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 RALGPS2 55103 hgsc.bcm.edu hg19 1 178863074 178863074 + Nonsense_Mutation SNP T T A novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . RALGPS2 NM_152663 exon16 c.T1346A p.L449X AAGATTTGGCAGT . 54.0 18.0 62.0 0.0 . 69 . . . none . . PASS Atlas-SNP C2orf53 339779 hgsc.bcm.edu hg19 2 27360426 27360426 + Missense_Mutation SNP G G A novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . C2orf53 NM_178553 exon3 c.C772T p.P258S TGCGGGGCCGGAG . 173.0 50.0 156.0 0.0 . 45 . . . none . . PASS Atlas-SNP DPP10 57628 hgsc.bcm.edu hg19 2 116593770 116593770 + Nonsense_Mutation SNP C C A novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . DPP10 NM_001178034 exon22 c.C2000A p.S667X TAAAATCAGATGA . 125.0 30.0 146.0 0.0 . 415 . . . none . . PASS Atlas-SNP NOP58 51602 hgsc.bcm.edu hg19 2 203165004 203165004 + Missense_Mutation SNP G G C novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . NOP58 NM_015934 exon13 c.G1316C p.C439S CAACCTGTTCTAA . 554.0 177.0 468.0 0.0 . 41 . . . none . . PASS Atlas-SNP TOPAZ1 375337 hgsc.bcm.edu hg19 3 44369747 44369747 + Missense_Mutation SNP C C G novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . . NM_001145030 exon19 c.C4681G p.L1561V GGTGCTCTTTCCT . 115.0 49.0 98.0 0.0 . . . . . none . . PASS Atlas-SNP TRIM42 287015 hgsc.bcm.edu hg19 3 140409996 140409996 + Missense_Mutation SNP A A C novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . TRIM42 NM_152616 exon4 c.A2047C p.N683H GCCATCAATGATA . 118.0 30.0 118.0 0.0 . 143 . . . none . . PASS Atlas-SNP EIF4G1 1981 hgsc.bcm.edu hg19 3 184042785 184042785 + Silent SNP G G A novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . EIF4G1 NM_001194946 exon19 c.G2760A p.E920E AACAGAGGCAATA . 67.0 25.0 71.0 0.0 . 151 . . . none . . PASS Atlas-SNP NKX3-2 579 hgsc.bcm.edu hg19 4 13543692 13543692 + Silent SNP G G A novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . NKX3-2 NM_001189 exon2 c.C927T p.P309P GTAGGAGGGCTGC . 335.0 90.0 280.0 0.0 . 15 . . . none . . PASS Atlas-SNP RUFY3 22902 hgsc.bcm.edu hg19 4 71660584 71660584 + Silent SNP G G A novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . RUFY3 NM_001037442 exon14 c.G1530A p.R510R AGGAAGGGGTTCC . 137.0 49.0 126.0 0.0 . 61 . . . none . . PASS Atlas-SNP HNRPDL 9987 hgsc.bcm.edu hg19 4 83350614 83350614 + Missense_Mutation SNP C C G novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . HNRPDL NM_031372 exon1 c.G230C p.G77A CGCCCTCCCTTTA . 87.0 32.0 68.0 0.0 . 35 . . . none . . PASS Atlas-SNP NNT 23530 hgsc.bcm.edu hg19 5 43613093 43613093 + Missense_Mutation SNP G G A novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . NNT NM_182977 exon3 c.G235A p.V79I GCTGGTGTTCAGA . 126.0 54.0 132.0 0.0 . 92 . . . none . . PASS Atlas-SNP CSF1R 1436 hgsc.bcm.edu hg19 5 149459890 149459890 + Missense_Mutation SNP C C T novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . CSF1R NM_005211 exon4 c.G317A p.R106Q CAGGGCCGGGCAG . 