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 ACAP3 116983 hgsc.bcm.edu hg19 1 1235981 1235981 + Missense_Mutation SNP T T C novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . ACAP3 NM_030649 exon6 c.A430G p.R144G GGTGCCTCGGGGC . 156.0 53.0 162.0 0.0 . 87 . . . none . . PASS Atlas-SNP GJB3 2707 hgsc.bcm.edu hg19 1 35250656 35250656 + Missense_Mutation SNP G G A rs201314683 TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb GJB3,NS,carcinoma,0,1 GJB3 NM_001005752 exon2 c.G293A p.R98H CCTACCGTGAGGA . 63.0 26.0 49.0 0.0 . 40 . . . weak G|0.999;A|0.001 0.001 PASS Atlas-SNP MUTYH 4595 hgsc.bcm.edu hg19 1 45797447 45797447 + Missense_Mutation SNP A A G novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . MUTYH NM_001128425 exon12 c.T1072C p.F358L TGGGGAAGTTGAC . 46.0 17.0 46.0 0.0 . 38 . . . none . . PASS Atlas-SNP CCDC17 149483 hgsc.bcm.edu hg19 1 46088725 46088725 + Silent SNP C C A novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . CCDC17 NM_001114938 exon4 c.G558T p.L186L CTGCTCCAGGCCG . 79.0 41.0 58.0 0.0 . 54 . . . none . . PASS Atlas-SNP ABCD3 5825 hgsc.bcm.edu hg19 1 94939389 94939389 + Missense_Mutation SNP C C A novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . ABCD3 NM_002858 exon5 c.C403A p.L135I ATGCCTCTTGTAA . 65.0 23.0 66.0 0.0 . 62 . . . none . . PASS Atlas-SNP CSDE1 7812 hgsc.bcm.edu hg19 1 115280171 115280171 + Missense_Mutation SNP A A T novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . CSDE1 NM_001242891 exon6 c.T461A p.V154D TGAGGAACAGCGC . 368.0 148.0 351.0 1.0 . 145 . . . none . . PASS Atlas-SNP KPRP 448834 hgsc.bcm.edu hg19 1 152732843 152732843 + Missense_Mutation SNP G G A novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . KPRP NM_001025231 exon2 c.G779A p.R260Q CTCCTCGGCGGCT . 80.0 4.0 62.0 0.0 . 152 . . . none . . PASS Atlas-SNP FCRL4 83417 hgsc.bcm.edu hg19 1 157548316 157548316 + Silent SNP T T A novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . FCRL4 NM_031282 exon10 c.A1377T p.G459G CAAATCTCCCTTT . 70.0 32.0 108.0 0.0 . 95 . . . none . . PASS Atlas-SNP MYO7B 4648 hgsc.bcm.edu hg19 2 128389949 128389949 + Missense_Mutation SNP G G C novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . MYO7B NM_001080527 exon38 c.G5300C p.C1767S CCGACTGCAGCCG . 251.0 112.0 212.0 0.0 . 359 . . . none . . PASS Atlas-SNP LRTM1 57408 hgsc.bcm.edu hg19 3 54958819 54958819 + Missense_Mutation SNP G G A novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . LRTM1 NM_020678 exon2 c.C431T p.T144I TCCCAAGTCTCTC . 88.0 42.0 107.0 0.0 . 52 . . . none . . PASS Atlas-SNP KALRN 8997 hgsc.bcm.edu hg19 3 124210171 124210171 + Missense_Mutation SNP C C T novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . KALRN NM_003947 exon31 c.C4583T p.T1528I TACAGACCTCAGA . 97.0 51.0 83.0 0.0 . 556 . . . none . . PASS Atlas-SNP IFT122 55764 hgsc.bcm.edu hg19 3 129185869 129185869 + Missense_Mutation SNP G G A novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . IFT122 NM_052985 exon9 c.G853A p.E285K GAGGAAGAACCAG . 119.0 28.0 95.0 0.0 . 117 . . . none . . PASS Atlas-SNP SEL1L3 23231 hgsc.bcm.edu hg19 4 25759396 25759396 + Missense_Mutation SNP T T A novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . SEL1L3 NM_015187 exon22 c.A3100T p.N1034Y CCTCGTTACTGTG . 