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 dataset type classification start end gene chr ref_allele tum_allele1 tum_allele2 context PRAMEF1 65121 broad.mit.edu 36 1 12777122 12777122 + Silent SNP A A T novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 12777122 12777122 PRAMEF1 1 A A T 10 FABP3 2170 broad.mit.edu 36 1 31618432 31618432 + Missense_Mutation SNP A A C novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 A C A A Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 31618432 31618432 FABP3 1 A A C 7 FAM46C 54855 broad.mit.edu 36 1 117967330 117967330 + Missense_Mutation SNP A A T novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 117967330 117967330 FAM46C 1 A A T 7 GON4L 54856 broad.mit.edu 36 1 153988537 153988537 + Nonsense_Mutation SNP G G C novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 153988537 153988537 GON4L 1 G G C 45 C1orf112 55732 broad.mit.edu 36 1 168083561 168083561 + Missense_Mutation SNP C C G novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 168083561 168083561 C1orf112 1 C C G 28 FLVCR1 28982 broad.mit.edu 36 1 211103748 211103748 + Missense_Mutation SNP A A C novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 211103748 211103748 FLVCR1 1 A A C 10 EDARADD 128178 broad.mit.edu 36 1 234712306 234712306 + Missense_Mutation SNP A A C novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 234712306 234712306 EDARADD 1 A A C 1 NEURL 9148 broad.mit.edu 36 10 105320752 105320752 + Missense_Mutation SNP G G C novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 105320752 105320752 NEURL 10 G G C 33 PIK3C2A 5286 broad.mit.edu 36 11 17114655 17114655 + Missense_Mutation SNP C C T novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 17114655 17114655 PIK3C2A 11 C C T 20 LRP4 4038 broad.mit.edu 36 11 46847186 46847186 + Missense_Mutation SNP T T C novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 46847186 46847186 LRP4 11 T T C 60 FNBP4 23360 broad.mit.edu 36 11 47702858 47702858 + Missense_Mutation SNP A A G novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 47702858 47702858 FNBP4 11 A A G 11 MS4A6A 64231 broad.mit.edu 36 11 59702353 59702353 + Missense_Mutation SNP C C T novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 59702353 59702353 MS4A6A 11 C C T 21 C11orf80 79703 broad.mit.edu 36 11 66338022 66338022 + Silent SNP T T C novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 66338022 66338022 C11orf80 11 T T C 52 PGM2L1 283209 broad.mit.edu 36 11 73725393 73725393 + Missense_Mutation SNP C C G novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 73725393 73725393 PGM2L1 11 C C G 32 MRE11A 4361 broad.mit.edu 36 11 93849165 93849165 + Silent SNP T T A novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 T A T T Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Silent SNP 93849165 93849165 MRE11A 11 T T A 63 IL10RA 3587 broad.mit.edu 36 11 117369302 117369302 + Missense_Mutation SNP G G C novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 117369302 117369302 IL10RA 11 G G C 33 AICDA 57379 broad.mit.edu 36 12 8648783 8648783 + Missense_Mutation SNP A A G novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 8648783 8648783 AICDA 12 A A G 13 GRIN2B 2904 broad.mit.edu 36 12 13910020 13910020 + Silent SNP G G T novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 13910020 13910020 GRIN2B 12 G G T 35 LRMP 4033 broad.mit.edu 36 12 25146435 25146435 + Missense_Mutation SNP A A T novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 25146435 25146435 LRMP 12 A A T 2 KIF21A 55605 broad.mit.edu 36 12 37998229 37998229 + Missense_Mutation SNP G G A novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 37998229 37998229 KIF21A 12 G G A 33 TIMELESS 8914 broad.mit.edu 36 12 55111012 55111012 + Silent SNP G G T novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 G T G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Silent SNP 55111012 55111012 TIMELESS 12 G G T 37 GLI1 2735 broad.mit.edu 36 12 56150731 56150731 + Missense_Mutation SNP C C A novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 C A C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 56150731 56150731 GLI1 12 C C A 18 XPOT 11260 broad.mit.edu 36 12 63110318 63110318 + Missense_Mutation SNP G G A novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 63110318 63110318 XPOT 12 G G A 46 GLIPR1L2 144321 broad.mit.edu 