL NM_015045 exon19 c.T3508C p.C1170R CAGCACACTGAAA . 74.0 32.0 81.0 0.0 . 81 . . . none . . PASS Atlas-SNP PYROXD2 84795 hgsc.bcm.edu hg19 10 100167377 100167377 + Missense_Mutation SNP G G T novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . PYROXD2 NM_032709 exon4 c.C277A p.L93M TCAGCAGGCTGAG . 47.0 16.0 28.0 0.0 . 43 . . . none . . PASS Atlas-SNP ADRA2A 150 hgsc.bcm.edu hg19 10 112837876 112837876 + Missense_Mutation SNP C C A novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . ADRA2A NM_000681 exon1 c.C122A p.T41N GGGCCACCCCTTA . 42.0 14.0 43.0 0.0 . 38 . . . none . . PASS Atlas-SNP ARHGAP1 392 hgsc.bcm.edu hg19 11 46701795 46701795 + Silent SNP G G A novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . ARHGAP1 NM_004308 exon10 c.C858T p.N286N TTGGGTGTTGGCC . 53.0 19.0 76.0 0.0 . 27 . . . none . . PASS Atlas-SNP CKAP5 9793 hgsc.bcm.edu hg19 11 46772905 46772905 + Silent SNP T T C novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 CKAP5,NS,carcinoma,0,1 CKAP5 NM_001008938 exon39 c.A5313G p.K1771K GGGCCCTTTTAAT . 89.0 4.0 82.0 0.0 . 134 . . . none . . PASS Atlas-SNP MYBPC3 4607 hgsc.bcm.edu hg19 11 47372130 47372130 + Missense_Mutation SNP G G A novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . MYBPC3 NM_000256 exon3 c.C329T p.P110L TCAGCAGGGGCAG . 165.0 26.0 160.0 0.0 . 102 . . . none . . PASS Atlas-SNP CELF1 10658 hgsc.bcm.edu hg19 11 47494737 47494737 + Missense_Mutation SNP A A C novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . CELF1 NM_001172639 exon14 c.T1314G p.F438L ATCACCAAACTCC . 76.0 37.0 80.0 0.0 . 43 . . . none . . PASS Atlas-SNP OR10S1 219873 hgsc.bcm.edu hg19 11 123847533 123847533 + Missense_Mutation SNP A A T novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . OR10S1 NM_001004474 exon1 c.T866A p.F289Y GTGTAGAAGACAG . 59.0 26.0 76.0 0.0 . 78 . . . none . . PASS Atlas-SNP CLECL1 160365 hgsc.bcm.edu hg19 12 9875396 9875396 + Missense_Mutation SNP A A C novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . CLECL1 NM_001267701 exon2 c.T330G p.F110L AGTAGAAAAGTTG . 124.0 76.0 116.0 0.0 . 18 . . . none . . PASS Atlas-SNP OVCH1 341350 hgsc.bcm.edu hg19 12 29639178 29639178 + Splice_Site SNP C C A novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 OVCH1,NS,carcinoma,0,1 OVCH1 NM_183378 exon9 c.995+1G>T . ACCACACATACCC . 128.0 72.0 107.0 0.0 . 195 . . . none . . PASS Atlas-SNP IPO8 10526 hgsc.bcm.edu hg19 12 30834737 30834737 + Missense_Mutation SNP A A G novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . IPO8 NM_006390 exon4 c.T338C p.M113T AGACACATTGTTA . 149.0 50.0 133.0 0.0 . 105 . . . none . . PASS Atlas-SNP NXPH4 11247 hgsc.bcm.edu hg19 12 57619121 57619121 + Missense_Mutation SNP C C A novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . NXPH4 NM_007224 exon2 c.C518A p.P173H CTGTCCCCCACCC . 73.0 40.0 36.0 0.0 . 40 . . . none . . PASS Atlas-SNP TMEM132C 92293 hgsc.bcm.edu hg19 12 128899711 128899711 + Missense_Mutation SNP G G A novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . TMEM132C NM_001136103 exon2 c.G520A p.A174T GTCTTTGCTTTCC . 140.0 91.0 116.0 0.0 . 