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 PRDM16 63976 hgsc.bcm.edu hg19 1 3322089 3322089 + Missense_Mutation SNP C C A novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . PRDM16 NM_022114 exon8 c.C1063A p.H355N CAGCGGCACATCC . 75.0 19.0 87.0 0.0 . 147 . . . none . . PASS Atlas-SNP TNFRSF8 943 hgsc.bcm.edu hg19 1 12169703 12169703 + Missense_Mutation SNP G G C novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . TNFRSF8 NM_001243 exon5 c.G502C p.E168Q TGCAAGGAACCCT . 51.0 13.0 74.0 0.0 . 70 . . . none . . PASS Atlas-SNP ARID1A 8289 hgsc.bcm.edu hg19 1 27056261 27056261 + Silent SNP G G T novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . ARID1A NM_006015 exon2 c.G1257T p.G419G CCCAGGGCAGCCA . 240.0 63.0 246.0 0.0 . 842 . . . none . . PASS Atlas-SNP DAB1 1600 hgsc.bcm.edu hg19 1 57610985 57610985 + Missense_Mutation SNP T T C novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . DAB1 NM_021080 exon5 c.A185G p.Q62R GAATCTTGACATA . 106.0 27.0 136.0 0.0 . 129 . . . none . . PASS Atlas-SNP SYCP1 6847 hgsc.bcm.edu hg19 1 115428830 115428830 + Missense_Mutation SNP G G C novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 SYCP1,NS,malignant_melanoma,0,2 SYCP1 NM_003176 exon14 c.G1090C p.E364Q CAAATGGAAGAAT . 121.0 34.0 112.0 0.0 . 149 . . . none . . PASS Atlas-SNP C1orf110 339512 hgsc.bcm.edu hg19 1 162825494 162825494 + Missense_Mutation SNP C C G novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . C1orf110 NM_178550 exon3 c.G242C p.R81T TCTGGTCTCTTCT . 220.0 52.0 224.0 0.0 . 22 . . . none . . PASS Atlas-SNP TROVE2 6738 hgsc.bcm.edu hg19 1 193038376 193038376 + Missense_Mutation SNP G G T novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 TROVE2,NS,carcinoma,0,1 TROVE2 NM_004600 exon2 c.G192T p.L64F TAGATTGATTGAA . 141.0 21.0 136.0 0.0 . 50 . . . none . . PASS Atlas-SNP DNAH14 127602 hgsc.bcm.edu hg19 1 225230800 225230800 + Silent SNP T T G novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . DNAH14 NM_001373 exon13 c.T1752G p.L584L CAATCTTGAAGAT . 65.0 20.0 62.0 0.0 . 300 . . . none . . PASS Atlas-SNP PYCR2 29920 hgsc.bcm.edu hg19 1 226111423 226111423 + Missense_Mutation SNP A A G novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . PYCR2 NM_013328 exon2 c.T116C p.L39P GTGGGCAGGTTCA . 87.0 20.0 78.0 0.0 . 13 . . . none . . PASS Atlas-SNP GRHL1 29841 hgsc.bcm.edu hg19 2 10139100 10139100 + Missense_Mutation SNP A A G novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . GRHL1 NM_198182 exon15 c.A1685G p.D562G TCTCAGACAAATA . 141.0 8.0 160.0 0.0 . 95 . . . none . . PASS Atlas-SNP ATL2 64225 hgsc.bcm.edu hg19 2 38527436 38527436 + Missense_Mutation SNP G G C novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . ATL2 NM_001135673 exon10 c.C1106G p.P369R GGATGTGGAAGTT . 38.0 11.0 41.0 0.0 . 49 . . . none . . PASS Atlas-SNP PLEKHH2 130271 hgsc.bcm.edu hg19 2 43937155 43937155 + Missense_Mutation SNP G G A novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 PLEKHH2,NS,carcinoma,0,1 PLEKHH2 NM_172069 exon12 c.G1993A p.E665K GCTTCTGAAAGTG . 308.0 82.0 323.0 0.0 . 156 . . . none . . PASS Atlas-SNP C2orf73 129852 hgsc.bcm.edu hg19 2 54587567 54587567 + Missense_Mutation SNP A A T novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . C2orf73 NM_001100396 exon5 c.A732T p.R244S CGTCAGACAGGCA . 123.0 25.0 112.0 0.0 . 17 . . . none . . PASS Atlas-SNP AFTPH 54812 hgsc.bcm.edu hg19 2 64779245 64779245 + Missense_Mutation SNP A A G novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . AFTPH NM_017657 exon2 c.A637G p.S213G CCTCTTAGCACTC . 89.0 22.0 81.0 0.0 . 117 . . . none . . PASS Atlas-SNP SH2D6 284948 hgsc.bcm.edu hg19 2 85662170 85662170 + Missense_Mutation SNP A A C novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . SH2D6 NM_198482 exon1 c.A92C p.N31T AGCTCAATAATCT . 194.0 46.0 257.0 0.0 . 15 . . . none . . PASS Atlas-SNP ANAPC1 64682 hgsc.bcm.edu hg19 2 112638235 112638235 + Silent SNP G G T novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . ANAPC1 NM_022662 exon2 c.C168A p.G56G CACCAAGCCAGCA . 267.0 75.0 272.0 0.0 . 116 . . . none . . PASS Atlas-SNP LY75 4065 hgsc.bcm.edu hg19 2 160746833 160746833 + Silent SNP T T C novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . LY75 NM_002349 exon4 c.A693G p.Q231Q ATTAAATTGGTAG . 105.0 12.0 115.0 0.0 . 151 . . . none . . PASS Atlas-SNP HOXD4 3233 hgsc.bcm.edu hg19 2 177017568 177017568 + Silent SNP A A T novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . HOXD4 NM_014621 exon2 c.A666T p.S222S CAGGTCATCGTCC . 