67.0 5.0 49.0 0.0 . 250 . . . none . . PASS Atlas-SNP CLPSL2 389383 hgsc.bcm.edu hg19 6 35745347 35745347 + Missense_Mutation SNP T T C novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . . NM_207409 exon2 c.T196C p.C66R ATGATCTGCTTGC . 70.0 19.0 73.0 0.0 . . . . . none . . PASS Atlas-SNP SLC22A7 10864 hgsc.bcm.edu hg19 6 43268946 43268946 + Missense_Mutation SNP T T C novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . SLC22A7 NM_153320 exon5 c.T901C p.C301R CTCCACTGTGCCA . 47.0 20.0 35.0 0.0 . 69 . . . none . . PASS Atlas-SNP SYNE1 23345 hgsc.bcm.edu hg19 6 152589267 152589267 + Missense_Mutation SNP G G T novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . SYNE1 NM_182961 exon100 c.C18739A p.L6247I GAAGGAGACTCTT . 87.0 30.0 83.0 0.0 . 3227 . . . none . . PASS Atlas-SNP DNAJB9 4189 hgsc.bcm.edu hg19 7 108213747 108213747 + Nonsense_Mutation SNP C C T novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . DNAJB9 NM_012328 exon3 c.C622T p.Q208X GTCACTCAACGAA . 74.0 36.0 46.0 0.0 . 25 . . . none . . PASS Atlas-SNP SGK223 0 hgsc.bcm.edu hg19 8 8234618 8234618 + Missense_Mutation SNP G G T novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . . NM_001080826 exon2 c.C1301A p.A434E GCAGCTGCATGTT . 54.0 15.0 42.0 0.0 . . . . . none . . PASS Atlas-SNP ECD 11319 hgsc.bcm.edu hg19 10 74920311 74920311 + Splice_Site SNP T T G novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . ECD NM_001135753 exon4 c.206-2A>C . ACCTCCTAAAAAC . 204.0 49.0 175.0 0.0 . 50 . . . none . . PASS Atlas-SNP INPP5F 22876 hgsc.bcm.edu hg19 10 121586617 121586617 + Silent SNP T T C novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . INPP5F NM_014937 exon20 c.T2724C p.L908L GTCTCTTAGCAGC . 51.0 14.0 60.0 0.0 . 112 . . . none . . PASS Atlas-SNP AP2A2 161 hgsc.bcm.edu hg19 11 977190 977190 + Missense_Mutation SNP C C T novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . AP2A2 NM_012305 exon5 c.C569T p.S190F GGACATCCCGAGT . 80.0 21.0 53.0 0.0 . 50 . . . none . . PASS Atlas-SNP CSNK2A3 283106 hgsc.bcm.edu hg19 11 11373596 11373596 + Silent SNP T T C novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . . NM_001256686 exon1 c.A1071G p.S357S TGGCACTGAAGAA . 111.0 26.0 109.0 0.0 . . . . . none . . PASS Atlas-SNP TPH1 7166 hgsc.bcm.edu hg19 11 18051107 18051107 + Missense_Mutation SNP T T C novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . TPH1 NM_004179 exon4 c.A422G p.Y141C TTACGGTAGACAT . 54.0 10.0 54.0 0.0 . 44 . . . none . . PASS Atlas-SNP ZNF259 8882 hgsc.bcm.edu hg19 11 116655623 116655623 + Silent SNP G G A novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . ZNF259 NM_003904 exon8 c.C768T p.S256S GTTTGTGCTGAAC . 94.0 38.0 98.0 0.0 . 27 . . . none . . PASS Atlas-SNP B4GALNT3 283358 hgsc.bcm.edu hg19 12 668503 668503 + Missense_Mutation SNP A A T novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . B4GALNT3 NM_173593 exon19 c.A2804T p.K935M TCTACAAGTCTGA . 117.0 30.0 125.0 0.0 . 