142 . . . none . . PASS Atlas-SNP SLITRK1 114798 hgsc.bcm.edu hg19 13 84453695 84453695 + Missense_Mutation SNP T T G novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . SLITRK1 NM_052910 exon1 c.A1948C p.K650Q GTCTCTTGGACCG . 109.0 36.0 115.0 0.0 . 196 . . . none . . PASS Atlas-SNP EAPP 55837 hgsc.bcm.edu hg19 14 35002688 35002688 + Missense_Mutation SNP A A G novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . EAPP NM_018453 exon3 c.T314C p.I105T AAATATATATCAT . 106.0 49.0 99.0 0.0 . 28 . . . none . . PASS Atlas-SNP STYX 6815 hgsc.bcm.edu hg19 14 53224474 53224474 + Silent SNP G G C novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . STYX NM_001130701 exon8 c.G354C p.V118V TCTTGTGCATGGA . 72.0 22.0 75.0 0.0 . 14 . . . none . . PASS Atlas-SNP SERPINA12 145264 hgsc.bcm.edu hg19 14 94956103 94956103 + Missense_Mutation SNP C C G novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . SERPINA12 NM_173850 exon5 c.G907C p.V303L CTACGACCCTGGG . 101.0 43.0 106.0 0.0 . 93 . . . none . . PASS Atlas-SNP GCNT3 9245 hgsc.bcm.edu hg19 15 59911624 59911624 + Missense_Mutation SNP G G A novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . GCNT3 NM_004751 exon3 c.G1187A p.G396E GGGCTGGGGACTT . 75.0 28.0 103.0 0.0 . 42 . . . none . . PASS Atlas-SNP ALDH1A3 220 hgsc.bcm.edu hg19 15 101438391 101438391 + Splice_Site SNP G G C novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . ALDH1A3 NM_000693 exon8 c.883+1G>C . CTGACTGTGAGTC . 103.0 46.0 116.0 0.0 . 61 . . . none . . PASS Atlas-SNP CLN3 1201 hgsc.bcm.edu hg19 16 28495396 28495396 + Missense_Mutation SNP C C A novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . CLN3 NM_001042432 exon10 c.G721T p.G241W CTTCCCCTCCAGG . 63.0 33.0 58.0 0.0 . 33 . . . none . . PASS Atlas-SNP DERL2 51009 hgsc.bcm.edu hg19 17 5389469 5389469 + Missense_Mutation SNP T T C novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . DERL2 NM_016041 exon1 c.A13G p.S5G GCAAGCTCTGGTA . 295.0 71.0 228.0 0.0 . 15 . . . none . . PASS Atlas-SNP EVPLL 645027 hgsc.bcm.edu hg19 17 18286356 18286356 + Missense_Mutation SNP C C T novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . EVPLL NM_001145127 exon7 c.C529T p.R177W GTGGCGCGGGCAG . 60.0 15.0 39.0 0.0 . 10 . . . none . . PASS Atlas-SNP SLFN11 91607 hgsc.bcm.edu hg19 17 33679953 33679953 + Silent SNP A A G novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 SLFN11,right_upper_lobe,carcinoma,0,1 SLFN11 NM_152270 exon5 c.T2128C p.L710L AATCCAAGTGGCT . 136.0 46.0 94.0 0.0 . 112 . . . none . . PASS Atlas-SNP TNS4 84951 hgsc.bcm.edu hg19 17 38634839 38634839 + Nonsense_Mutation SNP G G A novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . TNS4 NM_032865 exon11 c.C1972T p.Q658X TCCGTTGCTCAGG . 118.0 46.0 87.0 0.0 . 72 . . . none . . PASS Atlas-SNP KRTAP4-5 85289 hgsc.bcm.edu hg19 17 39305773 39305773 + Missense_Mutation SNP T T G rs201152898 bycluster TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . KRTAP4-5 NM_033188 exon1 c.A247C p.T83P AGGTGGTCTGGCA . 84.0 32.0 56.0 0.0 . 34 . . . weak . . PASS Atlas-SNP KRTAP4-5 85289 hgsc.bcm.edu hg19 17 39305774 39305774 + Missense_Mutation SNP C C G rs137947981 bycluster TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 KRTAP4-5,NS,carcinoma,0,1 KRTAP4-5 NM_033188 exon1 c.G246C p.Q82H GGTGGTCTGGCAG . 