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 ERRFI1 54206 broad.mit.edu 36 1 7996687 7996687 + Missense_Mutation SNP T T C novel Unknown TCGA-13-0891-01 TCGA-13-0891-10 T C T T Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 7996687 7996687 ERRFI1 1 T T C 57 THRAP3 9967 broad.mit.edu 36 1 36525163 36525163 + Missense_Mutation SNP C C G novel Unknown TCGA-13-0891-01 TCGA-13-0891-10 C G C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 36525163 36525163 THRAP3 1 C C G 22 EPHA10 284656 broad.mit.edu 36 1 37958608 37958609 + Splice_Site_SNP DNP AC AC CT novel Unknown TCGA-13-0891-01 TCGA-13-0891-10 Unknown Unknown Unknown x x --- x Broad Splice_Site_SNP DNP 37958608 37958609 EPHA10 1 AC AC CT 6 MAST2 23139 broad.mit.edu 36 1 46262069 46262069 + Missense_Mutation SNP G G A novel Unknown TCGA-13-0891-01 TCGA-13-0891-10 G A G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 46262069 46262069 MAST2 1 G G A 38 ANK3 288 broad.mit.edu 36 10 61504064 61504064 + Missense_Mutation SNP G G C novel Unknown TCGA-13-0891-01 TCGA-13-0891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 61504064 61504064 ANK3 10 G G C 35 CCAR1 55749 broad.mit.edu 36 10 70172224 70172224 + Missense_Mutation SNP C C G novel Unknown TCGA-13-0891-01 TCGA-13-0891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 70172224 70172224 CCAR1 10 C C G 30 OPN4 94233 broad.mit.edu 36 10 88408398 88408398 + Nonsense_Mutation SNP G G A novel Unknown TCGA-13-0891-01 TCGA-13-0891-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 88408398 88408398 OPN4 10 G G A 47 NUMA1 4926 broad.mit.edu 36 11 71404873 71404873 + Missense_Mutation SNP C C T novel Unknown TCGA-13-0891-01 TCGA-13-0891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 71404873 71404873 NUMA1 11 C C T 29 ING4 51147 broad.mit.edu 36 12 6632438 6632438 + Missense_Mutation SNP G G A novel Unknown TCGA-13-0891-01 TCGA-13-0891-10 G A G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 6632438 6632438 ING4 12 G G A 39 CLEC1A 51267 broad.mit.edu 36 12 10125126 10125126 + Missense_Mutation SNP C C T novel Unknown TCGA-13-0891-01 TCGA-13-0891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 10125126 10125126 CLEC1A 12 C C T 19 KNTC1 9735 broad.mit.edu 36 12 121653718 121653718 + Silent SNP C C T novel Unknown TCGA-13-0891-01 TCGA-13-0891-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 121653718 121653718 KNTC1 12 C C T 29 MAB21L1 4081 broad.mit.edu 36 13 34947848 34947848 + Missense_Mutation SNP C C T novel Unknown TCGA-13-0891-01 TCGA-13-0891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 34947848 34947848 MAB21L1 13 C C T 17 OR4K5 79317 broad.mit.edu 36 14 19458896 19458896 + Silent SNP C C T novel Unknown TCGA-13-0891-01 TCGA-13-0891-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 19458896 19458896 OR4K5 14 C C T 25 TGM7 116179 broad.mit.edu 36 15 41372199 41372199 + Nonsense_Mutation SNP C C A novel Unknown TCGA-13-0891-01 TCGA-13-0891-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 41372199 41372199 TGM7 15 C C A 24 PKD1L2 114780 broad.mit.edu 36 16 79811342 79811342 + Silent SNP G G A novel Unknown TCGA-13-0891-01 TCGA-13-0891-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 79811342 79811342 PKD1L2 16 G G A 37 TP53 7157 broad.mit.edu 36 17 7518915 7518915 + Missense_Mutation SNP T T C novel Unknown TCGA-13-0891-01 TCGA-13-0891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 7518915 7518915 TP53 17 T T C 49 MAP2K3 5606 broad.mit.edu 