64 . . . none . . PASS Atlas-SNP C2CD5 9847 hgsc.bcm.edu hg19 12 22606969 22606969 + Missense_Mutation SNP C C A novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . . NM_014802 exon24 c.G2732T p.G911V CTGACTCCTCCTT . 60.0 16.0 49.0 0.0 . . . . . none . . PASS Atlas-SNP KRT84 3890 hgsc.bcm.edu hg19 12 52776299 52776299 + Silent SNP G G A novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . KRT84 NM_033045 exon4 c.C834T p.F278F GTTCATGAAAGCT . 61.0 16.0 45.0 0.0 . 61 . . . none . . PASS Atlas-SNP OR4E2 26686 hgsc.bcm.edu hg19 14 22133689 22133689 + Silent SNP C C T novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . OR4E2 NM_001001912 exon1 c.C393T p.H131H ACTCCACTACCCC . 56.0 18.0 60.0 0.0 . 44 . . . none . . PASS Atlas-SNP G2E3 55632 hgsc.bcm.edu hg19 14 31085631 31085631 + Missense_Mutation SNP C C T novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . G2E3 NM_017769 exon15 c.C2012T p.A671V GTTTAGCAATTCC . 139.0 44.0 150.0 0.0 . 82 . . . none . . PASS Atlas-SNP BTBD7 55727 hgsc.bcm.edu hg19 14 93761032 93761032 + Missense_Mutation SNP T T G novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . BTBD7 NM_018167 exon3 c.A334C p.K112Q GCTCCTTTAATGC . 71.0 19.0 80.0 0.0 . 112 . . . none . . PASS Atlas-SNP FAM98B 283742 hgsc.bcm.edu hg19 15 38776827 38776827 + Silent SNP T T A novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea FAM98B_ENST00000397609,NS,carcinoma,0,1 FAM98B NM_173611 exon8 c.T1269A p.G423G TGGTGGTGGTGGT . 80.0 10.0 78.0 0.0 . 53 . . . none . . PASS Atlas-SNP TGFB1I1 7041 hgsc.bcm.edu hg19 16 31488254 31488254 + Missense_Mutation SNP G G T novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . TGFB1I1 NM_001042454 exon10 c.G1042T p.G348C TGCCAGGGCTGCC . 44.0 26.0 43.0 0.0 . 60 . . . none . . PASS Atlas-SNP COG4 25839 hgsc.bcm.edu hg19 16 70543137 70543137 + Silent SNP C C T novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . COG4 NM_015386 exon7 c.G999A p.Q333Q CACCTGCTGGTGG . 97.0 47.0 47.0 0.0 . 64 . . . none . . PASS Atlas-SNP METTL16 79066 hgsc.bcm.edu hg19 17 2405596 2405596 + Missense_Mutation SNP T T G novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . METTL16 NM_024086 exon2 c.A30C p.R10S TCTATTTCTTGCA . 72.0 31.0 57.0 0.0 . 75 . . . none . . PASS Atlas-SNP MYH10 4628 hgsc.bcm.edu hg19 17 8438748 8438748 + Silent SNP C C T novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . MYH10 NM_001256012 exon16 c.G1851A p.L617L CTGGTGCAAAAGG . 85.0 47.0 67.0 0.0 . 148 . . . none . . PASS Atlas-SNP RAI1 10743 hgsc.bcm.edu hg19 17 17697096 17697096 + Missense_Mutation SNP G G C novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . RAI1 NM_030665 exon3 c.G834C p.Q278H TGACCAGCAGCAG . 82.0 6.0 45.0 0.0 . 121 . . . none . . PASS Atlas-SNP ARHGAP23 57636 hgsc.bcm.edu hg19 17 36623021 36623021 + Missense_Mutation SNP G G T novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . ARHGAP23 NM_001199417 exon7 c.G1097T p.G366V CACTGGGGCCAGG . 113.0 57.0 85.0 0.0 . 