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 CLSTN1 22883 hgsc.bcm.edu hg19 1 9809529 9809529 + Silent SNP G G A novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . CLSTN1 NM_001009566 exon7 c.C975T p.H325H GAGCCGGTGGAGG . 74.0 32.0 89.0 0.0 . 88 . . . none . . PASS Atlas-SNP IFFO2 126917 hgsc.bcm.edu hg19 1 19282228 19282228 + Missense_Mutation SNP G G A novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . IFFO2 NM_001136265 exon1 c.C599T p.P200L ATCTCCGGCGTGA . 34.0 8.0 43.0 0.0 . 28 . . . none . . PASS Atlas-SNP CSDE1 7812 hgsc.bcm.edu hg19 1 115277116 115277116 + Missense_Mutation SNP T T A rs200868850 alternate_allele TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . CSDE1 NM_001242891 exon8 c.A667T p.M223L ACAGCATAATGTT . 295.0 34.0 389.0 0.0 . 145 . . . alt . . PASS Atlas-SNP RPRD2 23248 hgsc.bcm.edu hg19 1 150443766 150443766 + Missense_Mutation SNP A A C novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . RPRD2 NM_015203 exon11 c.A2342C p.E781A CCCGAGAGCTCTC . 109.0 43.0 127.0 0.0 . 189 . . . none . . PASS Atlas-SNP KDM5B 10765 hgsc.bcm.edu hg19 1 202701002 202701002 + Nonsense_Mutation SNP A A C novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . KDM5B NM_006618 exon24 c.T3975G p.Y1325X GTGCAAATATGAG . 70.0 21.0 61.0 0.0 . 166 . . . none . . PASS Atlas-SNP PLXNA2 5362 hgsc.bcm.edu hg19 1 208234136 208234136 + Missense_Mutation SNP A A T novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . PLXNA2 NM_025179 exon13 c.T2633A p.I878N CCATGGATGGTCA . 89.0 39.0 128.0 0.0 . 178 . . . none . . PASS Atlas-SNP PLXNA2 5362 hgsc.bcm.edu hg19 1 208234142 208234142 + Missense_Mutation SNP A A G novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . PLXNA2 NM_025179 exon13 c.T2627C p.V876A ATGGTCACTCGCG . 84.0 38.0 121.0 0.0 . 178 . . . none . . PASS Atlas-SNP PTPN14 5784 hgsc.bcm.edu hg19 1 214557537 214557537 + Missense_Mutation SNP C C T novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . PTPN14 NM_005401 exon13 c.G1661A p.S554N GCCGTGCTGTAGT . 50.0 20.0 61.0 0.0 . 168 . . . none . . PASS Atlas-SNP DNAJC5G 285126 hgsc.bcm.edu hg19 2 27500675 27500675 + Missense_Mutation SNP T T A novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . DNAJC5G NM_173650 exon4 c.T167A p.L56Q GGAAACTGGCCTT . 79.0 21.0 108.0 0.0 . 19 . . . none . . PASS Atlas-SNP POTEE 445582 hgsc.bcm.edu hg19 2 131976330 131976330 + Missense_Mutation SNP G G A novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . . NM_001083538 exon1 c.G355A p.A119T GTGGGCGCTTGGG . 230.0 80.0 239.0 0.0 . . . . . none . . PASS Atlas-SNP GPR39 2863 hgsc.bcm.edu hg19 2 133403162 133403162 + Missense_Mutation SNP C C A novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . GPR39 NM_001508 exon2 c.C1345A p.Q449K GGTTTTCAGGAGC . 64.0 30.0 58.0 0.0 . 60 . . . none . . PASS Atlas-SNP NEB 4703 hgsc.bcm.edu hg19 2 152382499 152382499 + Silent SNP G G A novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb NEB_ENST00000427231,NS,carcinoma,0,3 NEB NM_001271208 exon151 c.C22239T p.V7413V TTCCTTGACGTGA . 102.0 25.0 126.0 0.0 . 1697 . . . none . . PASS Atlas-SNP COL3A1 1281 hgsc.bcm.edu hg19 2 189867767 189867767 + Silent SNP C C T novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . COL3A1 NM_000090 exon36 c.C2532T p.P844P AGGACCCCCTGGA . 