256.0 92.0 260.0 0.0 . 62 . . . none . . PASS Atlas-SNP TMPRSS11F 389208 hgsc.bcm.edu hg19 4 68934461 68934461 + Missense_Mutation SNP C C A novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . TMPRSS11F NM_207407 exon7 c.G630T p.R210S TGTTTCCCTTCCT . 82.0 36.0 104.0 0.0 . 79 . . . none . . PASS Atlas-SNP FNIP2 57600 hgsc.bcm.edu hg19 4 159812743 159812743 + Missense_Mutation SNP C C G novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . FNIP2 NM_020840 exon15 c.C3095G p.S1032C AGGTGTCCAGTTT . 61.0 27.0 80.0 0.0 . 90 . . . none . . PASS Atlas-SNP RAPGEF6 51735 hgsc.bcm.edu hg19 5 130791652 130791652 + Missense_Mutation SNP G G C novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . RAPGEF6 NM_001164387 exon21 c.C2933G p.P978R TTGCTTGGTAACT . 100.0 43.0 110.0 0.0 . 361 . . . none . . PASS Atlas-SNP PCDHB3 56132 hgsc.bcm.edu hg19 5 140482079 140482079 + Missense_Mutation SNP G G C novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . PCDHB3 NM_018937 exon1 c.G1846C p.G616R CTGTTCGGCGTGT . 30.0 16.0 31.0 0.0 . 208 . . . none . . PASS Atlas-SNP KIFC1 3833 hgsc.bcm.edu hg19 6 33365934 33365934 + Silent SNP G G A rs368144446 TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . KIFC1 NM_002263 exon2 c.G141A p.E47E CCTGGAGCCTGAG . 123.0 57.0 119.0 0.0 . 47 . . . weak . . PASS Atlas-SNP POP7 10248 hgsc.bcm.edu hg19 7 100304640 100304640 + Nonsense_Mutation SNP C C T novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . POP7 NM_005837 exon2 c.C187T p.Q63X CGGGGTCAGAACG . 230.0 78.0 86.0 0.0 . 8 . . . none . . PASS Atlas-SNP RELN 5649 hgsc.bcm.edu hg19 7 103474054 103474054 + Missense_Mutation SNP G G C novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . RELN NM_173054 exon3 c.C403G p.H135D GCAGGTGACTCAC . 228.0 39.0 140.0 0.0 . 593 . . . none . . PASS Atlas-SNP SND1 27044 hgsc.bcm.edu hg19 7 127725765 127725765 + Missense_Mutation SNP A A G novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . SND1 NM_014390 exon20 c.A2237G p.Y746C GCAGGTACCGTGC . 83.0 10.0 53.0 0.0 . 104 . . . none . . PASS Atlas-SNP PLXNA4 91584 hgsc.bcm.edu hg19 7 131864511 131864511 + Missense_Mutation SNP G G A novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . PLXNA4 NM_020911 exon20 c.C3809T p.T1270M TTCAGCGTGAGGT . 130.0 25.0 70.0 0.0 . 873 . . . none . . PASS Atlas-SNP ZNF425 155054 hgsc.bcm.edu hg19 7 148801369 148801369 + Missense_Mutation SNP C C T novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb ZNF425,colon,carcinoma,0,1 ZNF425 NM_001001661 exon4 c.G1594A p.G532S TGCGGCCGCACTC . 145.0 31.0 51.0 0.0 . 99 . . . none . . PASS Atlas-SNP SSPO 23145 hgsc.bcm.edu hg19 7 149518600 149518600 + Silent SNP C C T novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . . NM_198455 exon88 c.C12669T p.T4223T CCGCACCCTGGGG . 76.0 31.0 55.0 0.0 . . . . . none . . PASS Atlas-SNP GPR124 25960 hgsc.bcm.edu hg19 8 37693093 37693093 + Missense_Mutation SNP A A G rs377757244 TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . GPR124 NM_032777 exon13 c.A1855G p.I619V GCCTCCATCCAGC . 40.0 15.0 56.0 0.0 . 85 . . . weak . . PASS Atlas-SNP NOL6 65083 hgsc.bcm.edu hg19 9 33467705 33467705 + Missense_Mutation SNP C C T novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . NOL6 NM_022917 exon12 c.G1586A p.R529Q GGGGGTCGAGAGT . 