94.0 19.0 94.0 0.0 . 32 . . . none . . PASS Atlas-SNP PRKRA 8575 hgsc.bcm.edu hg19 2 179300994 179300994 + Missense_Mutation SNP G G A novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . PRKRA NM_003690 exon7 c.C662T p.S221F CCAGGAGAATTCC . 77.0 14.0 68.0 0.0 . 56 . . . none . . PASS Atlas-SNP TTN 7273 hgsc.bcm.edu hg19 2 179455837 179455837 + Missense_Mutation SNP T T C novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . TTN NM_001267550 exon304 c.A60615G p.I20205M ATAATTTATCACA . 149.0 35.0 181.0 0.0 . 18412 . . . none . . PASS Atlas-SNP DLEC1 9940 hgsc.bcm.edu hg19 3 38101345 38101345 + Splice_Site SNP T T A novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . DLEC1 NM_007337 exon3 c.673+2T>A . TAAAGGTAATGCT . 79.0 12.0 88.0 0.0 . 278 . . . none . . PASS Atlas-SNP FAM19A4 151647 hgsc.bcm.edu hg19 3 68929968 68929968 + Missense_Mutation SNP G G T novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . FAM19A4 NM_182522 exon3 c.C43A p.L15M GCGACAGCAACAC . 141.0 8.0 103.0 0.0 . 23 . . . none . . PASS Atlas-SNP ABI3BP 25890 hgsc.bcm.edu hg19 3 100470405 100470405 + Missense_Mutation SNP T T C novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . ABI3BP NM_015429 exon34 c.A3103G p.I1035V CTTTGATTGGTAA . 116.0 21.0 94.0 0.0 . 305 . . . none . . PASS Atlas-SNP TRPC1 7220 hgsc.bcm.edu hg19 3 142443574 142443574 + Splice_Site SNP G G A novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . TRPC1 NM_003304 exon1 c.172+1G>A . ACAAGGGTGAGAG . 63.0 23.0 45.0 0.0 . 82 . . . none . . PASS Atlas-SNP ETV5 2119 hgsc.bcm.edu hg19 3 185774898 185774898 + Missense_Mutation SNP C C A novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 ETV5_ENST00000306376,NS,carcinoma,0,2 ETV5 NM_004454 exon11 c.G1175T p.R392L ATGCCTCGACCTG . 94.0 33.0 81.0 0.0 . 106 . . . none . . PASS Atlas-SNP CCDC50 152137 hgsc.bcm.edu hg19 3 191092937 191092937 + Missense_Mutation SNP C C T novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . CCDC50 NM_178335 exon6 c.C535T p.H179Y GTGAAGCACAAGA . 84.0 14.0 84.0 0.0 . 39 . . . none . . PASS Atlas-SNP MSANTD1 345222 hgsc.bcm.edu hg19 4 3254938 3254938 + Silent SNP T T C novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . MSANTD1 NM_001042690 exon2 c.T325C p.L109L AGGAAATTAAAAT . 70.0 12.0 86.0 0.0 . 14 . . . none . . PASS Atlas-SNP CDH9 1007 hgsc.bcm.edu hg19 5 26988254 26988254 + Missense_Mutation SNP A A T rs144749356 alternate_allele TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . CDH9 NM_016279 exon2 c.T187A p.L63M CTTCCAATAAGAA . 137.0 50.0 147.0 0.0 . 305 . . . alt A|1.000;G|0.000 . PASS Atlas-SNP GABRG2 2566 hgsc.bcm.edu hg19 5 161524860 161524860 + Missense_Mutation SNP C C G novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . GABRG2 NM_198904 exon4 c.C544G p.L182V TACACCCTAAGGT . 65.0 7.0 47.0 0.0 . 142 . . . none . . PASS Atlas-SNP TNXB 7148 hgsc.bcm.edu hg19 6 32014119 32014119 + Missense_Mutation SNP A A G novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . TNXB NM_019105 exon31 c.T10433C p.V3478A TGGACCACGAAGG . 57.0 12.0 57.0 0.0 . 553 . . . none . . PASS Atlas-SNP DNAH8 1769 hgsc.bcm.edu hg19 6 38976613 38976613 + Missense_Mutation SNP C C A novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . DNAH8 NM_001206927 exon89 c.C13238A p.A4413D CTTCTGCTGTTCT . 132.0 31.0 129.0 0.0 . 1239 . . . none . . PASS Atlas-SNP TTBK1 84630 hgsc.bcm.edu hg19 6 43250879 43250879 + Nonsense_Mutation SNP C C T novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . TTBK1 NM_032538 exon14 c.C2401T p.Q801X CGGAGCCAGGAGG . 103.0 20.0 94.0 0.0 . 124 . . . none . . PASS Atlas-SNP SCML4 256380 hgsc.bcm.edu hg19 6 108093476 108093476 + Missense_Mutation SNP G G A novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . SCML4 NM_198081 exon2 c.C56T p.T19M ATAGGCGTGGAGT . 115.0 18.0 113.0 0.0 . 65 . . . none . . PASS Atlas-SNP BCLAF1 9774 hgsc.bcm.edu hg19 6 136599311 136599311 + Silent SNP A A G novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . BCLAF1 NM_014739 exon4 c.T708C p.P236P CTGACTAGGTGGT . 109.0 17.0 98.0 0.0 . 203 . . . none . . PASS Atlas-SNP CNKSR3 154043 hgsc.bcm.edu hg19 6 154771340 154771340 + Silent SNP G G A novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . CNKSR3 NM_173515 exon2 c.C105T p.I35I GCCGTTGATCTTC . 78.0 23.0 87.0 0.0 . 