48 . . . none . . PASS Atlas-SNP KRTAP4-11 653240 hgsc.bcm.edu hg19 17 39274461 39274461 + Missense_Mutation SNP C C G novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . KRTAP4-11 NM_033059 exon1 c.G107C p.R36T GTGGTCCTGCAGC . 71.0 10.0 54.0 0.0 . 94 . . . none . . PASS Atlas-SNP TOM1L1 10040 hgsc.bcm.edu hg19 17 52990171 52990171 + Missense_Mutation SNP A A G novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . TOM1L1 NM_005486 exon4 c.A367G p.I123V AATTTCATTAAGG . 74.0 8.0 71.0 0.0 . 33 . . . none . . PASS Atlas-SNP TEX14 56155 hgsc.bcm.edu hg19 17 56670954 56670954 + Missense_Mutation SNP C C A novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . TEX14 NM_001201457 exon15 c.G2556T p.K852N ACTGTCCTTGGCT . 152.0 35.0 109.0 0.0 . 343 . . . none . . PASS Atlas-SNP SMCHD1 23347 hgsc.bcm.edu hg19 18 2729383 2729383 + Silent SNP G G A novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . SMCHD1 NM_015295 exon24 c.G3024A p.T1008T CCAGACGCTTAAA . 65.0 23.0 57.0 0.0 . 88 . . . none . . PASS Atlas-SNP C18orf8 29919 hgsc.bcm.edu hg19 18 21106695 21106695 + Missense_Mutation SNP A A C novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . C18orf8 NM_013326 exon13 c.A1155C p.E385D AAAGGAATGCAAG . 61.0 22.0 55.0 0.0 . 58 . . . none . . PASS Atlas-SNP ZNF562 54811 hgsc.bcm.edu hg19 19 9763811 9763811 + Silent SNP A A G novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . ZNF562 NM_001130032 exon6 c.T1095C p.N365N AGTGTGATTTCGT . 84.0 27.0 69.0 0.0 . 72 . . . none . . PASS Atlas-SNP AP2S1 1175 hgsc.bcm.edu hg19 19 47341743 47341743 + Silent SNP C C T novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . AP2S1 NM_004069 exon5 c.G390A p.K130K CAGCACCTTCGTC . 96.0 35.0 88.0 0.0 . 12 . . . none . . PASS Atlas-SNP ACSS1 84532 hgsc.bcm.edu hg19 20 25004243 25004243 + Silent SNP T T C novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . ACSS1 NM_001252677 exon4 c.A666G p.G222G CCGGAGTCCTTGG . 57.0 21.0 24.0 0.0 . 46 . . . none . . PASS Atlas-SNP CCM2L 140706 hgsc.bcm.edu hg19 20 30602782 30602782 + Missense_Mutation SNP C C T novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . . NM_080625 exon2 c.C106T p.R36C GTGAGCCGCCGGC . 113.0 42.0 89.0 0.0 . . . . . none . . PASS Atlas-SNP MAPK1 5594 hgsc.bcm.edu hg19 22 22160189 22160189 + Missense_Mutation SNP G G A novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . MAPK1 NM_002745 exon3 c.C442T p.R148C GGTCACGGTGCAG . 116.0 37.0 113.0 0.0 . 38 . . . none . . PASS Atlas-SNP PRR14L 253143 hgsc.bcm.edu hg19 22 32108919 32108919 + Silent SNP T T G novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . PRR14L NM_173566 exon4 c.A4906C p.R1636R GGTATCTTAGCTT . 110.0 41.0 92.0 0.0 . 198 . . . none . . PASS Atlas-SNP CXorf23 256643 hgsc.bcm.edu hg19 X 19973668 19973668 + Missense_Mutation SNP A A C novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . CXorf23 NM_198279 exon4 c.T1291G p.S431A CTGTGGAATAGCT . 18.0 12.0 24.0 0.0 . 