83.0 32.0 55.0 0.0 . 34 . . . weak . . PASS Atlas-SNP KRTAP4-5 85289 hgsc.bcm.edu hg19 17 39305775 39305775 + Missense_Mutation SNP T T C rs141265645 bycluster TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 KRTAP4-5,NS,carcinoma,+1,1 KRTAP4-5 NM_033188 exon1 c.A245G p.Q82R GTGGTCTGGCAGC . 81.0 33.0 52.0 0.0 . 34 . . . weak . . PASS Atlas-SNP CHAD 1101 hgsc.bcm.edu hg19 17 48545565 48545565 + Missense_Mutation SNP T T C novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . CHAD NM_001267 exon1 c.A610G p.R204G GGTTCCTGTCCAC . 131.0 33.0 88.0 0.0 . 36 . . . none . . PASS Atlas-SNP CARD14 79092 hgsc.bcm.edu hg19 17 78178935 78178935 + Missense_Mutation SNP C C A novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . CARD14 NM_024110 exon18 c.C2500A p.P834T CTCGTGCCCAGGG . 96.0 32.0 70.0 0.0 . 98 . . . none . . PASS Atlas-SNP CEP192 55125 hgsc.bcm.edu hg19 18 13105009 13105009 + Silent SNP T T C novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . CEP192 NM_032142 exon40 c.T6978C p.F2326F TGTTTTTAGAGCT . 71.0 28.0 115.0 0.0 . 340 . . . none . . PASS Atlas-SNP EPG5 57724 hgsc.bcm.edu hg19 18 43481032 43481032 + Silent SNP A A C novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . EPG5 NM_020964 exon26 c.T4575G p.A1525A TAGCACAGCAGAG . 60.0 20.0 74.0 0.0 . 199 . . . none . . PASS Atlas-SNP SLC44A2 57153 hgsc.bcm.edu hg19 19 10742023 10742023 + Missense_Mutation SNP T T G novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . SLC44A2 NM_020428 exon6 c.T403G p.Y135D GAGTACTATAAGC . 60.0 23.0 50.0 0.0 . 56 . . . none . . PASS Atlas-SNP FBL 2091 hgsc.bcm.edu hg19 19 40330883 40330883 + Missense_Mutation SNP A A C novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . FBL NM_001436 exon4 c.T368G p.V123G ATCGAGACTCTCT . 112.0 13.0 103.0 0.0 . 37 . . . none . . PASS Atlas-SNP XRN2 22803 hgsc.bcm.edu hg19 20 21321426 21321426 + Missense_Mutation SNP C C G novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . XRN2 NM_012255 exon15 c.C1346G p.P449R ATTCACCAGGTTC . 175.0 54.0 130.0 0.0 . 90 . . . none . . PASS Atlas-SNP SRSF6 6431 hgsc.bcm.edu hg19 20 42088517 42088517 + Silent SNP C C T novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . SRSF6 NM_006275 exon3 c.C363T p.C121C TCGGTGCAGTTGG . 128.0 38.0 131.0 0.0 . 37 . . . none . . PASS Atlas-SNP CBLN4 140689 hgsc.bcm.edu hg19 20 54579177 54579177 + Silent SNP G G A novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . CBLN4 NM_080617 exon1 c.C51T p.V17V CGTGAGGACCAGC . 40.0 11.0 27.0 0.0 . 54 . . . none . . PASS Atlas-SNP CSTF1 1477 hgsc.bcm.edu hg19 20 54972276 54972276 + Missense_Mutation SNP T T G novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . CSTF1 NM_001033522 exon3 c.T183G p.D61E AAACGATGACACC . 107.0 53.0 124.0 0.0 . 29 . . . none . . PASS Atlas-SNP RTEL1 51750 hgsc.bcm.edu hg19 20 62322275 62322275 + Missense_Mutation SNP G G A novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . RTEL1 NM_032957 exon27 c.G2603A p.R868Q AACAGCGGGCGGG . 104.0 39.0 81.0 0.0 . 