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 PINK1 65018 broad.mit.edu 36 1 20848267 20848267 + Missense_Mutation SNP G G A novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 20848267 20848267 PINK1 1 G G A 40 TNN 63923 broad.mit.edu 36 1 173333294 173333294 + Silent SNP C C T novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 173333294 173333294 TNN 1 C C T 19 CACNA1C 775 broad.mit.edu 36 12 2492406 2492406 + Missense_Mutation SNP G G A novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 G A G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 2492406 2492406 CACNA1C 12 G G A 37 CACNA1C 775 broad.mit.edu 36 12 2644415 2644415 + Missense_Mutation SNP C C G novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 2644415 2644415 CACNA1C 12 C C G 24 FGF23 8074 broad.mit.edu 36 12 4350108 4350108 + Missense_Mutation SNP G G A novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 G A G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 4350108 4350108 FGF23 12 G G A 39 AKAP3 10566 broad.mit.edu 36 12 4607565 4607565 + Missense_Mutation SNP C C A novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 4607565 4607565 AKAP3 12 C C A 32 F7 2155 broad.mit.edu 36 13 112821173 112821173 + Nonsense_Mutation SNP C C A novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 112821173 112821173 F7 13 C C A 18 TEP1 7011 broad.mit.edu 36 14 19906445 19906445 + Silent SNP A A G novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 A G A A Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Silent SNP 19906445 19906445 TEP1 14 A A G 4 ZFYVE26 23503 broad.mit.edu 36 14 67330180 67330180 + Silent SNP C C T novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 C T C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Silent SNP 67330180 67330180 ZFYVE26 14 C C T 25 ZNF839 55778 broad.mit.edu 36 14 101875210 101875210 + Silent SNP G G A novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 101875210 101875210 ZNF839 14 G G A 45 MAP1A 4130 broad.mit.edu 36 15 41606018 41606018 + Silent SNP C C A novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 41606018 41606018 MAP1A 15 C C A 25 GLDN 342035 broad.mit.edu 36 15 49483974 49483974 + Missense_Mutation SNP G G A novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 49483974 49483974 GLDN 15 G G A 40 NARG2 79664 broad.mit.edu 36 15 58521964 58521964 + Missense_Mutation SNP C C T novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 58521964 58521964 NARG2 15 C C T 29 SLC12A4 6560 broad.mit.edu 36 16 66553081 66553081 + Silent SNP C C T novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 66553081 66553081 SLC12A4 16 C C T 19 HYDIN 54768 broad.mit.edu 36 16 69535249 69535249 + Silent SNP T T C novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 69535249 69535249 HYDIN 16 T T C 60 TP53 7157 broad.mit.edu 36 17 7519095 7519095 + Splice_Site_SNP SNP C C A novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 Unknown Unknown Unknown x x --- x Broad Splice_Site_SNP SNP 7519095 7519095 TP53 17 C C A 18 CYP2F1 1572 broad.mit.edu 36 19 46325669 46325669 + Missense_Mutation SNP T T C novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 46325669 46325669 CYP2F1 19 T T C 58 DACT3 147906 broad.mit.edu 36 19 51843806 51843806 + Missense_Mutation SNP C C T novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 51843806 51843806 DACT3 19 C C T 22 KCNF1 3754 broad.mit.edu 36 2 10970756 10970756 + Silent SNP G G A novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 G A G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Silent SNP 10970756 10970756 KCNF1 2 G G A 38 STAMBP 10617 broad.mit.edu 36 2 73930019 73930019 + Missense_Mutation SNP G G A novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 73930019 73930019 STAMBP 2 G G A 38 NEB 4703 broad.mit.edu 36 2 152101951 152101951 + Missense_Mutation SNP A A C novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 152101951 152101951 NEB 2 A A C 15 ANKRD5 63926 broad.mit.edu 36 20 9978770 9978770 + Missense_Mutation SNP T T A novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 9978770 9978770 ANKRD5 20 T T A 59 DIP2A 23181 broad.mit.edu 36 21 46784257 46784257 + Missense_Mutation SNP A A G novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 46784257 46784257 DIP2A 21 A A G 7 TUBGCP6 85378 broad.mit.edu 36 22 