56 . . . none . . PASS Atlas-SNP EIF3B 8662 hgsc.bcm.edu hg19 7 2409282 2409282 + Missense_Mutation SNP T T A novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . EIF3B NM_001037283 exon10 c.T1579A p.C527S TACTTGTGTGTGA . 95.0 19.0 95.0 0.0 . 54 . . . none . . PASS Atlas-SNP CDK14 5218 hgsc.bcm.edu hg19 7 90547017 90547017 + Silent SNP G G T novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . CDK14 NM_012395 exon7 c.G750T p.G250G CACGGGGGAGTTA . 118.0 9.0 129.0 0.0 . 153 . . . none . . PASS Atlas-SNP TTI2 80185 hgsc.bcm.edu hg19 8 33364813 33364813 + Silent SNP G G A novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . . NM_001265581 exon4 c.C861T p.N287N GGCTCTGTTATAC . 167.0 39.0 166.0 0.0 . . . . . none . . PASS Atlas-SNP SOX17 64321 hgsc.bcm.edu hg19 8 55370847 55370847 + Missense_Mutation SNP C C G novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . SOX17 NM_022454 exon1 c.C149G p.A50G CGCCGGCGAACAG . 41.0 9.0 33.0 0.0 . 37 . . . none . . PASS Atlas-SNP RPS20 6224 hgsc.bcm.edu hg19 8 56986652 56986652 + Missense_Mutation SNP G G T novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . RPS20 NM_001146227 exon2 c.C70A p.L24I TTGTTAGGGTGAT . 29.0 11.0 31.0 0.0 . 16 . . . none . . PASS Atlas-SNP CRISPLD1 83690 hgsc.bcm.edu hg19 8 75925137 75925137 + Silent SNP G G A rs369100451 TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 CRISPLD1,NS,carcinoma,0,1 CRISPLD1 NM_031461 exon4 c.G390A p.P130P GCCCCCGACGTTT . 89.0 17.0 105.0 2.0 . 94 . . . weak . . PASS Atlas-SNP JAK2 3717 hgsc.bcm.edu hg19 9 5081774 5081774 + Silent SNP T T A novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . JAK2 NM_004972 exon19 c.T2484A p.G828G GATAGGTGCCCTG . 122.0 25.0 105.0 0.0 . 35466 . . . none . . PASS Atlas-SNP DAB2IP 153090 hgsc.bcm.edu hg19 9 124526156 124526156 + Silent SNP C C T novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . DAB2IP NM_032552 exon8 c.C1374T p.Y458Y CTCCTACTGGTCA . 77.0 22.0 80.0 0.0 . 150 . . . none . . PASS Atlas-SNP TTC16 158248 hgsc.bcm.edu hg19 9 130485525 130485525 + Missense_Mutation SNP C C A novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . TTC16 NM_144965 exon7 c.C785A p.A262D TCCTGGCTGTGCA . 45.0 12.0 57.0 0.0 . 55 . . . none . . PASS Atlas-SNP QRFP 347148 hgsc.bcm.edu hg19 9 133768991 133768991 + Nonsense_Mutation SNP T T A novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . QRFP NM_198180 exon1 c.A235T p.R79X GCTCTCTGCCCGA . 84.0 20.0 79.0 0.0 . 14 . . . none . . PASS Atlas-SNP ITIH5 80760 hgsc.bcm.edu hg19 10 7683994 7683994 + Silent SNP G G A novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . ITIH5 NM_001001851 exon3 c.C195T p.A65A AGTGAAGGCATAA . 143.0 11.0 161.0 0.0 . 343 . . . none . . PASS Atlas-SNP SLC16A9 220963 hgsc.bcm.edu hg19 10 61424076 61424076 + Silent SNP A A G novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . SLC16A9 NM_194298 exon4 c.T345C p.L115L ACATCCAAGACCT . 64.0 19.0 71.0 0.0 . 58 . . . none . . PASS Atlas-SNP POLR3A 11128 hgsc.bcm.edu hg19 10 79744981 79744981 + Silent SNP G G A novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . POLR3A NM_007055 exon24 c.C3189T p.I1063I CAGGGTGATGTTC . 75.0 18.0 51.0 0.0 . 104 . . . none . . PASS Atlas-SNP C10orf76 79591 hgsc.bcm.edu hg19 10 103769138 103769138 + Nonsense_Mutation SNP A A C novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . C10orf76 NM_024541 exon13 c.T947G p.L316X TGAGCTAATACTG . 79.0 16.0 73.0 0.0 . 48 . . . none . . PASS Atlas-SNP SEC23IP 11196 hgsc.bcm.edu hg19 10 121689138 121689138 + Missense_Mutation SNP C C T novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . SEC23IP NM_007190 exon14 c.C2333T p.S778L ACAACTCATTAGA . 174.0 38.0 162.0 0.0 . 100 . . . none . . PASS Atlas-SNP RIC8A 60626 hgsc.bcm.edu hg19 11 209732 209732 + Missense_Mutation SNP A A G novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . RIC8A NM_021932 exon3 c.A458G p.E153G ACCGTGAGAGGAG . 53.0 13.0 54.0 0.0 . 45 . . . none . . PASS Atlas-SNP OR10A2 341276 hgsc.bcm.edu hg19 11 6891542 6891542 + Missense_Mutation SNP C C T novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . OR10A2 NM_001004460 exon1 c.C557T p.A186V TCTACGCCATCGT . 126.0 28.0 158.0 0.0 . 55 . . . none . . PASS Atlas-SNP MICAL2 9645 hgsc.bcm.edu hg19 11 12244191 12244191 + Silent SNP G G A novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . MICAL2 NM_014632 exon11 c.G1350A p.Q450Q ACCTCAGACAACC . 34.0 10.0 34.0 0.0 . 