114 . . . none . . PASS Atlas-SNP PTTG1IP 754 hgsc.bcm.edu hg19 21 46285323 46285323 + Missense_Mutation SNP A A G novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . PTTG1IP NM_004339 exon2 c.T155C p.L52P TTCTTCAGGCACT . 45.0 17.0 65.0 0.0 . 22 . . . none . . PASS Atlas-SNP MICAL3 57553 hgsc.bcm.edu hg19 22 18369959 18369959 + Missense_Mutation SNP T T C novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . MICAL3 NM_015241 exon15 c.A2044G p.R682G TCTTTCTCCTCTT . 128.0 47.0 137.0 0.0 . 53 . . . none . . PASS Atlas-SNP RGL4 266747 hgsc.bcm.edu hg19 22 24036113 24036113 + Missense_Mutation SNP G G C novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . RGL4 NM_153615 exon4 c.G864C p.R288S CATGAGGGCCCGG . 117.0 33.0 146.0 0.0 . 29 . . . none . . PASS Atlas-SNP CCDC117 150275 hgsc.bcm.edu hg19 22 29182126 29182126 + Missense_Mutation SNP C C G novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . CCDC117 NM_173510 exon5 c.C652G p.L218V GAACTCCTTTCTG . 156.0 68.0 165.0 0.0 . 26 . . . none . . PASS Atlas-SNP TMPRSS6 164656 hgsc.bcm.edu hg19 22 37471189 37471189 + Missense_Mutation SNP T T C novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . TMPRSS6 NM_153609 exon11 c.A1355G p.Y452C TGGTTGTACAAGC . 96.0 42.0 113.0 0.0 . 99 . . . none . . PASS Atlas-SNP EP300 2033 hgsc.bcm.edu hg19 22 41572322 41572322 + Silent SNP T T C novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . EP300 NM_001429 exon30 c.T4851C p.P1617P TGATCCTCTCATC . 90.0 34.0 84.0 0.0 . 367 . . . none . . PASS Atlas-SNP RBM10 8241 hgsc.bcm.edu hg19 X 47030585 47030585 + Missense_Mutation SNP T T G rs377667483 TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . RBM10 NM_001204468 exon4 c.T555G p.D185E GGAGGATGAGGAG . 68.0 4.0 54.0 0.0 . 117 . . . weak . . PASS Atlas-SNP SHROOM4 57477 hgsc.bcm.edu hg19 X 50378467 50378467 + Silent SNP A A G novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . SHROOM4 NM_020717 exon4 c.T606C p.C202C AAGGGCACAGTCA . 84.0 70.0 109.0 0.0 . 171 . . . none . . PASS Atlas-SNP CENPI 2491 hgsc.bcm.edu hg19 X 100375404 100375404 + Missense_Mutation SNP G G C novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . CENPI NM_006733 exon6 c.G605C p.C202S ATGTTTGCCATTT . 189.0 139.0 198.0 1.0 . 70 . . . none . . PASS Atlas-SNP RAP1GDS1 5910 hgsc.bcm.edu hg19 4 99363256 99363257 + Frame_Shift_Del DEL TG TG - novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 TG TG . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . RAP1GDS1 NM_001100426 exon15 c.1814_1815del p.605_605del . . 45.0 12.0 65.0 0.0 . 61 . 0.266667 0 none . . PASS Atlas-INDEL NEK2 4751 hgsc.bcm.edu hg19 1 211836794 211836794 + Frame_Shift_Del DEL T T - novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . NEK2 NM_002497 exon8 c.1313delG p.S438fs . . 96.0 41.0 113.0 0.0 . 49 . 0.427083 0 none . . PASS Atlas-Indel,Pindel IRF2BP1 26145 hgsc.bcm.edu hg19 19 46387877 46387878 + Frame_Shift_Ins INS - - G novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . IRF2BP1 NM_015649 exon1 c.1156_1157insC p.E386fs . . 46.0 16.0 43.0 0.0 . 23 . 0.347826 0 none . . PASS Atlas-Indel,Pindel SCGB2B2 284402 hgsc.bcm.edu hg19 19 35085225 35085226 + Frame_Shift_Del DEL AC AC - novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 AC AC . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . . NM_001025591 exon2 c.101_102del p.34_34del . . 87.0 34.0 97.0 0.0 . . . 0.390805 0 none . . PASS Atlas-Indel,Pindel TAF2 6873 hgsc.bcm.edu hg19 8 120831745 120831745 + Frame_Shift_Del DEL C C - novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . TAF2 NM_003184 exon3 c.141delA p.G47fs . . 46.0 20.0 42.0 0.0 . 204 . 0.434783 0 none . . PASS Atlas-Indel,Pindel CSMD1 64478 hgsc.bcm.edu hg19 8 4494878 4494878 + Frame_Shift_Del DEL C C - novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . CSMD1 NM_033225 exon2 c.289delA p.N97fs . . 71.0 23.0 78.0 0.0 . 1469 . 0.323944 0 none . . PASS Atlas-Indel,Pindel SHPK 23729 hgsc.bcm.edu hg19 17 3539502 3539525 + Frame_Shift_Del DEL CCGCGCAGCCATTATCTCCCTGAC CCGCGCAGCCATTATCTCCCTGAC - novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 CCGCGCAGCCATTATCTCCCTGAC CCGCGCAGCCATTATCTCCCTGAC . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . SHPK NM_013276 wholegene . . . . 184.0 14.0 139.0 0.0 . 34 . 0.076087 0 none . . PASS Atlas-Indel,Pindel CCRN4L 25819 hgsc.bcm.edu hg19 4 139965852 139965871 + Frame_Shift_Del DEL GAAAGGAAATGTCTCATCCT GAAAGGAAATGTCTCATCCT - novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 GAAAGGAAATGTCTCATCCT GAAAGGAAATGTCTCATCCT . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . CCRN4L NM_012118 exon3 c.519_538del p.173_180del . . 113.0 30.0 159.0 0.0 . 22 . 0.265487 0 none . . PASS Atlas-Indel,Pindel CRYBA1 1411 hgsc.bcm.edu hg19 17 27580671 27580672 + Frame_Shift_Ins INS - - T novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . CRYBA1 NM_005208 exon5 c.371_372insT p.S124fs . . 210.0 126.0 156.0 0.0 . 15 . 0.6 0 none . . PASS Atlas-Indel,Pindel CHST2 9435 hgsc.bcm.edu hg19 3 142840258 142840258 + Frame_Shift_Del DEL A A - novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . CHST2 NM_004267 exon2 c.599delT p.V200fs . . 167.0 110.0 129.0 0.0 . 67 . 0.658683 0 none . . PASS Atlas-INDEL ARSE 415 hgsc.bcm.edu hg19 X 2867593 2867593 + Frame_Shift_Del DEL T T - novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . ARSE NM_000047 exon6 c.607delG p.V203fs . . 139.0 105.0 151.0 0.0 . 43 . 0.755396 0 none . . PASS Atlas-Indel,Pindel PLXNA3 55558 hgsc.bcm.edu hg19 X 153695615 153695615 + Frame_Shift_Del DEL C C - novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . PLXNA3 NM_017514 exon19 c.3241delG p.A1081fs . . 44.0 31.0 42.0 0.0 . 156 . 0.704545 0 none . . PASS Atlas-Indel,Pindel SLC12A7 10723 hgsc.bcm.edu hg19 5 1087036 1087036 + Frame_Shift_Del DEL C C - novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . SLC12A7 NM_006598 exon6 c.658delA p.T220fs . . 223.0 59.0 312.0 0.0 . 97 . 0.265 . none . . PASS Pindel CHST2 9435 hgsc.bcm.edu hg19 3 142840256 142840258 + In_Frame_Del DEL GTA GTA - novel TCGA-B9-A8YH-01A-11D-A36X-10 TCGA-B9-A8YH-10A-01D-A370-10 GTA GTA . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 6e6bab9a-ad14-4f30-93d9-00dede084e9c 60ce4360-70f6-4ad0-9057-9fe7428603f7 . CHST2 NM_004267 exon2 c.597_599del p.199_200del . . 167.0 62.0 134.0 0.0 . 67 . 0.371 . none . . PASS Pindel