79.0 26.0 103.0 0.0 . 292 . . . none . . PASS Atlas-SNP IQCJ-SCHIP1 100505385 hgsc.bcm.edu hg19 3 159606614 159606614 + Silent SNP A A T novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . IQCJ-SCHIP1 NM_001197113 exon9 c.A1428T p.P476P GCTGCCACACATG . 81.0 63.0 92.0 0.0 . 40 . . . none . . PASS Atlas-SNP FAM193A 8603 hgsc.bcm.edu hg19 4 2632748 2632748 + Missense_Mutation SNP T T A novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . FAM193A NM_003704 exon3 c.T17A p.L6H GCCTGCTCCGGCA . 60.0 18.0 76.0 0.0 . 103 . . . none . . PASS Atlas-SNP LNX1 84708 hgsc.bcm.edu hg19 4 54343069 54343069 + Silent SNP T T C rs151307935 alternate_allele TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . LNX1 NM_001126328 exon9 c.A1743G p.T581T GGATGATGTTCTT . 46.0 21.0 69.0 0.0 . 139 . . . alt T|1.000;G|0.000 . PASS Atlas-SNP CEP135 9662 hgsc.bcm.edu hg19 4 56876035 56876035 + Missense_Mutation SNP A A G rs148279836 TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . CEP135 NM_025009 exon19 c.A2471G p.Q824R GACTGCAAGATGA . 144.0 45.0 251.0 0.0 . 115 . . . weak A|1.000;G|0.000 0.000 PASS Atlas-SNP ANKHD1 54882 hgsc.bcm.edu hg19 5 139781730 139781730 + Missense_Mutation SNP G G A novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb ANKHD1-EIF4EBP3,NS,carcinoma,0,2 ANKHD1 NM_017978 exon1 c.G178A p.G60S AGCAGCGGCGGCG . 59.0 3.0 69.0 1.0 . 233 . . . none . . PASS Atlas-SNP DNAH8 1769 hgsc.bcm.edu hg19 6 38825504 38825504 + Missense_Mutation SNP A A G novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . DNAH8 NM_001206927 exon42 c.A5944G p.I1982V AGAGATATTTTTG . 111.0 53.0 130.0 0.0 . 1239 . . . none . . PASS Atlas-SNP EZR 7430 hgsc.bcm.edu hg19 6 159188095 159188095 + Missense_Mutation SNP G G C rs367907031 alternate_allele TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . EZR NM_003379 exon13 c.C1612G p.L538V GGGACAGCTCGCT . 95.0 32.0 89.0 0.0 . 44 . . . alt . . PASS Atlas-SNP TBP 6908 hgsc.bcm.edu hg19 6 170871004 170871004 + Silent SNP G G A novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . TBP NM_003194 exon3 c.G180A p.Q60Q GCAGCAGCAACAA . 41.0 5.0 47.0 0.0 . 58 . . . none . . PASS Atlas-SNP AUTS2 26053 hgsc.bcm.edu hg19 7 70255844 70255844 + Silent SNP A A G novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . AUTS2 NM_015570 exon19 c.A3642G p.T1214T TCCGACAGCAGCG . 106.0 30.0 80.0 0.0 . 173 . . . none . . PASS Atlas-SNP MTFR1 9650 hgsc.bcm.edu hg19 8 66617127 66617127 + Missense_Mutation SNP A A C novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . MTFR1 NM_014637 exon5 c.A480C p.K160N TGCCAAAATTGTG . 127.0 51.0 122.0 0.0 . 26 . . . none . . PASS Atlas-SNP SULF1 23213 hgsc.bcm.edu hg19 8 70488224 70488224 + Missense_Mutation SNP C C G novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . SULF1 NM_001128205 exon6 c.C192G p.N64K CATGAACAAAACG . 89.0 33.0 91.0 0.0 . 153 . . . none . . PASS Atlas-SNP CSMD3 114788 hgsc.bcm.edu hg19 8 114326898 114326898 + Missense_Mutation SNP A A C novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb CSMD3_ENST00000343508,NS,carcinoma,0,2 CSMD3 NM_052900 exon2 c.T303G p.N101K TATTCTATTTCGT . 131.0 52.0 136.0 0.0 . 