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 HMCN1 83872 hgsc.bcm.edu hg19 1 186114982 186114982 + Silent SNP G G T novel TCGA-5P-A9KH-01A-11D-A42J-10 TCGA-5P-A9KH-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d91e36f3-e4a2-4af3-802a-3148b09be900 ccc45b0a-b066-47dd-934b-6f892b6c61a4 . HMCN1 NM_031935 exon93 c.G14535T p.V4845V TCCTGTGCCAGTT . 88.0 63.0 112.0 0.0 . 797 . . . none . . PASS Atlas-SNP CCDC74A 90557 hgsc.bcm.edu hg19 2 132289289 132289289 + Silent SNP C C T novel TCGA-5P-A9KH-01A-11D-A42J-10 TCGA-5P-A9KH-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d91e36f3-e4a2-4af3-802a-3148b09be900 ccc45b0a-b066-47dd-934b-6f892b6c61a4 . CCDC74A NM_001258304 exon4 c.C723T p.D241D AGCTGACGTCTCC . 69.0 42.0 113.0 0.0 . 44 . . . none . . PASS Atlas-SNP SEL1L3 23231 hgsc.bcm.edu hg19 4 25834646 25834646 + Nonsense_Mutation SNP G G A novel TCGA-5P-A9KH-01A-11D-A42J-10 TCGA-5P-A9KH-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d91e36f3-e4a2-4af3-802a-3148b09be900 ccc45b0a-b066-47dd-934b-6f892b6c61a4 . SEL1L3 NM_015187 exon5 c.C1069T p.R357X CCAGTCGAAACCA . 91.0 39.0 51.0 0.0 . 62 . . . none . . PASS Atlas-SNP C4orf29 80167 hgsc.bcm.edu hg19 4 128904113 128904113 + Missense_Mutation SNP G G A novel TCGA-5P-A9KH-01A-11D-A42J-10 TCGA-5P-A9KH-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d91e36f3-e4a2-4af3-802a-3148b09be900 ccc45b0a-b066-47dd-934b-6f892b6c61a4 . C4orf29 NM_001039717 exon2 c.G3A p.M1I ACTGATGGGTGTG . 110.0 43.0 60.0 0.0 . 58 . . . none . . PASS Atlas-SNP GABRB2 2561 hgsc.bcm.edu hg19 5 160973398 160973398 + Missense_Mutation SNP C C T novel TCGA-5P-A9KH-01A-11D-A42J-10 TCGA-5P-A9KH-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d91e36f3-e4a2-4af3-802a-3148b09be900 ccc45b0a-b066-47dd-934b-6f892b6c61a4 . GABRB2 NM_021911 exon3 c.G99A p.M33I CAGCGACATATTA . 137.0 19.0 104.0 0.0 . 161 . . . none . . PASS Atlas-SNP FAM46A 55603 hgsc.bcm.edu hg19 6 82461742 82461742 + Silent SNP G G A novel TCGA-5P-A9KH-01A-11D-A42J-10 TCGA-5P-A9KH-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d91e36f3-e4a2-4af3-802a-3148b09be900 ccc45b0a-b066-47dd-934b-6f892b6c61a4 . FAM46A NM_017633 exon2 c.C117T p.G39G GTCGCCGCCGCCG . 30.0 5.0 38.0 0.0 . 37 . . . none . . PASS Atlas-SNP GRM3 2913 hgsc.bcm.edu hg19 7 86394802 86394802 + Missense_Mutation SNP G G A novel TCGA-5P-A9KH-01A-11D-A42J-10 TCGA-5P-A9KH-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d91e36f3-e4a2-4af3-802a-3148b09be900 ccc45b0a-b066-47dd-934b-6f892b6c61a4 . GRM3 NM_000840 exon2 c.G341A p.R114K TTGTCAGGGCATC . 157.0 15.0 99.0 0.0 . 237 . . . none . . PASS Atlas-SNP EPHB4 2050 hgsc.bcm.edu hg19 7 100410509 100410509 + Nonsense_Mutation SNP C C A novel TCGA-5P-A9KH-01A-11D-A42J-10 TCGA-5P-A9KH-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d91e36f3-e4a2-4af3-802a-3148b09be900 ccc45b0a-b066-47dd-934b-6f892b6c61a4 . EPHB4 NM_004444 exon12 c.G1978T p.E660X GAAACTCACGCCG . 75.0 34.0 74.0 0.0 . 106 . . . none . . PASS Atlas-SNP SLC4A2 6522 hgsc.bcm.edu hg19 7 150771197 150771197 + Missense_Mutation SNP G G A novel TCGA-5P-A9KH-01A-11D-A42J-10 TCGA-5P-A9KH-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d91e36f3-e4a2-4af3-802a-3148b09be900 ccc45b0a-b066-47dd-934b-6f892b6c61a4 . SLC4A2 NM_003040 exon17 c.G2607A p.M869I GAACATGACATGG . 