76.0 39.0 60.0 0.0 . 85 . . . none . . PASS Atlas-SNP PRKACG 5568 hgsc.bcm.edu hg19 9 71628443 71628443 + Missense_Mutation SNP G G A novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . PRKACG NM_002732 exon1 c.C566T p.A189V CGCTTGGCGAAAC . 79.0 30.0 67.0 0.0 . 65 . . . none . . PASS Atlas-SNP RALGDS 5900 hgsc.bcm.edu hg19 9 135975749 135975749 + Silent SNP A A C novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . RALGDS NM_006266 exon17 c.T2475G p.A825A AGCCGGAGCCTTA . 76.0 29.0 62.0 0.0 . 75 . . . none . . PASS Atlas-SNP OPTN 10133 hgsc.bcm.edu hg19 10 13167963 13167963 + Missense_Mutation SNP T T A novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . OPTN NM_001008212 exon11 c.T1166A p.L389Q CTGTGCTACAGAT . 139.0 47.0 157.0 0.0 . 57 . . . none . . PASS Atlas-SNP JMJD1C 221037 hgsc.bcm.edu hg19 10 64957243 64957243 + Missense_Mutation SNP A A G novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . JMJD1C NM_032776 exon13 c.T5572C p.W1858R AGACCCAGTGAAT . 90.0 35.0 110.0 0.0 . 347 . . . none . . PASS Atlas-SNP CDH23 64072 hgsc.bcm.edu hg19 10 73567274 73567274 + Silent SNP C C G novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb CDH23,colon,carcinoma,0,1 CDH23 NM_022124 exon57 c.C8310G p.A2770A CTCAGCCGGCAAC . 78.0 33.0 55.0 0.0 . 365 . . . none . . PASS Atlas-SNP ECD 11319 hgsc.bcm.edu hg19 10 74899240 74899240 + Silent SNP T T C novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . ECD NM_001135752 exon12 c.A1347G p.L449L GAGATCTAACCAC . 47.0 20.0 58.0 0.0 . 50 . . . none . . PASS Atlas-SNP MUC2 4583 hgsc.bcm.edu hg19 11 1093437 1093437 + Silent SNP G G C novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb MUC2_ENST00000441003,NS,carcinoma,0,2 MUC2 NM_002457 exon30 c.G5256C p.T1752T CACCACGGTGACC . 25.0 3.0 25.0 0.0 . 614 . . . none . . PASS Atlas-SNP NUP160 23279 hgsc.bcm.edu hg19 11 47869930 47869930 + Missense_Mutation SNP C C T novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . NUP160 NM_015231 exon1 c.G43A p.V15M CCGTCACTTCCGG . 45.0 18.0 49.0 0.0 . 116 . . . none . . PASS Atlas-SNP ZBTB3 79842 hgsc.bcm.edu hg19 11 62520283 62520283 + Missense_Mutation SNP A A T novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . ZBTB3 NM_024784 exon2 c.T1004A p.V335D GCTGAGACAGGGG . 65.0 24.0 56.0 0.0 . 47 . . . none . . PASS Atlas-SNP FAM186A 121006 hgsc.bcm.edu hg19 12 50744556 50744556 + Missense_Mutation SNP G G A novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . FAM186A NM_001145475 exon4 c.C6059T p.T2020I TATTTGGTGAAAT . 151.0 78.0 111.0 0.0 . 181 . . . none . . PASS Atlas-SNP SLC4A8 9498 hgsc.bcm.edu hg19 12 51853759 51853759 + Missense_Mutation SNP A A G novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . SLC4A8 NM_001039960 exon8 c.A880G p.I294V AAAAAAATTCCTA . 138.0 70.0 138.0 0.0 . 292 . . . none . . PASS Atlas-SNP ANKS1B 56899 hgsc.bcm.edu hg19 12 99837527 99837527 + Missense_Mutation SNP G G A novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . ANKS1B NM_152788 exon11 c.C1499T p.T500I GGGCCTGTTGAGC . 209.0 139.0 164.0 1.0 . 180 . . . none . . PASS Atlas-SNP POLE 5426 hgsc.bcm.edu hg19 12 133219525 133219525 + Missense_Mutation SNP G G A novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . POLE NM_006231 exon36 c.C4609T p.L1537F CCAGGAGGAGGCC . 93.0 38.0 72.0 0.0 . 