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 GABRD 2563 broad.mit.edu 36 1 1951512 1951512 + Silent SNP C C T novel Unknown TCGA-24-1552-01 TCGA-24-1552-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 1951512 1951512 GABRD 1 C C T 19 PTPRF 5792 broad.mit.edu 36 1 43817146 43817146 + Missense_Mutation SNP G G A novel Unknown TCGA-24-1552-01 TCGA-24-1552-10 G A G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 43817146 43817146 PTPRF 1 G G A 40 GBA 2629 broad.mit.edu 36 1 153473786 153473786 + Silent SNP T T C novel Unknown TCGA-24-1552-01 TCGA-24-1552-10 T C T T Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Silent SNP 153473786 153473786 GBA 1 T T C 60 RET 5979 broad.mit.edu 36 10 42939221 42939221 + Silent SNP C C T novel Unknown TCGA-24-1552-01 TCGA-24-1552-10 C T C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Silent SNP 42939221 42939221 RET 10 C C T 23 OR52B6 340980 broad.mit.edu 36 11 5559626 5559626 + Missense_Mutation SNP G G T novel Unknown TCGA-24-1552-01 TCGA-24-1552-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 5559626 5559626 OR52B6 11 G G T 35 SYT7 9066 broad.mit.edu 36 11 61057099 61057099 + Missense_Mutation SNP G G A novel Unknown TCGA-24-1552-01 TCGA-24-1552-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 61057099 61057099 SYT7 11 G G A 39 STX5 6811 broad.mit.edu 36 11 62351640 62351640 + Nonsense_Mutation SNP G G A novel Unknown TCGA-24-1552-01 TCGA-24-1552-10 G A G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Nonsense_Mutation SNP 62351640 62351640 STX5 11 G G A 39 SHANK2 22941 broad.mit.edu 36 11 70026568 70026568 + Missense_Mutation SNP G G C novel Unknown TCGA-24-1552-01 TCGA-24-1552-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 70026568 70026568 SHANK2 11 G G C 40 RNFT2 84900 broad.mit.edu 36 12 115756109 115756109 + Missense_Mutation SNP G G C novel Unknown TCGA-24-1552-01 TCGA-24-1552-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 115756109 115756109 RNFT2 12 G G C 40 POTEG 404785 broad.mit.edu 36 14 18623823 18623823 + Missense_Mutation SNP G G A novel Unknown TCGA-24-1552-01 TCGA-24-1552-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 18623823 18623823 POTEG 14 G G A 40 C14orf102 55051 broad.mit.edu 36 14 89825232 89825232 + Missense_Mutation SNP C C T novel Unknown TCGA-24-1552-01 TCGA-24-1552-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 89825232 89825232 C14orf102 14 C C T 25 INO80 54617 broad.mit.edu 36 15 39171602 39171602 + Missense_Mutation SNP T T C novel Unknown TCGA-24-1552-01 TCGA-24-1552-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 39171602 39171602 INO80 15 T T C 52 C17orf97 400566 broad.mit.edu 36 17 263337 263337 + Silent SNP C C T novel Unknown TCGA-24-1552-01 TCGA-24-1552-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 263337 263337 C17orf97 17 C C T 26 MYO18A 399687 broad.mit.edu 36 17 24461139 24461139 + Missense_Mutation SNP C C G novel Unknown TCGA-24-1552-01 TCGA-24-1552-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 24461139 24461139 MYO18A 17 C C G 31 OR7G1 125962 broad.mit.edu 36 19 9086745 9086745 + Missense_Mutation SNP C C G novel Unknown TCGA-24-1552-01 TCGA-24-1552-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 9086745 9086745 OR7G1 19 C C G 32 ZNF208 7757 broad.mit.edu 36 19 21947816 21947816 + Missense_Mutation SNP C C A novel Unknown TCGA-24-1552-01 TCGA-24-1552-10 C A C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 21947816 21947816 ZNF208 19 C C A 24 LRP3 4037 broad.mit.edu 36 19 38388221 38388221 + Silent SNP C C T novel Unknown TCGA-24-1552-01 TCGA-24-1552-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 38388221 38388221 LRP3 19 C C T 19 DYRK1B 9149 broad.mit.edu 36 19 45011038 45011038 + Silent SNP G G A novel Unknown TCGA-24-1552-01 TCGA-24-1552-10 G A G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Silent SNP 45011038 45011038 DYRK1B 19 G G A 41 DYRK1B 9149 broad.mit.edu 36 19 45012486 45012486 + Missense_Mutation SNP G G C novel Unknown TCGA-24-1552-01 TCGA-24-1552-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 45012486 45012486 DYRK1B 19 G G C 45 ATP6V1A 523 broad.mit.edu 36 3 114980320 114980320 + Silent SNP C C G novel Unknown TCGA-24-1552-01 TCGA-24-1552-10 C G C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Silent SNP 114980320 114980320 ATP6V1A 3 C C G 31 USO1 8615 broad.mit.edu 36 4 76911071 76911071 + Missense_Mutation SNP G G T novel Unknown TCGA-24-1552-01 TCGA-24-1552-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 76911071 