114 . . . none . . PASS Atlas-SNP OR5AS1 219447 hgsc.bcm.edu hg19 11 55798423 55798423 + Missense_Mutation SNP T T G novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . OR5AS1 NM_001001921 exon1 c.T529G p.F177V AATCATTTTTTCT . 241.0 56.0 240.0 0.0 . 121 . . . none . . PASS Atlas-SNP OR5M10 390167 hgsc.bcm.edu hg19 11 56344355 56344355 + Missense_Mutation SNP C C A novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . OR5M10 NM_001004741 exon1 c.G843T p.L281F TGGGCTCAAAAAA . 250.0 47.0 244.0 0.0 . 56 . . . none . . PASS Atlas-SNP FAM111B 374393 hgsc.bcm.edu hg19 11 58893342 58893342 + Missense_Mutation SNP C C A novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . FAM111B NM_198947 exon4 c.C1772A p.T591N GTTGTACTGTGAT . 143.0 35.0 132.0 0.0 . 84 . . . none . . PASS Atlas-SNP TMEM132A 54972 hgsc.bcm.edu hg19 11 60704300 60704300 + Missense_Mutation SNP G G C novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . TMEM132A NM_017870 exon11 c.G2996C p.R999P ACATCCGCTGGGT . 46.0 12.0 36.0 0.0 . 135 . . . none . . PASS Atlas-SNP CPT1A 1374 hgsc.bcm.edu hg19 11 68571538 68571538 + Missense_Mutation SNP G G T novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . CPT1A NM_001876 exon5 c.C485A p.P162H AACATGGGTTTTC . 88.0 18.0 62.0 0.0 . 89 . . . none . . PASS Atlas-SNP PCF11 51585 hgsc.bcm.edu hg19 11 82877674 82877674 + Missense_Mutation SNP A A G novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . PCF11 NM_015885 exon5 c.A1735G p.T579A TCAGGCACTGAAC . 83.0 16.0 80.0 0.0 . 220 . . . none . . PASS Atlas-SNP GPD1 2819 hgsc.bcm.edu hg19 12 50500627 50500627 + Missense_Mutation SNP T T C novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . GPD1 NM_005276 exon5 c.T539C p.L180P AAGAGCTGATGCA . 50.0 11.0 32.0 0.0 . 23 . . . none . . PASS Atlas-SNP PCBP2 5094 hgsc.bcm.edu hg19 12 53848614 53848614 + Missense_Mutation SNP A A C novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . PCBP2 NM_005016 exon2 c.A30C p.L10F TGGATTAAATGTC . 109.0 26.0 110.0 0.0 . 38 . . . none . . PASS Atlas-SNP PAN2 9924 hgsc.bcm.edu hg19 12 56720418 56720418 + Silent SNP G G A novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . PAN2 NM_014871 exon7 c.C1245T p.N415N AGCAGAGTTGGCA . 66.0 23.0 70.0 0.0 . 107 . . . none . . PASS Atlas-SNP LRP1 4035 hgsc.bcm.edu hg19 12 57548432 57548432 + Missense_Mutation SNP A A G novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . LRP1 NM_002332 exon8 c.A1175G p.E392G ATATTGAAGTGGT . 62.0 18.0 68.0 0.0 . 428 . . . none . . PASS Atlas-SNP FAM19A2 338811 hgsc.bcm.edu hg19 12 62148697 62148697 + Missense_Mutation SNP C C T novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . FAM19A2 NM_178539 exon3 c.G215A p.G72E ACCTGCCCAGGGA . 128.0 54.0 95.0 0.0 . 38 . . . none . . PASS Atlas-SNP TPTE2 93492 hgsc.bcm.edu hg19 13 20048076 20048076 + Missense_Mutation SNP G G C novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . TPTE2 NM_199254 exon7 c.C370G p.L124V GAAGAAGAACATC . 112.0 31.0 90.0 0.0 . 225 . . . none . . PASS Atlas-SNP ATP7B 540 hgsc.bcm.edu hg19 13 52513260 52513260 + Missense_Mutation SNP A A G novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . ATP7B NM_000053 exon17 c.T3626C p.L1209P CTCTGCAGCGTGT . 60.0 16.0 73.0 0.0 . 123 . . . none . . PASS Atlas-SNP IRG1 730249 hgsc.bcm.edu hg19 13 77531223 77531223 + Missense_Mutation SNP G G C novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . IRG1 NM_001258406 exon4 c.G537C p.K179N GACAAAGTGCCGA . 154.0 33.0 166.0 0.0 . 1 . . . none . . PASS Atlas-SNP SLITRK1 114798 hgsc.bcm.edu hg19 13 84455218 84455218 + Missense_Mutation SNP A A G novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . SLITRK1 NM_052910 exon1 c.T425C p.L142S TCTCGTAATAAAT . 72.0 25.0 79.0 0.0 . 196 . . . none . . PASS Atlas-SNP SLC10A2 6555 hgsc.bcm.edu hg19 13 103701721 103701721 + Silent SNP A A G novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . SLC10A2 NM_000452 exon5 c.T837C p.T279T CTCAGGAGTGAAG . 97.0 18.0 86.0 0.0 . 67 . . . none . . PASS Atlas-SNP OR4K17 390436 hgsc.bcm.edu hg19 14 20586055 20586055 + Missense_Mutation SNP A A G novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . OR4K17 NM_001004715 exon1 c.A490G p.M164V CACTACATGACCA . 244.0 54.0 186.0 0.0 . 58 . . . none . . PASS Atlas-SNP METTL3 56339 hgsc.bcm.edu hg19 14 21967914 21967914 + Missense_Mutation SNP A A C novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . METTL3 NM_019852 exon7 c.T1337G p.L446R CCCCAGAGATTTA . 126.0 42.0 119.0 0.0 . 