49000210 49000210 + Silent SNP G G A novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 49000210 49000210 TUBGCP6 22 G G A 40 MLH1 4292 broad.mit.edu 36 3 37017540 37017540 + Nonsense_Mutation SNP C C T rs63751221 Unknown TCGA-13-1492-01 TCGA-13-1492-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 37017540 37017540 MLH1 3 C C T 31 CYP8B1 1582 broad.mit.edu 36 3 42892237 42892237 + Nonsense_Mutation SNP G G A novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 42892237 42892237 CYP8B1 3 G G A 39 TTC14 151613 broad.mit.edu 36 3 181810643 181810643 + Silent SNP T T C novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 181810643 181810643 TTC14 3 T T C 49 KIT 3815 broad.mit.edu 36 4 55299416 55299416 + Missense_Mutation SNP G G A novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 G A G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 55299416 55299416 KIT 4 G G A 39 NUP155 9631 broad.mit.edu 36 5 37353868 37353868 + Nonsense_Mutation SNP C C A novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 37353868 37353868 NUP155 5 C C A 30 UBR2 23304 broad.mit.edu 36 6 42731385 42731385 + Missense_Mutation SNP G G C novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 42731385 42731385 UBR2 6 G G C 33 CUL7 9820 broad.mit.edu 36 6 43121332 43121332 + Missense_Mutation SNP T T C novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 T C T T Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 43121332 43121332 CUL7 6 T T C 51 PRSS35 167681 broad.mit.edu 36 6 84290040 84290040 + Missense_Mutation SNP C C T novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 84290040 84290040 PRSS35 6 C C T 28 ABCA13 154664 broad.mit.edu 36 7 48289036 48289036 + Nonsense_Mutation SNP C C T novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 48289036 48289036 ABCA13 7 C C T 29 TFR2 7036 broad.mit.edu 36 7 100056646 100056646 + Missense_Mutation SNP C C T novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 C T C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 100056646 100056646 TFR2 7 C C T 31 CUX1 1523 broad.mit.edu 36 7 101628828 101628828 + Missense_Mutation SNP C C G novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 C G C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 101628828 101628828 CUX1 7 C C G 20 GRM8 2918 broad.mit.edu 36 7 126533856 126533856 + Silent SNP C C T novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 126533856 126533856 GRM8 7 C C T 31 RHOBTB2 23221 broad.mit.edu 36 8 22920742 22920742 + Missense_Mutation SNP G G A novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 22920742 22920742 RHOBTB2 8 G G A 40 FAM135B 51059 broad.mit.edu 36 8 139232705 139232705 + Silent SNP G G A novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 139232705 139232705 FAM135B 8 G G A 47 NUP188 23511 broad.mit.edu 36 9 130808641 130808642 + Missense_Mutation DNP GG GG AA novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation DNP 130808641 130808642 NUP188 9 GG GG AA 43 FAM166A 401565 broad.mit.edu 36 9 139258058 139258058 + Missense_Mutation SNP A A T novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 139258058 139258058 FAM166A 9 A A T 8 PTEN 5728 broad.mit.edu 36 10 89707652 89707652 + Frame_Shift_Del DEL C - - novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 - - C C Unknown Valid Somatic Phase_I Capture Illumina GAIIx Broad Frame_Shift_Del DEL 89707652 89707652 PTEN 10 C - - 19 DAD1 1603 broad.mit.edu 36 14 22127883 22127884 + Frame_Shift_Del DEL AG - AG novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad Frame_Shift_Del DEL 22127883 22127884 DAD1 14 AG - AG 7 REST 5978 broad.mit.edu 36 4 57472321 57472324 + Frame_Shift_Del DEL ACAT - - novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad Frame_Shift_Del DEL 57472321 57472324 REST 4 ACAT - - 6 TNXB 7148 broad.mit.edu 36 6 32137896 32137925 + Splice_Site_Del DEL CCCATCGTCCACTCACCTGTCACCCCGATG - CCCATCGTCCACTCACCTGTCACCCCGATG novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad Splice_Site_Del DEL 32137896 32137925 TNXB 6 CCCATCGTCCACTCACCTGTCACCCCGATG - CCCATCGTCCACTCACCTGTCACCCCGATG 30 SLC37A3 84255 broad.mit.edu 36 7 139694985 139694987 + In_Frame_Del DEL AGA - AGA novel Unknown TCGA-13-1492-01 TCGA-13-1492-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad In_Frame_Del DEL 139694985 139694987 SLC37A3 7 AGA - AGA 7