76911071 USO1 4 G G T 44 PCDHGB5 56101 broad.mit.edu 36 5 140758483 140758483 + Missense_Mutation SNP G G A novel Unknown TCGA-24-1552-01 TCGA-24-1552-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 140758483 140758483 PCDHGB5 5 G G A 39 HIST1H2AE 3012 broad.mit.edu 36 6 26325293 26325293 + Missense_Mutation SNP G G A novel Unknown TCGA-24-1552-01 TCGA-24-1552-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 26325293 26325293 HIST1H2AE 6 G G A 35 C6orf27 80737 broad.mit.edu 36 6 31844873 31844873 + Nonsense_Mutation SNP G G C novel Unknown TCGA-24-1552-01 TCGA-24-1552-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 31844873 31844873 C6orf27 6 G G C 48 RBAK 57786 broad.mit.edu 36 7 5063848 5063848 + Missense_Mutation SNP T T G novel Unknown TCGA-24-1552-01 TCGA-24-1552-10 T G T T Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 5063848 5063848 RBAK 7 T T G 49 HOXA10 3206 broad.mit.edu 36 7 27179982 27179982 + Missense_Mutation SNP A A G novel Unknown TCGA-24-1552-01 TCGA-24-1552-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 27179982 27179982 HOXA10 7 A A G 6 POR 5447 broad.mit.edu 36 7 75453614 75453614 + Missense_Mutation SNP A A T novel Unknown TCGA-24-1552-01 TCGA-24-1552-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 75453614 75453614 POR 7 A A T 12 DLX6 1750 broad.mit.edu 36 7 96477083 96477083 + Nonsense_Mutation SNP A A T novel Unknown TCGA-24-1552-01 TCGA-24-1552-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 96477083 96477083 DLX6 7 A A T 9 PPP2R2A 5520 broad.mit.edu 36 8 26283770 26283770 + Missense_Mutation SNP C C T novel Unknown TCGA-24-1552-01 TCGA-24-1552-10 C T C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 26283770 26283770 PPP2R2A 8 C C T 26 FNTA 2339 broad.mit.edu 36 8 43030803 43030803 + Missense_Mutation SNP G G T novel Unknown TCGA-24-1552-01 TCGA-24-1552-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 43030803 43030803 FNTA 8 G G T 37 ST18 9705 broad.mit.edu 36 8 53240338 53240338 + Missense_Mutation SNP A A G novel Unknown TCGA-24-1552-01 TCGA-24-1552-10 A G A A Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 53240338 53240338 ST18 8 A A G 2 DPY19L4 286148 broad.mit.edu 36 8 95816070 95816070 + Missense_Mutation SNP G G A novel Unknown TCGA-24-1552-01 TCGA-24-1552-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 95816070 95816070 DPY19L4 8 G G A 42 COL22A1 169044 broad.mit.edu 36 8 139687806 139687806 + Silent SNP C C T novel Unknown TCGA-24-1552-01 TCGA-24-1552-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 139687806 139687806 COL22A1 8 C C T 23 ELAVL2 1993 broad.mit.edu 36 9 23682598 23682598 + Missense_Mutation SNP A A T novel Unknown TCGA-24-1552-01 TCGA-24-1552-10 A T A A Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 23682598 23682598 ELAVL2 9 A A T 14 ZNF462 58499 broad.mit.edu 36 9 108731020 108731020 + Missense_Mutation SNP G G C novel Unknown TCGA-24-1552-01 TCGA-24-1552-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 108731020 108731020 ZNF462 9 G G C 46 ROD1 9991 broad.mit.edu 36 9 114030520 114030520 + Missense_Mutation SNP C C G novel Unknown TCGA-24-1552-01 TCGA-24-1552-10 C G C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 114030520 114030520 ROD1 9 C C G 25 SAGE1 55511 broad.mit.edu 36 X 134820333 134820333 + Missense_Mutation SNP G G A novel Unknown TCGA-24-1552-01 TCGA-24-1552-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 134820333 134820333 SAGE1 23 G G A 40 TP53 7157 broad.mit.edu 36 17 7517830 7517830 + Missense_Mutation SNP G G T novel Unknown TCGA-24-1552-01 TCGA-24-1552-10 G T G G Unknown Valid Somatic Phase_I Capture 454_PCR_WGA Illumina GAIIx Broad Missense_Mutation SNP 7517830 7517830 TP53 17 G G T 35 C2orf16 84226 broad.mit.edu 36 2 27658063 27658086 + In_Frame_Del DEL AGAGAAGACATCACAGTCCCTCTA - AGAGAAGACATCACAGTCCCTCTA novel Unknown TCGA-24-1552-01 TCGA-24-1552-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad In_Frame_Del DEL 27658063 27658086 C2orf16 2 AGAGAAGACATCACAGTCCCTCTA - AGAGAAGACATCACAGTCCCTCTA 11 BAIAP2L2 80115 broad.mit.edu 36 22 36813120 36813121 + In_Frame_Ins INS - CATGGAGGT - novel Unknown TCGA-24-1552-01 TCGA-24-1552-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad In_Frame_Ins INS 36813120 36813121 BAIAP2L2 22 - CATGGAGGT - 10 BRD2 6046 broad.mit.edu 36 6 33052576 33052577 + Frame_Shift_Ins INS - T - novel Unknown TCGA-24-1552-01 TCGA-24-1552-10 T - - - Unknown Valid Somatic Phase_I Capture Illumina GAIIx Broad Frame_Shift_Ins INS 33052576 33052577 BRD2 6 - T - 32