48 . . . none . . PASS Atlas-SNP PCNX 22990 hgsc.bcm.edu hg19 14 71524368 71524368 + Silent SNP C C G novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . PCNX NM_014982 exon26 c.C4779G p.L1593L CTATCTCAATGCA . 94.0 24.0 120.0 0.0 . 198 . . . none . . PASS Atlas-SNP CPSF2 53981 hgsc.bcm.edu hg19 14 92608527 92608527 + Silent SNP T T A novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . CPSF2 NM_017437 exon8 c.T681A p.L227L AACACTTCGAGGT . 237.0 64.0 265.0 0.0 . 63 . . . none . . PASS Atlas-SNP USP3 9960 hgsc.bcm.edu hg19 15 63866572 63866572 + Missense_Mutation SNP C C A novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . USP3 NM_006537 exon11 c.C1066A p.Q356K AAGAATCAAGAAA . 278.0 61.0 299.0 0.0 . 37 . . . none . . PASS Atlas-SNP THSD4 79875 hgsc.bcm.edu hg19 15 72030175 72030175 + Missense_Mutation SNP G G A novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . THSD4 NM_024817 exon10 c.G1735A p.E579K GCCCCTGAGATGT . 103.0 15.0 114.0 0.0 . 75 . . . none . . PASS Atlas-SNP SCAMP2 10066 hgsc.bcm.edu hg19 15 75146985 75146985 + Silent SNP G G T novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . SCAMP2 NM_005697 exon2 c.C63A p.P21P CACAGAGGGATCC . 66.0 15.0 97.0 0.0 . 18 . . . none . . PASS Atlas-SNP ITGAM 3684 hgsc.bcm.edu hg19 16 31341675 31341675 + Missense_Mutation SNP T T A novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . ITGAM NM_001145808 exon27 c.T3110A p.F1037Y TCCCGTTCTTTGG . 107.0 38.0 95.0 0.0 . 137 . . . none . . PASS Atlas-SNP GLG1 2734 hgsc.bcm.edu hg19 16 74487150 74487150 + Missense_Mutation SNP C C T novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . GLG1 NM_001145667 exon26 c.G3455A p.S1152N CTCCCACTGATCA . 142.0 52.0 133.0 0.0 . 106 . . . none . . PASS Atlas-SNP CENPN 55839 hgsc.bcm.edu hg19 16 81060147 81060147 + Missense_Mutation SNP T T G novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 CENPN_ENST00000439957,NS,lymphoid_neoplasm,0,3 CENPN NM_001100624 exon9 c.T714G p.I238M GATCATTCATGAA . 260.0 104.0 252.0 0.0 . 84 . . . none . . PASS Atlas-SNP PIEZO1 9780 hgsc.bcm.edu hg19 16 88782672 88782672 + Missense_Mutation SNP G G C novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . PIEZO1 NM_001142864 exon49 c.C7063G p.L2355V GGAAGAGATTAGG . 50.0 14.0 42.0 0.0 . 79 . . . none . . PASS Atlas-SNP SHPK 23729 hgsc.bcm.edu hg19 17 3526658 3526658 + Nonsense_Mutation SNP G G A novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . SHPK NM_013276 exon4 c.C622T p.Q208X GGCTCTGCGTGTT . 86.0 23.0 98.0 0.0 . 34 . . . none . . PASS Atlas-SNP USP6 9098 hgsc.bcm.edu hg19 17 5071273 5071273 + Missense_Mutation SNP C C T novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . USP6 NM_004505 exon26 c.C3083T p.A1028V CGCAAGCCGAGCC . 139.0 25.0 116.0 0.0 . 213 . . . none . . PASS Atlas-SNP DLG4 1742 hgsc.bcm.edu hg19 17 7106870 7106870 + Silent SNP G G A novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 DLG4_ENST00000302955,NS,carcinoma,0,2 DLG4 NM_001365 exon8 c.C507T p.R169R CACCTCGCGCACG . 31.0 8.0 43.0 0.0 . 110 . . . none . . PASS Atlas-SNP RAI1 10743 hgsc.bcm.edu hg19 17 17697241 17697241 + Missense_Mutation SNP G G T novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . RAI1 NM_030665 exon3 c.G979T p.A327S GACGCAGCCGTCC . 48.0 11.0 51.0 0.0 . 121 . . . none . . PASS Atlas-SNP ALDH3A2 224 hgsc.bcm.edu hg19 17 19564524 19564524 + Missense_Mutation SNP C C A novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . ALDH3A2 NM_001031806 exon6 c.C883A p.L295I AGTTTGCTTGAAG . 90.0 26.0 88.0 0.0 . 41 . . . none . . PASS Atlas-SNP ATP6V0A1 535 hgsc.bcm.edu hg19 17 40647714 40647714 + Missense_Mutation SNP T T C novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . ATP6V0A1 NM_001130020 exon14 c.T1561C p.Y521H GGACCATACCCTT . 67.0 17.0 78.0 0.0 . 67 . . . none . . PASS Atlas-SNP NBR1 4077 hgsc.bcm.edu hg19 17 41353793 41353793 + Missense_Mutation SNP A A T novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . NBR1 NM_031862 exon18 c.A2559T p.R853S GATCAGAGGAGGT . 160.0 31.0 194.0 0.0 . 55 . . . none . . PASS Atlas-SNP NFE2L1 4779 hgsc.bcm.edu hg19 17 46136179 46136179 + Missense_Mutation SNP T T C novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . NFE2L1 NM_003204 exon6 c.T1495C p.S499P TCTTCCTCTTCTT . 53.0 18.0 40.0 0.0 . 60 . . . none . . PASS Atlas-SNP ACE 1636 hgsc.bcm.edu hg19 17 61573760 61573760 + Missense_Mutation SNP T T C novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . ACE NM_000789 exon23 c.T3386C p.F1129S GGTACTTTGTCAG . 