36 12 74090508 74090508 + Missense_Mutation SNP G G C novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 74090508 74090508 GLIPR1L2 12 G G C 46 CDK17 5128 broad.mit.edu 36 12 95212971 95212971 + Missense_Mutation SNP G G C novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 G C G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 95212971 95212971 CDK17 12 G G C 37 C12orf51 283450 broad.mit.edu 36 12 111152049 111152049 + Missense_Mutation SNP T T C novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 111152049 111152049 C12orf51 12 T T C 50 SACS 26278 broad.mit.edu 36 13 22812961 22812961 + Missense_Mutation SNP C C G novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 C G C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 22812961 22812961 SACS 13 C C G 32 SLITRK1 114798 broad.mit.edu 36 13 83352093 83352093 + Missense_Mutation SNP C C A novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 83352093 83352093 SLITRK1 13 C C A 20 KLHDC1 122773 broad.mit.edu 36 14 49265981 49265981 + Silent SNP C C T novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 49265981 49265981 KLHDC1 14 C C T 20 BDKRB1 623 broad.mit.edu 36 14 95799918 95799918 + Missense_Mutation SNP T T C novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 95799918 95799918 BDKRB1 14 T T C 62 TRPM7 54822 broad.mit.edu 36 15 48671444 48671444 + Missense_Mutation SNP G G C novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 G C G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 48671444 48671444 TRPM7 15 G G C 33 RORA 6095 broad.mit.edu 36 15 58611317 58611317 + Missense_Mutation SNP C C G novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 58611317 58611317 RORA 15 C C G 32 KIAA1024 23251 broad.mit.edu 36 15 77537150 77537150 + Missense_Mutation SNP G G T novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 77537150 77537150 KIAA1024 15 G G T 36 AP3B2 8120 broad.mit.edu 36 15 81127729 81127729 + Silent SNP G G A novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 81127729 81127729 AP3B2 15 G G A 46 C15orf42 90381 broad.mit.edu 36 15 87968095 87968095 + Missense_Mutation SNP G G A novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 87968095 87968095 C15orf42 15 G G A 33 SRRM2 23524 broad.mit.edu 36 16 2752192 2752192 + Silent SNP T T A novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 2752192 2752192 SRRM2 16 T T A 53 TBC1D10B 26000 broad.mit.edu 36 16 30288079 30288079 + Silent SNP G G A novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 30288079 30288079 TBC1D10B 16 G G A 41 NLRC5 84166 broad.mit.edu 36 16 55658804 55658804 + Missense_Mutation SNP G G C novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 55658804 55658804 NLRC5 16 G G C 42 ACD 65057 broad.mit.edu 36 16 66251600 66251600 + Missense_Mutation SNP G G C novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 66251600 66251600 ACD 16 G G C 35 RANBP10 57610 broad.mit.edu 36 16 66335794 66335794 + Missense_Mutation SNP C C T novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 66335794 66335794 RANBP10 16 C C T 21 CNTNAP4 85445 broad.mit.edu 36 16 75086371 75086371 + Missense_Mutation SNP C C G novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 75086371 75086371 CNTNAP4 16 C C G 32 ALOX15 246 broad.mit.edu 36 17 4489165 4489165 + Missense_Mutation SNP C C A novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 C A C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 4489165 4489165 ALOX15 17 C C A 22 ZMYND15 84225 broad.mit.edu 36 17 4595395 4595395 + Missense_Mutation SNP G G C novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 4595395 4595395 ZMYND15 17 G G C 33 MYH4 4622 broad.mit.edu 36 17 10287540 10287540 + Missense_Mutation SNP C C A novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 C A C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 10287540 10287540 MYH4 17 C C A 20 C17orf63 55731 broad.mit.edu 36 17 24110354 24110354 + Missense_Mutation SNP G G T novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 24110354 24110354 C17orf63 17 G G T 43 CYGB 114757 broad.mit.edu 36 17 72039287 72039287 + Missense_Mutation SNP G G T novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 72039287 72039287 CYGB 17 G G T 42 ANKRD12 23253 broad.mit.edu 36 18 9246624 9246624 + Missense_Mutation SNP T T C novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 9246624 9246624 