2325 . . . none . . PASS Atlas-SNP SIGMAR1 10280 hgsc.bcm.edu hg19 9 34637563 34637563 + Missense_Mutation SNP C C G novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . SIGMAR1 NM_005866 exon1 c.G132C p.Q44H CGCCAACTGCGCT . 33.0 7.0 37.0 0.0 . 6 . . . none . . PASS Atlas-SNP TMOD1 7111 hgsc.bcm.edu hg19 9 100286582 100286582 + Missense_Mutation SNP G G A novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb TMOD1,NS,carcinoma,0,1 TMOD1 NM_001166116 exon2 c.G112A p.D38N GAGCTGGACCCTG . 77.0 30.0 101.0 0.0 . 29 . . . none . . PASS Atlas-SNP PRDM12 59335 hgsc.bcm.edu hg19 9 133556745 133556745 + Missense_Mutation SNP C C T novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . PRDM12 NM_021619 exon5 c.C793T p.H265Y CGCATCCACACGC . 73.0 29.0 77.0 0.0 . 24 . . . none . . PASS Atlas-SNP GDI2 2665 hgsc.bcm.edu hg19 10 5855180 5855180 + Silent SNP C C A novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . GDI2 NM_001115156 exon1 c.G42T p.L14L CACCGTCAGGCCG . 50.0 24.0 66.0 0.0 . 26 . . . none . . PASS Atlas-SNP WDFY4 57705 hgsc.bcm.edu hg19 10 49986698 49986698 + Missense_Mutation SNP C C T novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . WDFY4 NM_020945 exon18 c.C3218T p.S1073F CCTTCTCCTGCTG . 26.0 9.0 25.0 0.0 . 205 . . . none . . PASS Atlas-SNP COL17A1 1308 hgsc.bcm.edu hg19 10 105795252 105795252 + Missense_Mutation SNP T T G novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . COL17A1 NM_000494 exon49 c.A3488C p.E1163A AGGAGCTCCTCAT . 105.0 16.0 116.0 0.0 . 149 . . . none . . PASS Atlas-SNP SMPD1 6609 hgsc.bcm.edu hg19 11 6412728 6412728 + Missense_Mutation SNP G G A novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . SMPD1 NM_000543 exon2 c.G433A p.V145M GACATGGTGGAGG . 52.0 19.0 55.0 0.0 . 108 . . . none . . PASS Atlas-SNP PEX16 9409 hgsc.bcm.edu hg19 11 45936221 45936221 + Missense_Mutation SNP G G A novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb PEX16,colon,carcinoma,0,1 PEX16 NM_004813 exon6 c.C475T p.P159S TGCCAGGGCTGTG . 59.0 21.0 51.0 0.0 . 24 . . . none . . PASS Atlas-SNP DNAJC22 79962 hgsc.bcm.edu hg19 12 49745201 49745201 + Missense_Mutation SNP G G T novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . DNAJC22 NM_024902 exon3 c.G942T p.E314D GACAGAGGAGGCA . 120.0 5.0 132.0 0.0 . 29 . . . none . . PASS Atlas-SNP TMTC4 84899 hgsc.bcm.edu hg19 13 101287091 101287091 + Missense_Mutation SNP T T G novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . TMTC4 NM_032813 exon12 c.A1474C p.S492R GAGCACTTCTGAA . 62.0 21.0 95.0 0.0 . 103 . . . none . . PASS Atlas-SNP MTA1 9112 hgsc.bcm.edu hg19 14 105927271 105927271 + Missense_Mutation SNP C C T novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . MTA1 NM_004689 exon10 c.C923T p.T308M ATTTCACGGACAT . 98.0 4.0 155.0 0.0 . 61 . . . none . . PASS Atlas-SNP PDPR 55066 hgsc.bcm.edu hg19 16 70163023 70163023 + Missense_Mutation SNP A A T novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . PDPR NM_017990 exon6 c.A605T p.N202I CCCAAAATGGTGA . 473.0 124.0 379.0 0.0 . 66 . . . none . . PASS Atlas-SNP KARS 3735 hgsc.bcm.edu hg19 16 75678300 75678300 + Silent SNP A A T novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . KARS NM_001130089 exon2 c.T27A p.L9L CCTAACAAGCCTT . 96.0 54.0 87.0 0.0 . 