75 . . . none . . PASS Atlas-SNP HTATSF1 27336 hgsc.bcm.edu hg19 X 135593689 135593689 + Missense_Mutation SNP T T G novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . HTATSF1 NM_001163280 exon10 c.T1785G p.N595K AGAAAATGACTCT . 154.0 111.0 133.0 0.0 . 66 . . . none . . PASS Atlas-SNP PKN3 29941 hgsc.bcm.edu hg19 9 131477092 131477093 + Frame_Shift_Ins INS - - AT novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea PKN3,neck,malignant_melanoma,0,1 PKN3 NM_013355 exon13 c.1600_1601insAT p.H534fs . . 144.0 41.0 136.0 0.0 . 62 . 0.284722 0 none . . PASS Atlas-Indel,Pindel C19orf18 147685 hgsc.bcm.edu hg19 19 58472818 58472818 + Frame_Shift_Del DEL C C - novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . C19orf18 NM_152474 exon5 c.474delT p.G158fs . . 81.0 25.0 62.0 0.0 . 27 . 0.308642 0 none . . PASS Atlas-Indel,Pindel LRP2 4036 hgsc.bcm.edu hg19 2 169999196 169999197 + Frame_Shift_Ins INS - - A novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . LRP2 NM_004525 exon71 c.13096_13097insT p.E4366_C4367delinsX . . 56.0 18.0 53.0 0.0 . 751 . 0.321429 0 none . . PASS Atlas-Indel,Pindel ECD 11319 hgsc.bcm.edu hg19 10 74920304 74920308 + Frame_Shift_Del DEL CACCT CACCT - novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 CACCT CACCT . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . ECD NM_001135752 exon3 c.208_212del p.70_71del . . 210.0 48.0 182.0 0.0 . 50 . 0.228571 0 none . . PASS Atlas-INDEL HMGCS2 3158 hgsc.bcm.edu hg19 1 120301769 120301769 + Frame_Shift_Del DEL A A - novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . HMGCS2 NM_005518 exon4 c.823delA p.K275fs . . 92.0 23.0 100.0 0.0 . 58 . 0.25 0 none . . PASS Atlas-Indel,Pindel ECD 11319 hgsc.bcm.edu hg19 10 74920305 74920311 + In_Frame_Del DEL ACCTCCT ACCTCCT - novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 ACCTCCT ACCTCCT . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . ECD NM_001135752 exon3 c.206_211del p.69_71del . . 205.0 34.0 179.0 0.0 . 50 . 0.166 . none . . PASS Pindel SP8 221833 hgsc.bcm.edu hg19 7 20824939 20825106 + In_Frame_Del DEL GAGCCGCCGCCGCCGCCCCCGCCGCCGCCGCCGCTGCCCCCGGAAACTCCGGGGGCCTGGAAAACAGAGTAGTCGTTGGCGAAGGGCGAGCTGGAGGCGGCGGCTGCGGCGGCGGCGGCGGCGGCTGCGGCGCTGCTGGAGGTGAGGGAGAAGGCGCTGGAGCCAGGC GAGCCGCCGCCGCCGCCCCCGCCGCCGCCGCCGCTGCCCCCGGAAACTCCGGGGGCCTGGAAAACAGAGTAGTCGTTGGCGAAGGGCGAGCTGGAGGCGGCGGCTGCGGCGGCGGCGGCGGCGGCTGCGGCGCTGCTGGAGGTGAGGGAGAAGGCGCTGGAGCCAGGC - novel TCGA-5P-A9K6-01A-11D-A42J-10 TCGA-5P-A9K6-10A-01D-A42M-10 GAGCCGCCGCCGCCGCCCCCGCCGCCGCCGCCGCTGCCCCCGGAAACTCCGGGGGCCTGGAAAACAGAGTAGTCGTTGGCGAAGGGCGAGCTGGAGGCGGCGGCTGCGGCGGCGGCGGCGGCGGCTGCGGCGCTGCTGGAGGTGAGGGAGAAGGCGCTGGAGCCAGGC GAGCCGCCGCCGCCGCCCCCGCCGCCGCCGCCGCTGCCCCCGGAAACTCCGGGGGCCTGGAAAACAGAGTAGTCGTTGGCGAAGGGCGAGCTGGAGGCGGCGGCTGCGGCGGCGGCGGCGGCGGCTGCGGCGCTGCTGGAGGTGAGGGAGAAGGCGCTGGAGCCAGGC . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1f41aab4-303b-428a-ac0c-df760be57c3e 22f09e94-5687-4bdb-bf4b-f54d47a940ea . SP8 NM_182700 exon2 c.331_498del p.111_166del . . 99.0 10.0 50.0 0.0 . 43 . 0.101 . none . . PASS Pindel