ANKRD12 18 T T C 49 RIOK3 8780 broad.mit.edu 36 18 19298580 19298580 + Missense_Mutation SNP G G C novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 G C G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 19298580 19298580 RIOK3 18 G G C 33 CDH20 28316 broad.mit.edu 36 18 57308945 57308945 + Missense_Mutation SNP G G C novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 G C G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 57308945 57308945 CDH20 18 G G C 34 FAM69C 125704 broad.mit.edu 36 18 70254719 70254719 + Missense_Mutation SNP C C A novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 70254719 70254719 FAM69C 18 C C A 20 EBI3 10148 broad.mit.edu 36 19 4180575 4180575 + Missense_Mutation SNP G G C novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 4180575 4180575 EBI3 19 G G C 48 TIMM44 10469 broad.mit.edu 36 19 7898971 7898971 + Silent SNP G G A novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 7898971 7898971 TIMM44 19 G G A 48 ZNF121 7675 broad.mit.edu 36 19 9538491 9538491 + Nonsense_Mutation SNP G G A novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 9538491 9538491 ZNF121 19 G G A 45 OLFM2 93145 broad.mit.edu 36 19 9826216 9826216 + Silent SNP G G C novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 9826216 9826216 OLFM2 19 G G C 47 TYK2 7297 broad.mit.edu 36 19 10334303 10334303 + Silent SNP G G A novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 10334303 10334303 TYK2 19 G G A 39 IL27RA 9466 broad.mit.edu 36 19 14023431 14023431 + Missense_Mutation SNP G G T novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 14023431 14023431 IL27RA 19 G G T 35 CILP2 148113 broad.mit.edu 36 19 19517673 19517673 + Missense_Mutation SNP C C A novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 19517673 19517673 CILP2 19 C C A 26 ANKRD27 84079 broad.mit.edu 36 19 37802272 37802272 + Missense_Mutation SNP G G C novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 37802272 37802272 ANKRD27 19 G G C 35 WDR88 126248 broad.mit.edu 36 19 38334001 38334001 + Missense_Mutation SNP A A T novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 38334001 38334001 WDR88 19 A A T 7 ZNF345 25850 broad.mit.edu 36 19 42060336 42060336 + Missense_Mutation SNP A A T novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 42060336 42060336 ZNF345 19 A A T 11 ADCY3 109 broad.mit.edu 36 2 24995288 24995288 + Missense_Mutation SNP G G A novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 24995288 24995288 ADCY3 2 G G A 42 POMC 5443 broad.mit.edu 36 2 25241012 25241012 + Splice_Site_SNP SNP A A C novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 A C A A Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Splice_Site_SNP SNP 25241012 25241012 POMC 2 A A C 14 PLB1 151056 broad.mit.edu 36 2 28668118 28668118 + Missense_Mutation SNP G G C novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 G C G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 28668118 28668118 PLB1 2 G G C 46 SPR 6697 broad.mit.edu 36 2 72972028 72972028 + Missense_Mutation SNP G G A novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 G A G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 72972028 72972028 SPR 2 G G A 40 ALMS1 7840 broad.mit.edu 36 2 73499950 73499950 + Silent SNP G G T novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 73499950 73499950 ALMS1 2 G G T 46 SH3RF3 344558 broad.mit.edu 36 2 109330756 109330756 + Silent SNP C C T novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 109330756 109330756 SH3RF3 2 C C T 19 SCN3A 6328 broad.mit.edu 36 2 165660402 165660402 + Silent SNP A A G novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 A G A A Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Silent SNP 165660402 165660402 SCN3A 2 A A G 13 DNAH7 56171 broad.mit.edu 36 2 196448711 196448711 + Silent SNP A A G novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 196448711 196448711 DNAH7 2 A A G 8 MAP2 4133 broad.mit.edu 36 2 210226373 210226373 + Silent SNP G G A novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 G A G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Silent SNP 210226373 210226373 MAP2 2 G G A 34 RRBP1 6238 broad.mit.edu 36 20 17589138 17589138 + Silent SNP G G A novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 17589138 17589138 RRBP1 20 G G A 48 C20orf26 26074 broad.mit.edu 36 20 20191721 20191721 + Missense_Mutation