77 . . . none . . PASS Atlas-SNP MYH4 4622 hgsc.bcm.edu hg19 17 10358389 10358389 + Missense_Mutation SNP G G T novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . MYH4 NM_017533 exon21 c.C2304A p.F768L TTTGAAGAAAACC . 115.0 31.0 104.0 0.0 . 349 . . . none . . PASS Atlas-SNP ADPRM 56985 hgsc.bcm.edu hg19 17 10608594 10608594 + Missense_Mutation SNP T T G novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . . NM_020233 exon2 c.T351G p.S117R CTTCAGTAGAGAG . 149.0 81.0 113.0 0.0 . . . . . none . . PASS Atlas-SNP SUPT6H 6830 hgsc.bcm.edu hg19 17 27014486 27014486 + Silent SNP G G T novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . SUPT6H NM_003170 exon23 c.G3003T p.L1001L CCTCCTGAAGGTA . 44.0 10.0 45.0 0.0 . 165 . . . none . . PASS Atlas-SNP CACNB1 782 hgsc.bcm.edu hg19 17 37341119 37341119 + Splice_Site SNP T T A rs3211445 TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . CACNB1 NM_000723 exon9 c.649-2A>T . TCTGTCTGGGGGG . 83.0 50.0 102.0 0.0 . 89 . . . weak . . PASS Atlas-SNP ERBB2 2064 hgsc.bcm.edu hg19 17 37883597 37883597 + Missense_Mutation SNP C C T novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . ERBB2 NM_004448 exon26 c.C3209T p.A1070V AGGAGGCCCCCAG . 74.0 21.0 73.0 0.0 . 429 . . . none . . PASS Atlas-SNP C17orf77 146723 hgsc.bcm.edu hg19 17 72588562 72588562 + Missense_Mutation SNP G G T novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . C17orf77 NM_152460 exon3 c.G377T p.C126F AGGTGTGCCCAAA . 65.0 18.0 70.0 0.0 . 31 . . . none . . PASS Atlas-SNP MARCH2 51257 hgsc.bcm.edu hg19 19 8503277 8503277 + Silent SNP C C T novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . MARCH2 NM_001005415 exon5 c.C588T p.S196S GGTCTCCTTCCGC . 62.0 22.0 87.0 0.0 . 17 . . . none . . PASS Atlas-SNP MAG 4099 hgsc.bcm.edu hg19 19 35804347 35804347 + Missense_Mutation SNP G G T novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb MAG_ENST00000392213,colon,carcinoma,0,1 MAG NM_002361 exon11 c.G1871T p.R624L AAATCCGGGTCAA . 37.0 2.0 35.0 0.0 . 172 . . . none . . PASS Atlas-SNP MORC2 22880 hgsc.bcm.edu hg19 22 31345772 31345772 + Missense_Mutation SNP T T G novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . MORC2 NM_014941 exon6 c.A97C p.T33P TCTGAGTAGACTC . 59.0 23.0 82.0 0.0 . 78 . . . none . . PASS Atlas-SNP MAGED2 10916 hgsc.bcm.edu hg19 X 54841947 54841947 + Silent SNP C C T novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . MAGED2 NM_201222 exon12 c.C1653T p.A551A TGGTGCCAGTACC . 47.0 4.0 48.0 0.0 . 74 . . . none . . PASS Atlas-SNP TCEAL4 79921 hgsc.bcm.edu hg19 X 102841929 102841929 + Missense_Mutation SNP A A T novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . TCEAL4 NM_001006935 exon3 c.A326T p.E109V GGAGTGAAACAAG . 126.0 104.0 153.0 1.0 . 18 . . . none . . PASS Atlas-SNP SLC25A5 292 hgsc.bcm.edu hg19 X 118603720 118603720 + Missense_Mutation SNP T T G novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . SLC25A5 NM_001152 exon2 c.T208G p.F70V CTGTCCTTCTGGC . 63.0 45.0 40.0 0.0 . 33 . . . none . . PASS Atlas-SNP LMO7 4008 hgsc.bcm.edu hg19 13 76395479 76395497 + Frame_Shift_Del DEL AAAGAAGATTCTACCACTT AAAGAAGATTCTACCACTT - novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 AAAGAAGATTCTACCACTT AAAGAAGATTCTACCACTT . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . LMO7 NM_015842 exon11 c.1674_1692del p.558_564del . . 