416 . . . none . . PASS Atlas-SNP SACS 26278 hgsc.bcm.edu hg19 13 23909168 23909168 + Silent SNP A A G novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . SACS NM_014363 exon10 c.T8847C p.I2949I AACATGAATAGGG . 81.0 37.0 72.0 0.0 . 871 . . . none . . PASS Atlas-SNP CDK8 1024 hgsc.bcm.edu hg19 13 26975672 26975672 + Missense_Mutation SNP A A T novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . CDK8 NM_001260 exon12 c.A1180T p.S394C GACAGCAGTCACA . 118.0 47.0 115.0 0.0 . 61 . . . none . . PASS Atlas-SNP ARHGEF40 55701 hgsc.bcm.edu hg19 14 21543510 21543510 + Silent SNP C C G novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . ARHGEF40 NM_018071 exon4 c.C1470G p.G490G AGAAGGCCCCCTG . 129.0 51.0 116.0 0.0 . 84 . . . none . . PASS Atlas-SNP PPP2R3C 55012 hgsc.bcm.edu hg19 14 35579746 35579746 + Silent SNP A A G rs201403377 bycluster;alternate_allele TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . PPP2R3C NM_017917 exon3 c.T276C p.D92D TTCATTATCTAAC . 43.0 14.0 38.0 0.0 . 44 . . . alt . . PASS Atlas-SNP DUT 1854 hgsc.bcm.edu hg19 15 48623926 48623926 + Missense_Mutation SNP A A G novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . DUT NM_001025248 exon1 c.A214G p.T72A GCCAGTACAGTCG . 29.0 6.0 27.0 0.0 . 9 . . . none . . PASS Atlas-SNP ZNF280D 54816 hgsc.bcm.edu hg19 15 56935189 56935189 + Silent SNP T T C novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . ZNF280D NM_017661 exon20 c.A2220G p.K740K TTCTTTTTTTAAT . 419.0 167.0 405.0 0.0 . 82 . . . none . . PASS Atlas-SNP MRPL46 26589 hgsc.bcm.edu hg19 15 89010546 89010546 + Silent SNP C C T novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . MRPL46 NM_022163 exon1 c.G63A p.R21R CCAGAGCCTCTCG . 107.0 50.0 114.0 0.0 . 13 . . . none . . PASS Atlas-SNP LRRK1 79705 hgsc.bcm.edu hg19 15 101602839 101602839 + Missense_Mutation SNP G G T novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . LRRK1 NM_024652 exon31 c.G4858T p.A1620S CAACAGGCCTTGG . 88.0 34.0 119.0 0.0 . 310 . . . none . . PASS Atlas-SNP PPL 5493 hgsc.bcm.edu hg19 16 4933991 4933991 + Silent SNP G G C novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . PPL NM_002705 exon22 c.C4665G p.S1555S TTCCTTGGATGAC . 33.0 16.0 51.0 0.0 . 168 . . . none . . PASS Atlas-SNP C16orf72 29035 hgsc.bcm.edu hg19 16 9186850 9186850 + Missense_Mutation SNP T T A novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . C16orf72 NM_014117 exon2 c.T299A p.L100H CCAATCTCTACAA . 124.0 48.0 131.0 0.0 . 26 . . . none . . PASS Atlas-SNP SLC6A2 6530 hgsc.bcm.edu hg19 16 55719085 55719085 + Silent SNP C C T novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . SLC6A2 NM_001172501 exon5 c.C675T p.S225S GAGCAGCGGGATT . 60.0 26.0 46.0 0.0 . 189 . . . none . . PASS Atlas-SNP DPEP1 1800 hgsc.bcm.edu hg19 16 89704613 89704613 + Missense_Mutation SNP T T C novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . DPEP1 NM_001128141 exon11 c.T1219C p.C407R GTCCTCTGTCTGT . 33.0 10.0 27.0 0.0 . 39 . . . none . . PASS Atlas-SNP SCARF1 8578 hgsc.bcm.edu hg19 17 1540075 1540075 + Missense_Mutation SNP C C T novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . SCARF1 NM_003693 exon10 c.G1561A p.D521N AGGAGTCATCAGT . 68.0 31.0 67.0 0.0 . 