105.0 32.0 86.0 0.0 . 187 . . . none . . PASS Atlas-SNP LPIN2 9663 hgsc.bcm.edu hg19 18 2927795 2927795 + Silent SNP G G A novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . LPIN2 NM_014646 exon12 c.C1635T p.S545S CACCCAGGACTCA . 134.0 24.0 151.0 0.0 . 75 . . . none . . PASS Atlas-SNP SOCS6 9306 hgsc.bcm.edu hg19 18 67992989 67992989 + Missense_Mutation SNP A A T novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . SOCS6 NM_004232 exon2 c.A1085T p.Q362L CAGTGCAAAGTAG . 88.0 18.0 72.0 0.0 . 54 . . . none . . PASS Atlas-SNP CIRBP 1153 hgsc.bcm.edu hg19 19 1272031 1272031 + Missense_Mutation SNP A A C novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . CIRBP NM_001280 exon6 c.A483C p.R161S CTACAGAGACAGT . 110.0 35.0 154.0 0.0 . 19 . . . none . . PASS Atlas-SNP GTF2F1 2962 hgsc.bcm.edu hg19 19 6387445 6387445 + Missense_Mutation SNP C C T novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . GTF2F1 NM_002096 exon5 c.G452A p.R151Q CGATGCCGGGCCA . 48.0 11.0 67.0 0.0 . 39 . . . none . . PASS Atlas-SNP MUC16 94025 hgsc.bcm.edu hg19 19 9071193 9071193 + Missense_Mutation SNP T T A novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . MUC16 NM_024690 exon3 c.A16253T p.H5418L GTGGAATGATGCA . 183.0 48.0 159.0 0.0 . 4315 . . . none . . PASS Atlas-SNP MUC16 94025 hgsc.bcm.edu hg19 19 9071194 9071194 + Missense_Mutation SNP G G A novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . MUC16 NM_024690 exon3 c.C16252T p.H5418Y TGGAATGATGCAT . 183.0 48.0 162.0 0.0 . 4315 . . . none . . PASS Atlas-SNP COL5A3 50509 hgsc.bcm.edu hg19 19 10106262 10106262 + Missense_Mutation SNP G G T novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . COL5A3 NM_015719 exon16 c.C1565A p.P522H CCAGGGGGTCCAT . 41.0 9.0 40.0 0.0 . 243 . . . none . . PASS Atlas-SNP UNC13A 23025 hgsc.bcm.edu hg19 19 17720812 17720812 + Missense_Mutation SNP C C T novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . UNC13A NM_001080421 exon41 c.G4748A p.R1583H AACTTGCGTTTCT . 90.0 18.0 117.0 0.0 . 299 . . . none . . PASS Atlas-SNP NLRP7 199713 hgsc.bcm.edu hg19 19 55447667 55447667 + Missense_Mutation SNP G G T novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . NLRP7 NM_001127255 exon6 c.C2262A p.D754E GAGCAGGTCACAC . 81.0 22.0 69.0 0.0 . 411 . . . none . . PASS Atlas-SNP ZNF551 90233 hgsc.bcm.edu hg19 19 58199244 58199244 + Missense_Mutation SNP G G T novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . ZNF551 NM_138347 exon3 c.G1601T p.S534I AGTGCAGTGAATG . 67.0 16.0 82.0 0.0 . 65 . . . none . . PASS Atlas-SNP C20orf194 25943 hgsc.bcm.edu hg19 20 3305593 3305593 + Missense_Mutation SNP G G C rs190605250 bycluster;by1000genomes;alternate_allele TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . C20orf194 NM_001009984 exon14 c.C1211G p.T404S CCCAGAGTTTGCT . 59.0 5.0 75.0 0.0 . 83 . . . alt G|1.000;A|0.000 . PASS Atlas-SNP RALGAPB 57148 hgsc.bcm.edu hg19 20 37159824 37159824 + Missense_Mutation SNP A A T novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . RALGAPB NM_020336 exon14 c.A2065T p.I689F TTAAATATTGTTC . 130.0 34.0 127.0 0.0 . 134 . . . none . . PASS Atlas-SNP L3MBTL1 26013 hgsc.bcm.edu hg19 20 42157990 42157990 + Silent SNP C C T novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . L3MBTL1 NM_032107 exon9 c.C972T p.F324F GTACTTCATCCTC . 71.0 26.0 58.0 0.0 . 105 . . . none . . PASS Atlas-SNP CSE1L 1434 hgsc.bcm.edu hg19 20 47686789 47686789 + Missense_Mutation SNP T T A novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . CSE1L NM_001256135 exon8 c.T723A p.N241K GAATAATTTTCAT . 82.0 23.0 87.0 0.0 . 83 . . . none . . PASS Atlas-SNP PCK1 5105 hgsc.bcm.edu hg19 20 56137813 56137813 + Silent SNP C C A rs144907840 alternate_allele TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . PCK1 NM_002591 exon4 c.C468A p.I156I AAAGATCGGCATC . 55.0 15.0 75.0 0.0 . 95 . . . alt C|1.000;T|0.000 . PASS Atlas-SNP LTN1 26046 hgsc.bcm.edu hg19 21 30339388 30339388 + Missense_Mutation SNP T T G novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . LTN1 NM_015565 exon10 c.A1563C p.K521N TTCATCTTTTTCC . 180.0 33.0 202.0 0.0 . 141 . . . none . . PASS Atlas-SNP MX2 4600 hgsc.bcm.edu hg19 21 42775260 42775260 + Missense_Mutation SNP A A G novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . MX2 NM_002463 exon12 c.A1640G p.Q547R TTAACCAAACTGT . 105.0 24.0 128.0 0.0 . 