104.0 28.0 161.0 0.0 . 334 . 0.269231 0 none . . PASS Atlas-Indel,Pindel EPB41L1 2036 hgsc.bcm.edu hg19 20 34765954 34765956 + In_Frame_Del DEL CTT CTT - novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 CTT CTT . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . EPB41L1 NM_001258329 exon5 c.422_424del p.141_142del . . 50.0 20.0 64.0 0.0 . 111 . 0.4 0 none . . PASS Atlas-Indel,Pindel KIAA1614 57710 hgsc.bcm.edu hg19 1 180885446 180885457 + In_Frame_Del DEL TCCCAGGGTATG TCCCAGGGTATG - novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 TCCCAGGGTATG TCCCAGGGTATG . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb KIAA1614,NS,chondrosarcoma,0,1 KIAA1614 NM_020950 exon2 c.206_217del p.69_73del . . 53.0 17.0 67.0 0.0 . 75 . 0.320755 0 none . . PASS Atlas-Indel,Pindel C11orf57 55216 hgsc.bcm.edu hg19 11 111953315 111953315 + Frame_Shift_Del DEL C C - novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . C11orf57 NM_001082969 exon6 c.500delA p.H167fs . . 209.0 79.0 256.0 0.0 . 41 . 0.37799 0 none . . PASS Atlas-Indel,Pindel DPYS 1807 hgsc.bcm.edu hg19 8 105393497 105393499 + In_Frame_Del DEL CTT CTT - novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 CTT CTT . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . DPYS NM_001385 exon9 c.1488_1490del p.496_497del . . 55.0 26.0 69.0 0.0 . 107 . 0.472727 0 none . . PASS Atlas-Indel,Pindel RFX8 731220 hgsc.bcm.edu hg19 2 102018936 102018936 + Frame_Shift_Del DEL T T - novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . RFX8 NM_001145664 exon11 c.1208delT p.I403fs . . 89.0 38.0 107.0 0.0 . 16 . 0.426966 0 none . . PASS Atlas-INDEL CNOT1 23019 hgsc.bcm.edu hg19 16 58592566 58592570 + Frame_Shift_Del DEL CAAGA CAAGA - novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 CAAGA CAAGA . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb CNOT1_ENST00000441024,NS,lymphoid_neoplasm,0,2 CNOT1 NM_001265612 exon18 c.2140_2144del p.714_715del . . 97.0 46.0 102.0 0.0 . 359 . 0.474227 0 none . . PASS Atlas-Indel,Pindel TTC40 54777 hgsc.bcm.edu hg19 10 134738376 134738376 + Frame_Shift_Del DEL G G - novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . TTC40 NM_001200049 exon11 c.1081delA p.I361fs . . 82.0 39.0 129.0 0.0 . 100 . 0.47561 0 none . . PASS Atlas-Indel,Pindel NUFIP1 26747 hgsc.bcm.edu hg19 13 45563329 45563329 + Frame_Shift_Del DEL G G - novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . NUFIP1 NM_012345 exon1 c.244delG p.D82fs . . 113.0 22.0 130.0 0.0 . 41 . 0.19469 0 none . . PASS Atlas-INDEL ARL6IP4 51329 hgsc.bcm.edu hg19 12 123465766 123465770 + Frame_Shift_Del DEL AGAGC AGAGC - novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 AGAGC AGAGC . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . ARL6IP4 NM_018694 exon2 c.448_452del p.150_151del . . 144.0 31.0 155.0 0.0 . 14 . 0.215278 0 none . . PASS Atlas-Indel,Pindel RFX8 731220 hgsc.bcm.edu hg19 2 102018936 102018937 + Frame_Shift_Del DEL TC TC - novel TCGA-IZ-A6M9-01A-11D-A31X-10 TCGA-IZ-A6M9-10A-01D-A31X-10 TC TC . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 0541b2e4-13f8-4845-a6ba-6dfde158bc09 558c1803-c4c2-42cb-82cb-f3e277bf9beb . RFX8 NM_001145664 exon11 c.1207_1208del p.403_403del . . 90.0 27.0 109.0 0.0 . 16 . 0.300 . none . . PASS Pindel