46 . . . none . . PASS Atlas-SNP ALOX15B 247 hgsc.bcm.edu hg19 17 7948885 7948885 + Missense_Mutation SNP C C T rs370434436 TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb ALOX15B,NS,carcinoma,0,1 ALOX15B NM_001141 exon8 c.C1081T p.R361C TGGGTGCGCAATG . 41.0 3.0 50.0 0.0 . 66 . . . weak . . PASS Atlas-SNP MYH10 4628 hgsc.bcm.edu hg19 17 8448780 8448780 + Missense_Mutation SNP A A G novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . MYH10 NM_001256012 exon13 c.T1417C p.F473L TTTCAAATCCAGC . 69.0 27.0 74.0 0.0 . 148 . . . none . . PASS Atlas-SNP KRT10 3858 hgsc.bcm.edu hg19 17 38975316 38975316 + Missense_Mutation SNP G G A novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . KRT10 NM_000421 exon7 c.C1471T p.H491Y CGCCGTGGCCGCC . 125.0 8.0 44.0 0.0 . 56 . . . none . . PASS Atlas-SNP PLEKHH3 79990 hgsc.bcm.edu hg19 17 40823573 40823573 + Silent SNP G G T novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . PLEKHH3 NM_024927 exon8 c.C1080A p.T360T CTGCTCGGTCCTG . 152.0 40.0 112.0 0.0 . 49 . . . none . . PASS Atlas-SNP DHX8 1659 hgsc.bcm.edu hg19 17 41597598 41597598 + Missense_Mutation SNP T T A novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . DHX8 NM_004941 exon19 c.T2900A p.L967Q GGGCCCTGGATGA . 84.0 22.0 77.0 0.0 . 98 . . . none . . PASS Atlas-SNP DSG4 147409 hgsc.bcm.edu hg19 18 28968923 28968923 + Silent SNP C C T novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . DSG4 NM_001134453 exon5 c.C459T p.N153N TGATAACGCTCCA . 100.0 46.0 77.0 0.0 . 343 . . . none . . PASS Atlas-SNP FZR1 51343 hgsc.bcm.edu hg19 19 3527661 3527661 + Missense_Mutation SNP C C G novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . FZR1 NM_001136198 exon6 c.C503G p.T168S AACCCACCCGCAA . 40.0 15.0 41.0 0.0 . 42 . . . none . . PASS Atlas-SNP PLIN4 729359 hgsc.bcm.edu hg19 19 4512405 4512405 + Missense_Mutation SNP T T G novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . PLIN4 NM_001080400 exon3 c.A1525C p.T509P TGGTGGTGTCTAC . 92.0 32.0 81.0 0.0 . 191 . . . none . . PASS Atlas-SNP CLEC4M 10332 hgsc.bcm.edu hg19 19 7830731 7830731 + Missense_Mutation SNP G G A rs76899402 bycluster TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb CLEC4M,colon,carcinoma,0,1 CLEC4M NM_001144908 exon4 c.G422A p.R141Q TGACCCGGCTGAA . 30.0 2.0 28.0 0.0 . 58 . . . weak G|0.250;A|0.750 0.750 PASS Atlas-SNP TNPO2 30000 hgsc.bcm.edu hg19 19 12816127 12816127 + Missense_Mutation SNP T T C novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . TNPO2 NM_013433 exon17 c.A1949G p.E650G AGGCCCTCGGCCA . 58.0 23.0 58.0 0.0 . 108 . . . none . . PASS Atlas-SNP ZNF536 9745 hgsc.bcm.edu hg19 19 30934626 30934626 + Missense_Mutation SNP C C T novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . ZNF536 NM_014717 exon2 c.C157T p.R53W CATCCCCGGCCCA . 80.0 42.0 89.0 0.0 . 424 . . . none . . PASS Atlas-SNP MKKS 8195 hgsc.bcm.edu hg19 20 10393727 10393727 + Missense_Mutation SNP T T G novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . MKKS NM_170784 exon3 c.A436C p.S146R GAGTACTACTAAA . 53.0 24.0 62.0 0.0 . 35 . . . none . . PASS Atlas-SNP ISM1 140862 hgsc.bcm.edu hg19 20 13273028 13273028 + Silent SNP A A G novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . ISM1 NM_080826 exon5 c.A795G p.E265E AATTGAAGACACT . 67.0 27.0 91.0 0.0 . 