SNP A A T novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 A T A A Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 20191721 20191721 C20orf26 20 A A T 11 SNAI1 6615 broad.mit.edu 36 20 48033829 48033829 + Missense_Mutation SNP G G C novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 48033829 48033829 SNAI1 20 G G C 33 PHACTR3 116154 broad.mit.edu 36 20 57751584 57751584 + Missense_Mutation SNP G G A novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 G A G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 57751584 57751584 PHACTR3 20 G G A 40 MYT1 4661 broad.mit.edu 36 20 62318959 62318959 + Missense_Mutation SNP A A G novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 62318959 62318959 MYT1 20 A A G 11 MICAL3 57553 broad.mit.edu 36 22 16743984 16743984 + Missense_Mutation SNP T T C novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 16743984 16743984 MICAL3 22 T T C 51 SF3A1 10291 broad.mit.edu 36 22 29068210 29068210 + Missense_Mutation SNP C C A novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 29068210 29068210 SF3A1 22 C C A 30 CELSR3 1951 broad.mit.edu 36 3 48661230 48661230 + Missense_Mutation SNP C C A novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 48661230 48661230 CELSR3 3 C C A 26 RBM6 10180 broad.mit.edu 36 3 50070975 50070975 + Silent SNP C C G novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 50070975 50070975 RBM6 3 C C G 28 CADPS 8618 broad.mit.edu 36 3 62493715 62493715 + Missense_Mutation SNP A A T novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 62493715 62493715 CADPS 3 A A T 10 CD80 941 broad.mit.edu 36 3 120738700 120738700 + Missense_Mutation SNP A A T novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 A T A A Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 120738700 120738700 CD80 3 A A T 6 CD86 942 broad.mit.edu 36 3 123305171 123305171 + Missense_Mutation SNP T T G novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 123305171 123305171 CD86 3 T T G 56 SLC12A8 84561 broad.mit.edu 36 3 126391980 126391980 + Missense_Mutation SNP C C A novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 126391980 126391980 SLC12A8 3 C C A 30 MBD4 8930 broad.mit.edu 36 3 130638158 130638158 + Missense_Mutation SNP T T C novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 T C T T Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 130638158 130638158 MBD4 3 T T C 64 P2RY12 64805 broad.mit.edu 36 3 152538631 152538631 + Missense_Mutation SNP C C A novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 152538631 152538631 P2RY12 3 C C A 30 GPR149 344758 broad.mit.edu 36 3 155629951 155629951 + Missense_Mutation SNP C C A novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 155629951 155629951 GPR149 3 C C A 22 LEKR1 389170 broad.mit.edu 36 3 158245839 158245839 + Missense_Mutation SNP A A G novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 158245839 158245839 LEKR1 3 A A G 11 TNIK 23043 broad.mit.edu 36 3 172294438 172294438 + Missense_Mutation SNP G G T novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 172294438 172294438 TNIK 3 G G T 41 FGFRL1 53834 broad.mit.edu 36 4 1006193 1006193 + Silent SNP C C T novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 1006193 1006193 FGFRL1 4 C C T 23 RBM47 54502 broad.mit.edu 36 4 40135541 40135541 + Missense_Mutation SNP C C A novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 40135541 40135541 RBM47 4 C C A 22 FGB 2244 broad.mit.edu 36 4 155708244 155708244 + Silent SNP A A G novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 155708244 155708244 FGB 4 A A G 4 BRD9 65980 broad.mit.edu 36 5 918625 918625 + Missense_Mutation SNP C C A novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 918625 918625 BRD9 5 C C A 30 RNASEN 29102 broad.mit.edu 36 5 31485180 31485180 + Missense_Mutation SNP T T A novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 31485180 31485180 RNASEN 5 T T A 58 NDST1 3340 broad.mit.edu 36 5 149881247 149881247 + Missense_Mutation SNP C C T novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 149881247 149881247 NDST1 5 C C T 23 FAT2 2196 broad.mit.edu 36 5 150897668 150897668 + Silent SNP T T A novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 150897668 150897668 FAT2 5 T T A 49 SPARC 6678 broad.mit.edu 36 5 151027277 151027277 + Missense_Mutation SNP T T A novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 