36 17 21144528 21144528 + Missense_Mutation SNP C C T novel Unknown TCGA-13-0891-01 TCGA-13-0891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 21144528 21144528 MAP2K3 17 C C T 27 GRIN2C 2905 broad.mit.edu 36 17 70353800 70353800 + Missense_Mutation SNP C C T novel Unknown TCGA-13-0891-01 TCGA-13-0891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 70353800 70353800 GRIN2C 17 C C T 23 KIAA0427 9811 broad.mit.edu 36 18 44639822 44639822 + Missense_Mutation SNP G G A novel Unknown TCGA-13-0891-01 TCGA-13-0891-10 G A G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 44639822 44639822 KIAA0427 18 G G A 39 EVI5L 115704 broad.mit.edu 36 19 7818660 7818660 + Silent SNP C C T novel Unknown TCGA-13-0891-01 TCGA-13-0891-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 7818660 7818660 EVI5L 19 C C T 28 KCNF1 3754 broad.mit.edu 36 2 10971379 10971379 + Missense_Mutation SNP A A C novel Unknown TCGA-13-0891-01 TCGA-13-0891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 10971379 10971379 KCNF1 2 A A C 3 C2orf71 388939 broad.mit.edu 36 2 29149792 29149792 + Silent SNP C C A novel Unknown TCGA-13-0891-01 TCGA-13-0891-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 29149792 29149792 C2orf71 2 C C A 25 IL17RB 55540 broad.mit.edu 36 3 53857734 53857734 + Missense_Mutation SNP G G A novel Unknown TCGA-13-0891-01 TCGA-13-0891-10 G A G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 53857734 53857734 IL17RB 3 G G A 40 IGSF10 285313 broad.mit.edu 36 3 152648106 152648106 + Missense_Mutation SNP G G C novel Unknown TCGA-13-0891-01 TCGA-13-0891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 152648106 152648106 IGSF10 3 G G C 47 PPARGC1A 10891 broad.mit.edu 36 4 23406550 23406550 + Missense_Mutation SNP C C T novel Unknown TCGA-13-0891-01 TCGA-13-0891-10 C T C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 23406550 23406550 PPARGC1A 4 C C T 27 UNC5C 8633 broad.mit.edu 36 4 96418498 96418498 + Missense_Mutation SNP C C T novel Unknown TCGA-13-0891-01 TCGA-13-0891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 96418498 96418498 UNC5C 4 C C T 30 GNL1 2794 broad.mit.edu 36 6 30629164 30629164 + Silent SNP G G A novel Unknown TCGA-13-0891-01 TCGA-13-0891-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 30629164 30629164 GNL1 6 G G A 40 ZNF3 7551 broad.mit.edu 36 7 99506938 99506938 + Missense_Mutation SNP C C T novel Unknown TCGA-13-0891-01 TCGA-13-0891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 99506938 99506938 ZNF3 7 C C T 31 COG5 10466 broad.mit.edu 36 7 106991578 106991578 + Missense_Mutation SNP G G T novel Unknown TCGA-13-0891-01 TCGA-13-0891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 106991578 106991578 COG5 7 G G T 48 ZBTB34 403341 broad.mit.edu 36 9 128681958 128681958 + Missense_Mutation SNP C C A novel Unknown TCGA-13-0891-01 TCGA-13-0891-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 128681958 128681958 ZBTB34 9 C C A 19 CDK12 51755 broad.mit.edu 36 17 34929807 34929815 + In_Frame_Del DEL ACAGACCCT - ACAGACCCT novel Unknown TCGA-13-0891-01 TCGA-13-0891-10 - ACAGACCCT ACAGACCCT ACAGACCCT Unknown Valid Somatic Phase_I Capture Illumina GAIIx Broad In_Frame_Del DEL 34929807 34929815 CDK12 17 ACAGACCCT - ACAGACCCT 2 CPS1 1373 broad.mit.edu 36 2 211164907 211164907 + Frame_Shift_Del DEL T - T novel Unknown TCGA-13-0891-01 TCGA-13-0891-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad Frame_Shift_Del DEL 211164907 211164907 CPS1 2 T - T 56