41 . . . none . . PASS Atlas-SNP PLXNB2 23654 hgsc.bcm.edu hg19 22 50721158 50721158 + Missense_Mutation SNP G G A novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb PLXNB2,NS,carcinoma,0,1 PLXNB2 NM_012401 exon18 c.C2969T p.P990L CGTAGCGGCTCGA . 121.0 57.0 111.0 0.0 . 172 . . . none . . PASS Atlas-SNP MAGIX 79917 hgsc.bcm.edu hg19 X 49022721 49022721 + Missense_Mutation SNP G G A novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . MAGIX NM_024859 exon6 c.G988A p.G330R GCAGCCGGAAGGC . 57.0 10.0 77.0 0.0 . 25 . . . none . . PASS Atlas-SNP GABRQ 55879 hgsc.bcm.edu hg19 X 151821371 151821371 + Missense_Mutation SNP G G A novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . GABRQ NM_018558 exon9 c.G1526A p.R509H ATGAGCGCCATGG . 97.0 81.0 90.0 0.0 . 131 . . . none . . PASS Atlas-SNP USP15 9958 hgsc.bcm.edu hg19 12 62777661 62777667 + Frame_Shift_Del DEL AGCAGCA AGCAGCA - novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 AGCAGCA AGCAGCA . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . USP15 NM_001252078 exon10 c.1129_1135del p.377_379del . . 89.0 28.0 88.0 0.0 . 105 . 0.314607 0 none . . PASS Atlas-Indel,Pindel ACN9 57001 hgsc.bcm.edu hg19 7 96810419 96810420 + Frame_Shift_Ins INS - - A novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . ACN9 NM_020186 exon2 c.270_271insA p.L90fs . . 924.0 671.0 410.0 0.0 . 19 . 0.72619 0 none . . PASS Atlas-Indel,Pindel GABRB3 2562 hgsc.bcm.edu hg19 15 26793258 26793258 + Frame_Shift_Del DEL C C - novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . GABRB3 NM_021912 exon9 c.1105delT p.L369X . . 55.0 29.0 65.0 0.0 . 338 . 0.527273 0 none . . PASS Atlas-Indel,Pindel CYP2J2 1573 hgsc.bcm.edu hg19 1 60370654 60370654 + Frame_Shift_Del DEL G G - novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . CYP2J2 NM_000775 exon7 c.1081delT p.Y361fs . . 76.0 26.0 89.0 0.0 . 34 . 0.342105 0 none . . PASS Atlas-Indel,Pindel IL12RB2 3595 hgsc.bcm.edu hg19 1 67816591 67816592 + Frame_Shift_Ins INS - - TA novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . IL12RB2 NM_001559 exon9 c.1077_1078insTA p.H359fs . . 381.0 144.0 395.0 0.0 . 94 . 0.377953 0 none . . PASS Atlas-Indel,Pindel CHP1 11261 hgsc.bcm.edu hg19 15 41555021 41555022 + Frame_Shift_Ins INS - - A novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . . NM_007236 exon4 c.289_290insA p.E97fs . . 236.0 84.0 190.0 0.0 . . . 0.355932 0 none . . PASS Atlas-Indel,Pindel PSG9 5678 hgsc.bcm.edu hg19 19 43762353 43762353 + Splice_Site DEL C C - novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . PSG9 NM_002784 exon6 c.1243+2G>- . . . 110.0 48.0 73.0 0.0 . 77 . 0.436364 0 none . . PASS Atlas-Indel,Pindel MIRLET7BHG 400931 hgsc.bcm.edu hg19 22 46501743 46501744 + RNA DEL CA CA - novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 CA CA . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . . . . . . . . 39.0 16.0 19.0 0.0 . . . 0.410256 0 none . . PASS Atlas-Indel,Pindel TULP4 56995 hgsc.bcm.edu hg19 6 158882608 158882629 + Frame_Shift_Del DEL GTGGTGCACACAGGGGGACTTG GTGGTGCACACAGGGGGACTTG - novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 GTGGTGCACACAGGGGGACTTG GTGGTGCACACAGGGGGACTTG . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . TULP4 NM_001007466 exon6 c.872_893del p.291_298del . . 41.0 15.0 46.0 0.0 . 137 . 