213.0 71.0 186.0 0.0 . 98 . . . none . . PASS Atlas-SNP MYOM2 9172 hgsc.bcm.edu hg19 8 2037960 2037960 + Missense_Mutation SNP G G T novel TCGA-5P-A9KH-01A-11D-A42J-10 TCGA-5P-A9KH-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d91e36f3-e4a2-4af3-802a-3148b09be900 ccc45b0a-b066-47dd-934b-6f892b6c61a4 . MYOM2 NM_003970 exon15 c.G1774T p.G592C CGGCATGGCCTGA . 65.0 33.0 63.0 0.0 . 251 . . . none . . PASS Atlas-SNP PRUNE2 158471 hgsc.bcm.edu hg19 9 79465477 79465477 + Silent SNP G G A novel TCGA-5P-A9KH-01A-11D-A42J-10 TCGA-5P-A9KH-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d91e36f3-e4a2-4af3-802a-3148b09be900 ccc45b0a-b066-47dd-934b-6f892b6c61a4 . PRUNE2 NM_015225 exon3 c.C246T p.S82S TGATTCGGAAATA . 196.0 76.0 151.0 0.0 . 331 . . . none . . PASS Atlas-SNP TRIM22 10346 hgsc.bcm.edu hg19 11 5730402 5730402 + Missense_Mutation SNP G G A rs199987600 TCGA-5P-A9KH-01A-11D-A42J-10 TCGA-5P-A9KH-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d91e36f3-e4a2-4af3-802a-3148b09be900 ccc45b0a-b066-47dd-934b-6f892b6c61a4 TRIM22,NS,carcinoma,0,1 TRIM22 NM_006074 exon8 c.G1021A p.A341T TTTTCTGCTTTTG . 127.0 44.0 126.0 0.0 . 66 . . . weak G|0.999;A|0.001 0.001 PASS Atlas-SNP SMPD1 6609 hgsc.bcm.edu hg19 11 6411970 6411970 + Missense_Mutation SNP G G T novel TCGA-5P-A9KH-01A-11D-A42J-10 TCGA-5P-A9KH-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d91e36f3-e4a2-4af3-802a-3148b09be900 ccc45b0a-b066-47dd-934b-6f892b6c61a4 . SMPD1 NM_000543 exon1 c.G142T p.A48S GCGCTGGCTCTGT . 119.0 6.0 90.0 0.0 . 108 . . . none . . PASS Atlas-SNP MLL2 8085 hgsc.bcm.edu hg19 12 49438022 49438022 + Missense_Mutation SNP G G T novel TCGA-5P-A9KH-01A-11D-A42J-10 TCGA-5P-A9KH-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d91e36f3-e4a2-4af3-802a-3148b09be900 ccc45b0a-b066-47dd-934b-6f892b6c61a4 . MLL2 NM_003482 exon21 c.C5149A p.Q1717K CCGCCTGTGCAGC . 96.0 43.0 49.0 0.0 . 1173 . . . none . . PASS Atlas-SNP GRASP 160622 hgsc.bcm.edu hg19 12 52408635 52408635 + Silent SNP C C T novel TCGA-5P-A9KH-01A-11D-A42J-10 TCGA-5P-A9KH-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d91e36f3-e4a2-4af3-802a-3148b09be900 ccc45b0a-b066-47dd-934b-6f892b6c61a4 . GRASP NM_181711 exon8 c.C840T p.A280A CGACGCCGACGAC . 10.0 6.0 7.0 0.0 . 23 . . . none . . PASS Atlas-SNP GPR137C 283554 hgsc.bcm.edu hg19 14 53101695 53101695 + Missense_Mutation SNP G G T novel TCGA-5P-A9KH-01A-11D-A42J-10 TCGA-5P-A9KH-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d91e36f3-e4a2-4af3-802a-3148b09be900 ccc45b0a-b066-47dd-934b-6f892b6c61a4 . GPR137C NM_001099652 exon7 c.G1152T p.M384I CACCATGACTGGG . 156.0 58.0 103.0 0.0 . 24 . . . none . . PASS Atlas-SNP DUOXA1 90527 hgsc.bcm.edu hg19 15 45415103 45415103 + Missense_Mutation SNP G G A rs374411208 TCGA-5P-A9KH-01A-11D-A42J-10 TCGA-5P-A9KH-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d91e36f3-e4a2-4af3-802a-3148b09be900 ccc45b0a-b066-47dd-934b-6f892b6c61a4 . DUOXA1 NM_144565 exon4 c.C110T p.T37M ATGAACGTGGCCA . 