151027277 151027277 SPARC 5 T T A 59 COL23A1 91522 broad.mit.edu 36 5 177601947 177601947 + Splice_Site_SNP SNP C C A novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Splice_Site_SNP SNP 177601947 177601947 COL23A1 5 C C A 18 BEND3 57673 broad.mit.edu 36 6 107497569 107497569 + Missense_Mutation SNP C C T novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 107497569 107497569 BEND3 6 C C T 31 KIAA0408 9729 broad.mit.edu 36 6 127809856 127809856 + Missense_Mutation SNP C C T novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 127809856 127809856 KIAA0408 6 C C T 24 TNFAIP3 7128 broad.mit.edu 36 6 138241536 138241536 + Missense_Mutation SNP C C G novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 138241536 138241536 TNFAIP3 6 C C G 28 RBAK 57786 broad.mit.edu 36 7 5071171 5071172 + Missense_Mutation DNP TT TT AA novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 TT AA TT TT Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation DNP 5071171 5071172 RBAK 7 TT TT AA 56 VPS41 27072 broad.mit.edu 36 7 38778646 38778646 + Splice_Site_SNP SNP C C T novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Splice_Site_SNP SNP 38778646 38778646 VPS41 7 C C T 20 PPP1R3A 5506 broad.mit.edu 36 7 113307144 113307144 + Silent SNP T T A novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 T A T T Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Silent SNP 113307144 113307144 PPP1R3A 7 T T A 54 IMPDH1 3614 broad.mit.edu 36 7 127825757 127825757 + Missense_Mutation SNP C C T novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 127825757 127825757 IMPDH1 7 C C T 29 MKLN1 4289 broad.mit.edu 36 7 130806223 130806223 + Missense_Mutation SNP G G C novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 130806223 130806223 MKLN1 7 G G C 33 CNPY1 285888 broad.mit.edu 36 7 154992530 154992530 + Missense_Mutation SNP G G A novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 154992530 154992530 CNPY1 7 G G A 36 SQLE 6713 broad.mit.edu 36 8 126080835 126080835 + Silent SNP T T A novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 T A T T Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Silent SNP 126080835 126080835 SQLE 8 T T A 56 FLJ43860 389690 broad.mit.edu 36 8 142515252 142515252 + Missense_Mutation SNP G G T novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 142515252 142515252 FLJ43860 8 G G T 44 SLC39A4 55630 broad.mit.edu 36 8 145608817 145608817 + Silent SNP G G A novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 145608817 145608817 SLC39A4 8 G G A 41 TRPM6 140803 broad.mit.edu 36 9 76560104 76560104 + Missense_Mutation SNP T T C novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 76560104 76560104 TRPM6 9 T T C 63 PTGR1 22949 broad.mit.edu 36 9 113385599 113385599 + Missense_Mutation SNP C C G novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 113385599 113385599 PTGR1 9 C C G 20 LMX1B 4010 broad.mit.edu 36 9 128495363 128495363 + Silent SNP C C A novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 128495363 128495363 LMX1B 9 C C A 21 KLHL13 90293 broad.mit.edu 36 X 116919851 116919851 + Missense_Mutation SNP C C A novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 116919851 116919851 KLHL13 23 C C A 17 DCAF12L2 340578 broad.mit.edu 36 X 125126337 125126337 + Missense_Mutation SNP C C A novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 C A C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 125126337 125126337 DCAF12L2 23 C C A 18 FAP 2191 broad.mit.edu 36 2 162753120 162753156 + Splice_Site_Del DEL CTAAAGGAAAAACAAAAAAAACAAGAATCTTTGATTG - CTAAAGGAAAAACAAAAAAAACAAGAATCTTTGATTG novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad Splice_Site_Del DEL 162753120 162753156 FAP 2 CTAAAGGAAAAACAAAAAAAACAAGAATCTTTGATTG - CTAAAGGAAAAACAAAAAAAACAAGAATCTTTGATTG 24 UTP3 57050 broad.mit.edu 36 4 71773283 71773295 + Frame_Shift_Del DEL GGAGCAGCTAAGT - GGAGCAGCTAAGT novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad Frame_Shift_Del DEL 71773283 71773295 UTP3 4 GGAGCAGCTAAGT - GGAGCAGCTAAGT 39 GSTCD 79807 broad.mit.edu 36 4 106975103 106975127 + Frame_Shift_Del DEL GTGATTGAGCACTGTATCAAAACAC - GTGATTGAGCACTGTATCAAAACAC novel Unknown TCGA-13-1510-01 TCGA-13-1510-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad Frame_Shift_Del DEL 106975103 106975127 GSTCD 4 GTGATTGAGCACTGTATCAAAACAC - GTGATTGAGCACTGTATCAAAACAC 44