0.365854 0 none . . PASS Atlas-Indel,Pindel ARHGEF40 55701 hgsc.bcm.edu hg19 14 21543506 21543506 + Frame_Shift_Del DEL A A - novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . ARHGEF40 NM_018071 exon4 c.1465delG p.E489fs . . 128.0 52.0 120.0 0.0 . 84 . 0.40625 0 none . . PASS Atlas-Indel,Pindel CUBN 8029 hgsc.bcm.edu hg19 10 17113553 17113554 + Frame_Shift_Ins INS - - A novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb CUBN,NS,carcinoma,0,1 CUBN NM_001081 exon19 c.2497_2498insT p.P833fs . . 42.0 11.0 62.0 0.0 . 515 . 0.261905 0 none . . PASS Atlas-Indel,Pindel CALCR 799 hgsc.bcm.edu hg19 7 93090259 93090259 + Frame_Shift_Del DEL C C - novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . CALCR NM_001164737 exon10 c.625delA p.S209fs . . 168.0 26.0 108.0 0.0 . 200 . 0.154762 0 none . . PASS Atlas-INDEL ZNF423 23090 hgsc.bcm.edu hg19 16 49672690 49672690 + Frame_Shift_Del DEL G G - novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . ZNF423 NM_015069 exon4 c.374delT p.L125fs . . 60.0 22.0 59.0 0.0 . 463 . 0.366667 0 none . . PASS Atlas-INDEL ZNF423 23090 hgsc.bcm.edu hg19 16 49672693 49672695 + In_Frame_Del DEL CAC CAC - novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 CAC CAC . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . ZNF423 NM_015069 exon4 c.369_371del p.123_124del . . 58.0 22.0 56.0 0.0 . 463 . 0.37931 0 none . . PASS Atlas-INDEL CALCR 799 hgsc.bcm.edu hg19 7 93090262 93090267 + Splice_Site DEL GGAAGA GGAAGA - novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 GGAAGA GGAAGA . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . CALCR . . . . . . 161.0 25.0 108.0 0.0 . 200 . 0.15528 0 none . . PASS Atlas-INDEL TRIM13 10206 hgsc.bcm.edu hg19 13 50588476 50588477 + RNA INS - - T novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . TRIM13 . . . . . . 28.0 13.0 26.0 0.0 . 30 . 0.464286 0 none . . PASS Atlas-INDEL TNRC18 84629 hgsc.bcm.edu hg19 7 5352473 5352476 + Frame_Shift_Del DEL ATCG ATCG - novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 ATCG ATCG . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . TNRC18 NM_001080495 exon27 c.8047_8050del p.2683_2684del . . 101.0 47.0 83.0 0.0 . 311 . 0.465347 0 none . . PASS Atlas-Indel,Pindel CALCR 799 hgsc.bcm.edu hg19 7 93090260 93090267 + Frame_Shift_Del DEL CTGGAAGA CTGGAAGA - novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 CTGGAAGA CTGGAAGA . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb .,2 CALCR NM_001164737 exon10 c.624_624del p.208_208del . . 163.0 23.0 107.0 0.0 . 200 . 0.141 . none . . PASS Pindel NOTCH3 4854 hgsc.bcm.edu hg19 19 15288556 15288567 + In_Frame_Del DEL TGGCCTGGCAGG TGGCCTGGCAGG - novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 TGGCCTGGCAGG TGGCCTGGCAGG . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . NOTCH3 NM_000435 exon24 c.4173_4184del p.1391_1395del . . 94.0 21.0 97.0 0.0 . 340 . 0.223 . none . . PASS Pindel ZNF423 23090 hgsc.bcm.edu hg19 16 49672691 49672695 + Frame_Shift_Del DEL GTCAC GTCAC - novel TCGA-P4-AAVL-01A-11D-A42J-10 TCGA-P4-AAVL-11A-11D-A42M-10 GTCAC GTCAC . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 8b18e7e6-d0a7-4c8a-bfb9-9506aa7053e4 fb226698-844d-4a24-86c2-29571549b9bb . ZNF423 NM_015069 exon4 c.369_373del p.123_125del . . 60.0 20.0 58.0 0.0 . 463 . 0.333 . none . . PASS Pindel