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 FBXO44 93611 broad.mit.edu 36 1 11640949 11640949 + Missense_Mutation SNP G G A novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 11640949 11640949 FBXO44 1 G G A 37 VPS13D 55187 broad.mit.edu 36 1 12255739 12255739 + Silent SNP T T A novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 12255739 12255739 VPS13D 1 T T A 63 CACHD1 57685 broad.mit.edu 36 1 64919545 64919545 + Missense_Mutation SNP G G A novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 64919545 64919545 CACHD1 1 G G A 48 OR10J3 441911 broad.mit.edu 36 1 157551009 157551009 + Missense_Mutation SNP C C T novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 157551009 157551009 OR10J3 1 C C T 23 TAF3 83860 broad.mit.edu 36 10 8047596 8047596 + Missense_Mutation SNP A A G novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 8047596 8047596 TAF3 10 A A G 3 STAMBPL1 57559 broad.mit.edu 36 10 90666466 90666466 + Missense_Mutation SNP C C A novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 C A C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 90666466 90666466 STAMBPL1 10 C C A 27 LOXL4 84171 broad.mit.edu 36 10 100001319 100001319 + Silent SNP G G A novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 100001319 100001319 LOXL4 10 G G A 33 LZTS2 84445 broad.mit.edu 36 10 102753906 102753906 + Missense_Mutation SNP T T A novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 102753906 102753906 LZTS2 10 T T A 51 EBF3 253738 broad.mit.edu 36 10 131647189 131647189 + Missense_Mutation SNP T T C novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 131647189 131647189 EBF3 10 T T C 55 OR51B2 79345 broad.mit.edu 36 11 5301308 5301308 + Missense_Mutation SNP C C T novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 5301308 5301308 OR51B2 11 C C T 17 LOC143678 143678 broad.mit.edu 36 11 45884996 45884996 + Missense_Mutation SNP C C A novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 45884996 45884996 LOC143678 11 C C A 21 OR5AP2 338675 broad.mit.edu 36 11 56165952 56165952 + Missense_Mutation SNP G G C novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 56165952 56165952 OR5AP2 11 G G C 45 MMP3 4314 broad.mit.edu 36 11 102216153 102216153 + Silent SNP C C G novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 C G C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Silent SNP 102216153 102216153 MMP3 11 C C G 23 STAB2 55576 broad.mit.edu 36 12 102658568 102658568 + Missense_Mutation SNP C C A novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 102658568 102658568 STAB2 12 C C A 26 C12orf76 400073 broad.mit.edu 36 12 108964569 108964569 + Silent SNP C C T novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 108964569 108964569 C12orf76 12 C C T 19 POP5 51367 broad.mit.edu 36 12 119503411 119503411 + Missense_Mutation SNP G G A novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 119503411 119503411 POP5 12 G G A 43 WDR66 144406 broad.mit.edu 36 12 120854166 120854166 + Nonsense_Mutation SNP C C A novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 120854166 120854166 WDR66 12 C C A 18 MLXIP 22877 broad.mit.edu 36 12 121178416 121178416 + Missense_Mutation SNP T T C novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 121178416 121178416 MLXIP 12 T T C 56 CYB5D2 124936 broad.mit.edu 36 17 4007036 4007036 + Missense_Mutation SNP C C A novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 4007036 4007036 CYB5D2 17 C C A 17 MYH2 4620 broad.mit.edu 36 17 10370665 10370665 + Missense_Mutation SNP C C T novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 10370665 10370665 MYH2 17 C C T 27 C17orf76 388341 broad.mit.edu 36 17 16288043 16288043 + Missense_Mutation SNP C C G novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 16288043 16288043 C17orf76 17 C C G 19 UTP6 55813 broad.mit.edu 36 17 27226508 27226508 + Missense_Mutation SNP G G C novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 27226508 27226508 UTP6 17 G G C 34 USP36 57602 broad.mit.edu 36 17 74311393 74311393 + Missense_Mutation SNP T T C novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 74311393 74311393 USP36 17 T T C 58 KEAP1 9817 broad.mit.edu 36 19 10471143 10471143 + Missense_Mutation SNP G G C novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 10471143 10471143 KEAP1 19 G G C 36 SMARCA4 6597 broad.mit.edu 36 19 10999568 10999568 + Silent SNP C C T novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 C T C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Silent SNP 10999568 10999568 SMARCA4 19 C C T 29 NOTCH3 4854 broad.mit.edu 36 19 15139118 15139118 + Silent SNP C C A novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 C A C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Silent SNP 15139118 15139118 NOTCH3 19 C C A 29 CPAMD8 27151 broad.mit.edu 36 19 16886585 16886585 + Missense_Mutation SNP C C T novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 16886585 16886585 CPAMD8 19 C C T 27 KCNN4 3783 broad.mit.edu 36 19 48976721 48976721 + Missense_Mutation SNP C C T novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 48976721 48976721 KCNN4 19 C C T 32 NCR1 9437 broad.mit.edu 36 19 60112559 60112559 + Missense_Mutation SNP G G A novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 G A G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 60112559 60112559 NCR1 19 G G A 39 BRSK1 84446 broad.mit.edu 36 19 60506867 60506867 + Missense_Mutation SNP G G T novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 60506867 60506867 BRSK1 19 G G T 41 SESTD1 91404 broad.mit.edu 36 2 179716695 179716695 + Missense_Mutation SNP C C T novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 179716695 179716695 SESTD1 2 C C T 29 MAP2 4133 broad.mit.edu 36 2 210283183 210283183 + Missense_Mutation SNP G G C novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 G C G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 210283183 210283183 MAP2 2 G G C 41 SLC16A14 151473 broad.mit.edu 36 2 230632123 230632123 + Nonsense_Mutation SNP C C A novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 230632123 230632123 SLC16A14 2 C C A 32 BPIL3 128859 broad.mit.edu 36 20 31090413 31090413 + Missense_Mutation SNP C C T novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 31090413 31090413 BPIL3 20 C C T 28 MATN4 8785 broad.mit.edu 36 20 43366381 43366381 + Missense_Mutation SNP G G A novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 43366381 43366381 MATN4 20 G G A 38 KRTAP27-1 643812 broad.mit.edu 36 21 30631406 30631406 + Missense_Mutation SNP A A G novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 30631406 30631406 KRTAP27-1 21 A A G 9 TFF1 7031 broad.mit.edu 36 21 42659601 42659601 + Missense_Mutation SNP C C G novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 42659601 42659601 TFF1 21 C C G 31 MORC2 22880 broad.mit.edu 36 22 29660166 29660166 + Missense_Mutation SNP G G A novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 29660166 29660166 MORC2 22 G G A 37 IQSEC1 9922 broad.mit.edu 36 3 12938738 12938738 + Missense_Mutation SNP C C T novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 12938738 12938738 IQSEC1 3 C C T 19 SLC4A7 9497 broad.mit.edu 36 3 27447846 27447846 + Missense_Mutation SNP G G T novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 27447846 27447846 SLC4A7 3 G G T 46 SLC9A10 285335 broad.mit.edu 36 3 113480376 113480376 + Missense_Mutation SNP C C T novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 113480376 113480376 SLC9A10 3 C C T 27 RTP1 132112 broad.mit.edu 36 3 188400419 188400419 + Missense_Mutation SNP C C T novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 188400419 188400419 RTP1 3 C C T 27 CPZ 8532 broad.mit.edu 36 4 8656714 8656714 + Missense_Mutation SNP G G A novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 8656714 8656714 CPZ 4 G G A 38 ADH1B 125 broad.mit.edu 36 4 100454248 100454248 + Missense_Mutation SNP G G A novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 G A G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 100454248 100454248 ADH1B 4 G G A 33 ODZ2 57451 broad.mit.edu 36 5 167450237 167450237 + Silent SNP C C A novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 167450237 167450237 ODZ2 5 C C A 24 SLC17A2 10246 broad.mit.edu 36 6 26024944 26024944 + Missense_Mutation SNP A A C novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 26024944 26024944 SLC17A2 6 A A C 15 USP45 85015 broad.mit.edu 36 6 100000796 100000796 + Nonsense_Mutation SNP C C A novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 100000796 100000796 USP45 6 C C A 21 SERINC1 57515 broad.mit.edu 36 6 122819461 122819461 + Missense_Mutation SNP C C G novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 122819461 122819461 SERINC1 6 C C G 17 PHACTR2 9749 broad.mit.edu 36 6 144136913 144136913 + Missense_Mutation SNP G G A novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 144136913 144136913 PHACTR2 6 G G A 39 TTLL2 83887 broad.mit.edu 36 6 167674346 167674346 + Missense_Mutation SNP C C T novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 167674346 167674346 TTLL2 6 C C T 19 FAM200A 221786 broad.mit.edu 36 7 98983233 98983233 + Missense_Mutation SNP C C T novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 98983233 98983233 FAM200A 7 C C T 31 SRRT 51593 broad.mit.edu 36 7 100320536 100320536 + Silent SNP C C T novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 100320536 100320536 SRRT 7 C C T 27 MET 4233 broad.mit.edu 36 7 116127088 116127088 + Missense_Mutation SNP A A T novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 116127088 116127088 MET 7 A A T 14 DOLK 22845 broad.mit.edu 36 9 130748299 130748299 + Missense_Mutation SNP C C A novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 C A C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 130748299 130748299 DOLK 9 C C A 18 FUBP3 8939 broad.mit.edu 36 9 132501298 132501298 + Silent SNP C C T novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 132501298 132501298 FUBP3 9 C C T 19 ZXDA 7789 broad.mit.edu 36 X 57952621 57952621 + Missense_Mutation SNP T T G novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 57952621 57952621 ZXDA 23 T T G 59 SMARCA1 6594 broad.mit.edu 36 X 128473515 128473515 + Nonsense_Mutation SNP G G A novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 128473515 128473515 SMARCA1 23 G G A 40 ATP11C 286410 broad.mit.edu 36 X 138693059 138693059 + Missense_Mutation SNP G G C novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 138693059 138693059 ATP11C 23 G G C 37 SLITRK4 139065 broad.mit.edu 36 X 142544093 142544093 + Missense_Mutation SNP G G T novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 G T G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 142544093 142544093 SLITRK4 23 G G T 34 GABRE 2564 broad.mit.edu 36 X 150874650 150874650 + Missense_Mutation SNP C C T novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 150874650 150874650 GABRE 23 C C T 19 TP53 7157 broad.mit.edu 36 17 7519000 7519000 + Nonsense_Mutation SNP G G A novel Unknown TCGA-24-1474-01 TCGA-24-1474-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad Nonsense_Mutation SNP 7519000 7519000 TP53 17 G G A 45