84 . . . none . . PASS Atlas-SNP PFKL 5211 hgsc.bcm.edu hg19 21 45744509 45744509 + Missense_Mutation SNP G G A rs138177950 TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . PFKL NM_002626 exon17 c.G1786A p.E596K GTCTTCGAGGACC . 54.0 14.0 32.0 0.0 . 65 . . . weak G|1.000;A|0.000 0.000 PASS Atlas-SNP SREBF2 6721 hgsc.bcm.edu hg19 22 42301503 42301503 + Missense_Mutation SNP C C T rs372007376 TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . SREBF2 NM_004599 exon19 c.C3265T p.R1089C GCCTGCCGCCACC . 39.0 8.0 43.0 0.0 . 99 . . . weak . . PASS Atlas-SNP SBF1 6305 hgsc.bcm.edu hg19 22 50903456 50903456 + Missense_Mutation SNP A A G novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . SBF1 NM_002972 exon12 c.T1306C p.Y436H GGCGGTATGGGAC . 43.0 8.0 41.0 0.0 . 211 . . . none . . PASS Atlas-SNP NUDT10 170685 hgsc.bcm.edu hg19 X 51076122 51076122 + Missense_Mutation SNP A A T novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . NUDT10 NM_153183 exon2 c.A305T p.E102V TCACGGAGCTGCT . 222.0 107.0 216.0 0.0 . 28 . . . none . . PASS Atlas-SNP NXT2 55916 hgsc.bcm.edu hg19 X 108779141 108779141 + Silent SNP G G A novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . NXT2 NM_018698 exon1 c.G30A p.Q10Q GTCTCAGGGAGAC . 151.0 83.0 179.0 0.0 . 16 . . . none . . PASS Atlas-SNP F8 2157 hgsc.bcm.edu hg19 X 154159622 154159622 + Nonsense_Mutation SNP G G A novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . F8 NM_000132 exon14 c.C2443T p.Q815X GACTCTGTCGCAA . 122.0 52.0 122.0 0.0 . 646 . . . none . . PASS Atlas-SNP ITSN2 50618 hgsc.bcm.edu hg19 2 24535088 24535094 + Frame_Shift_Del DEL AGCAGAA AGCAGAA - novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 AGCAGAA AGCAGAA . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . ITSN2 NM_147152 exon5 c.340_346del p.114_116del . . 129.0 12.0 161.0 0.0 . 224 . 0.0930233 0 none . . PASS Atlas-INDEL GK 2710 hgsc.bcm.edu hg19 X 30671708 30671708 + Frame_Shift_Del DEL G G - novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . GK NM_203391 exon1 c.53delA p.Q18fs . . 95.0 51.0 108.0 0.0 . 95 . 0.536842 0 none . . PASS Atlas-Indel,Pindel ITSN2 50618 hgsc.bcm.edu hg19 2 24535083 24535086 + Frame_Shift_Del DEL AAAC AAAC - novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 AAAC AAAC . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . ITSN2 NM_147152 exon5 c.348_351del p.116_117del . . 127.0 12.0 155.0 0.0 . 224 . 0.0944882 0 none . . PASS Atlas-INDEL LTBP2 4053 hgsc.bcm.edu hg19 14 74976904 74976904 + Frame_Shift_Del DEL C C - novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . LTBP2 NM_000428 exon20 c.3042delT p.C1014fs . . 35.0 15.0 25.0 0.0 . 158 . 0.428571 0 none . . PASS Atlas-INDEL ALOX12 239 hgsc.bcm.edu hg19 17 6899465 6899465 + Frame_Shift_Del DEL C C - novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . ALOX12 NM_000697 exon1 c.28delA p.T10fs . . 132.0 30.0 161.0 0.0 . 49 . 0.227273 0 none . . PASS Atlas-Indel,Pindel REM2 161253 hgsc.bcm.edu hg19 14 23355339 23355339 + Frame_Shift_Del DEL C C - novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 REM2,NS,carcinoma,0,1 REM2 NM_173527 exon4 c.625delA p.T209fs . . 69.0 20.0 60.0 0.0 . 21 . 0.289855 0 none . . PASS Atlas-Indel,Pindel MIR744 100126313 hgsc.bcm.edu hg19 17 11985218 11985218 + RNA DEL G G - novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . . . . . . . . 108.0 30.0 92.0 0.0 . . . 0.277778 0 none . . PASS Atlas-Indel,Pindel SLC1A2 6506 hgsc.bcm.edu hg19 11 35287253 35287254 + In_Frame_Ins INS - - CCCCCC novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 SLC1A2,colon,carcinoma,0,1 SLC1A2 NM_004171 exon10 c.1474_1475insGGGGGG p.I492delinsGGI . . 117.0 26.0 154.0 0.0 . 54 . 0.222222 0 none . . PASS Atlas-Indel,Pindel LTBP2 4053 hgsc.bcm.edu hg19 14 74976906 74976906 + Frame_Shift_Del DEL C C - novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . LTBP2 NM_000428 exon20 c.3040delT p.C1014fs . . 35.0 15.0 25.0 0.0 . 158 . 0.428571 0 none . . PASS Atlas-INDEL NIPBL 25836 hgsc.bcm.edu hg19 5 36976168 36976169 + Frame_Shift_Ins INS - - A novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . NIPBL NM_015384 exon9 c.1159_1160insA p.E387fs . . 122.0 32.0 126.0 0.0 . 513 . 0.262295 0 none . . PASS Atlas-Indel,Pindel ESRP2 80004 hgsc.bcm.edu hg19 16 68267898 68267898 + Frame_Shift_Del DEL T T - novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . ESRP2 NM_024939 exon3 c.441delG p.K147fs . . 50.0 11.0 41.0 0.0 . 118 . 