174.0 75.0 142.0 0.0 . 32 . . . weak . . PASS Atlas-SNP SLC13A5 284111 hgsc.bcm.edu hg19 17 6594200 6594200 + Silent SNP C C T rs138802643 TCGA-5P-A9KH-01A-11D-A42J-10 TCGA-5P-A9KH-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d91e36f3-e4a2-4af3-802a-3148b09be900 ccc45b0a-b066-47dd-934b-6f892b6c61a4 . SLC13A5 NM_001143838 exon10 c.G1335A p.P445P GGCTGCCGGGGGC . 47.0 38.0 51.0 0.0 . 57 . . . weak C|1.000;T|0.000 0.000 PASS Atlas-SNP TAC4 255061 hgsc.bcm.edu hg19 17 47921450 47921450 + Missense_Mutation SNP C C A novel TCGA-5P-A9KH-01A-11D-A42J-10 TCGA-5P-A9KH-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d91e36f3-e4a2-4af3-802a-3148b09be900 ccc45b0a-b066-47dd-934b-6f892b6c61a4 . TAC4 NM_170685 exon2 c.G193T p.G65W TCAGCCCAAAGAA . 55.0 40.0 67.0 0.0 . 6 . . . none . . PASS Atlas-SNP MEGF8 1954 hgsc.bcm.edu hg19 19 42866746 42866746 + Missense_Mutation SNP A A G novel TCGA-5P-A9KH-01A-11D-A42J-10 TCGA-5P-A9KH-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d91e36f3-e4a2-4af3-802a-3148b09be900 ccc45b0a-b066-47dd-934b-6f892b6c61a4 . MEGF8 NM_001271938 exon34 c.A6055G p.T2019A AAGAGGACAGGTG . 43.0 11.0 38.0 0.0 . 358 . . . none . . PASS Atlas-SNP KCNG1 3755 hgsc.bcm.edu hg19 20 49626294 49626294 + Silent SNP G G A novel TCGA-5P-A9KH-01A-11D-A42J-10 TCGA-5P-A9KH-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d91e36f3-e4a2-4af3-802a-3148b09be900 ccc45b0a-b066-47dd-934b-6f892b6c61a4 . KCNG1 NM_002237 exon2 c.C582T p.R194R GCTGTCGCGGCCC . 53.0 15.0 35.0 0.0 . 86 . . . none . . PASS Atlas-SNP UBXN2B 137886 hgsc.bcm.edu hg19 8 59343157 59343158 + In_Frame_Ins INS - - AAG novel TCGA-5P-A9KH-01A-11D-A42J-10 TCGA-5P-A9KH-10A-01D-A42M-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d91e36f3-e4a2-4af3-802a-3148b09be900 ccc45b0a-b066-47dd-934b-6f892b6c61a4 . UBXN2B NM_001077619 exon3 c.268_269insAAG p.K90delinsKE . . 453.0 54.0 319.0 0.0 . 36 . 0.119205 0 none . . PASS Atlas-Indel,Pindel TP53 7157 hgsc.bcm.edu hg19 17 7577515 7577517 + In_Frame_Del DEL TGA TGA - novel TCGA-5P-A9KH-01A-11D-A42J-10 TCGA-5P-A9KH-10A-01D-A42M-10 TGA TGA . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d91e36f3-e4a2-4af3-802a-3148b09be900 ccc45b0a-b066-47dd-934b-6f892b6c61a4 TP53_ENST00000413465,NS,carcinoma,0,1 TP53 NM_001126112 exon7 c.765_767del p.255_256del . . 70.0 18.0 88.0 0.0 . 33396 . 0.257143 0 none . . PASS Atlas-Indel,Pindel MCTP2 55784 hgsc.bcm.edu hg19 15 95001475 95001477 + Frame_Shift_Del DEL AGT AGT - novel TCGA-5P-A9KH-01A-11D-A42J-10 TCGA-5P-A9KH-10A-01D-A42M-10 AGT AGT . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d91e36f3-e4a2-4af3-802a-3148b09be900 ccc45b0a-b066-47dd-934b-6f892b6c61a4 . MCTP2 NM_018349 exon19 c.2359_2360del p.787_787del . . 129.0 32.0 93.0 0.0 . 122 . 0.248062 0 none . . PASS Atlas-Indel,Pindel CORIN 10699 hgsc.bcm.edu hg19 4 47809067 47809070 + Splice_Site DEL AAAG AAAG - novel TCGA-5P-A9KH-01A-11D-A42J-10 TCGA-5P-A9KH-10A-01D-A42M-10 AAAG AAAG . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d91e36f3-e4a2-4af3-802a-3148b09be900 ccc45b0a-b066-47dd-934b-6f892b6c61a4 . CORIN . . . . . . 195.0 11.0 133.0 0.0 . 154 . 0.056 . none . . PASS Pindel