0.22 0 none . . PASS Atlas-INDEL ATRNL1 26033 hgsc.bcm.edu hg19 10 116919947 116919947 + Frame_Shift_Del DEL A A - novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . ATRNL1 NM_207303 exon6 c.975delT p.F325fs . . 142.0 32.0 129.0 0.0 . 219 . 0.225352 0 none . . PASS Atlas-INDEL CD1C 911 hgsc.bcm.edu hg19 1 158262079 158262080 + Frame_Shift_Ins INS - - AA novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . CD1C NM_001765 exon3 c.534_535insAA p.Y178fs . . 78.0 21.0 74.0 0.0 . 100 . 0.269231 0 none . . PASS Atlas-Indel,Pindel ACSM2A 123876 hgsc.bcm.edu hg19 16 20489924 20489925 + Frame_Shift_Ins INS - - C novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . ACSM2A NM_001010845 exon11 c.1206_1207insC p.L402fs . . 60.0 18.0 58.0 0.0 . 120 . 0.3 0 none . . PASS Atlas-Indel,Pindel C3AR1 719 hgsc.bcm.edu hg19 12 8212016 8212016 + Frame_Shift_Del DEL A A - novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . C3AR1 NM_004054 exon2 c.767delC p.S256fs . . 97.0 34.0 61.0 0.0 . 61 . 0.350515 0 none . . PASS Atlas-Indel,Pindel THOC1 9984 hgsc.bcm.edu hg19 18 267995 267995 + Frame_Shift_Del DEL T T - novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . THOC1 NM_005131 exon1 c.26delG p.S9fs . . 58.0 16.0 44.0 0.0 . 43 . 0.275862 0 none . . PASS Atlas-Indel,Pindel SETX 23064 hgsc.bcm.edu hg19 9 135203246 135203246 + Frame_Shift_Del DEL A A - novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . SETX NM_015046 exon10 c.3740delC p.S1247X . . 143.0 31.0 173.0 0.0 . 234 . 0.216783 0 none . . PASS Atlas-Indel,Pindel WDR96 80217 hgsc.bcm.edu hg19 10 105926263 105926263 + Frame_Shift_Del DEL G G - novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . WDR96 NM_025145 exon23 c.3023delA p.Q1008fs . . 94.0 26.0 88.0 0.0 . 183 . 0.276596 0 none . . PASS Atlas-Indel,Pindel NTRK2 4915 hgsc.bcm.edu hg19 9 87359981 87359981 + Frame_Shift_Del DEL A A - novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . NTRK2 NM_001018066 exon11 c.1288delC p.H430fs . . 91.0 18.0 99.0 0.0 . 331 . 0.197802 0 none . . PASS Atlas-Indel,Pindel KIAA0232 9778 hgsc.bcm.edu hg19 4 6863999 6864000 + Frame_Shift_Ins INS - - A novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . KIAA0232 NM_001100590 exon6 c.1890_1891insA p.G630fs . . 79.0 22.0 84.0 0.0 . 102 . 0.278481 0 none . . PASS Atlas-Indel,Pindel DNAJC6 9829 hgsc.bcm.edu hg19 1 65830460 65830461 + Frame_Shift_Del DEL TG TG - novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 TG TG . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 DNAJC6,NS,carcinoma,0,1 DNAJC6 NM_001256864 exon2 c.335_336del p.112_112del . . 47.0 11.0 41.0 0.0 . 104 . 0.234043 0 none . . PASS Atlas-Indel,Pindel FUBP1 8880 hgsc.bcm.edu hg19 1 78425867 78425892 + In_Frame_Del DEL CTTCTACCTGGATCAGGAGGAGCCTG CTTCTACCTGGATCAGGAGGAGCCTG - novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 CTTCTACCTGGATCAGGAGGAGCCTG CTTCTACCTGGATCAGGAGGAGCCTG . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . FUBP1 NM_003902 exon16 c.1559_1576del p.520_526del . . 89.0 11.0 117.0 0.0 . 112 . 0.123596 0 none . . PASS Atlas-INDEL PYCRL 65263 hgsc.bcm.edu hg19 8 144687925 144687956 + Frame_Shift_Del DEL GTGGCTGCTCGCAGCCCGCCCTGCTCCAGGGC GTGGCTGCTCGCAGCCCGCCCTGCTCCAGGGC - novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 GTGGCTGCTCGCAGCCCGCCCTGCTCCAGGGC GTGGCTGCTCGCAGCCCGCCCTGCTCCAGGGC . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . PYCRL NM_023078 exon6 c.776_807del p.259_269del . . 89.0 11.0 96.0 0.0 . 14 . 0.124 . none . . PASS Pindel ITSN2 50618 hgsc.bcm.edu hg19 2 24535083 24535094 + In_Frame_Del DEL AAACGAGCAGAA AAACGAGCAGAA - novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 AAACGAGCAGAA AAACGAGCAGAA . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . ITSN2 NM_147152 exon5 c.340_351del p.114_117del . . 143.0 18.0 165.0 0.0 . 224 . 0.126 . none . . PASS Pindel LTBP2 4053 hgsc.bcm.edu hg19 14 74976904 74976906 + In_Frame_Del DEL CAC CAC - novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 CAC CAC . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . LTBP2 NM_000428 exon20 c.3040_3042del p.1014_1014del . . 36.0 10.0 25.0 0.0 . 158 . 0.278 . none . . PASS Pindel ATRNL1 26033 hgsc.bcm.edu hg19 10 116919943 116919943 + Frame_Shift_Del DEL T T - novel TCGA-IA-A83S-01A-11D-A34Z-10 TCGA-IA-A83S-11A-11D-A34Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 239993db-83a2-4300-9378-31070f75b60b 2d7ce817-8f00-4d31-b073-fca46cc77009 . ATRNL1 NM_207303 exon6 c.971delC p.T324fs . . 144.0 22.0 134.0 0.0 . 219 . 0.153 . none . . PASS Pindel