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 S1PR1 1901 broad.mit.edu 36 1 101477918 101477918 + Missense_Mutation SNP G G A novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 101477918 101477918 S1PR1 1 G G A 40 SPRR2A 6700 broad.mit.edu 36 1 151295623 151295623 + Missense_Mutation SNP G G T novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 151295623 151295623 SPRR2A 1 G G T 46 LGR6 59352 broad.mit.edu 36 1 200542619 200542619 + Silent SNP C C T novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 200542619 200542619 LGR6 1 C C T 27 SYT2 127833 broad.mit.edu 36 1 200838172 200838172 + Missense_Mutation SNP C C T novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 200838172 200838172 SYT2 1 C C T 23 FMN2 56776 broad.mit.edu 36 1 238438545 238438545 + Silent SNP C C A novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 238438545 238438545 FMN2 1 C C A 28 ZMIZ1 57178 broad.mit.edu 36 10 80722051 80722051 + Missense_Mutation SNP G G A novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 80722051 80722051 ZMIZ1 10 G G A 34 LRIT2 340745 broad.mit.edu 36 10 85971779 85971779 + Silent SNP G G A novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 85971779 85971779 LRIT2 10 G G A 43 SF1 7536 broad.mit.edu 36 11 64293596 64293596 + Missense_Mutation SNP C C T novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 64293596 64293596 SF1 11 C C T 24 CACNA1C 775 broad.mit.edu 36 12 2586462 2586462 + Missense_Mutation SNP A A T novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 2586462 2586462 CACNA1C 12 A A T 2 SPTLC2 9517 broad.mit.edu 36 14 77057633 77057633 + Silent SNP T T G novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 77057633 77057633 SPTLC2 14 T T G 55 NRXN3 9369 broad.mit.edu 36 14 79199991 79199991 + Missense_Mutation SNP G G A novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 79199991 79199991 NRXN3 14 G G A 39 DIO3 1735 broad.mit.edu 36 14 101097957 101097957 + Missense_Mutation SNP A A T novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 101097957 101097957 DIO3 14 A A T 12 CSPG4 1464 broad.mit.edu 36 15 73766872 73766872 + Missense_Mutation SNP C C T novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 73766872 73766872 CSPG4 15 C C T 19 ADCY9 115 broad.mit.edu 36 16 3982225 3982225 + Silent SNP C C T novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 3982225 3982225 ADCY9 16 C C T 23 GP2 2813 broad.mit.edu 36 16 20242894 20242894 + Missense_Mutation SNP G G T novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 20242894 20242894 GP2 16 G G T 39 TP53 7157 broad.mit.edu 36 17 7519167 7519167 + Missense_Mutation SNP T T C novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 7519167 7519167 TP53 17 T T C 57 KRT33A 3883 broad.mit.edu 36 17 36756723 36756724 + Missense_Mutation DNP CC CC AG novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation DNP 36756723 36756724 KRT33A 17 CC CC AG 18 HSF5 124535 broad.mit.edu 36 17 53912476 53912476 + Silent SNP G G A novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 53912476 53912476 HSF5 17 G G A 43 JMJD6 23210 broad.mit.edu 36 17 72233477 72233477 + Missense_Mutation SNP C C A novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 72233477 72233477 JMJD6 17 C C A 23 ASXL3 80816 broad.mit.edu 36 18 29572453 29572453 + Missense_Mutation SNP G G A novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 29572453 29572453 ASXL3 18 G G A 43 RAVER1 125950 broad.mit.edu 36 19 10295238 10295238 + Missense_Mutation SNP G G A novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 10295238 10295238 RAVER1 19 G G A 38 PTPRH 5794 broad.mit.edu 36 19 60401866 60401866 + Silent SNP C C T novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 60401866 60401866 PTPRH 19 C C T 30 COMMD1 150684 broad.mit.edu 36 2 61986493 61986493 + Missense_Mutation SNP T T A novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 61986493 61986493 COMMD1 2 T T A 56 SAP130 79595 broad.mit.edu 36 2 128429381 128429381 + Missense_Mutation SNP G G T novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 128429381 128429381 SAP130 2 G G T 44 ARHGEF4 50649 broad.mit.edu 36 2 131502028 131502028 + Silent SNP C C T novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 131502028 131502028 ARHGEF4 2 C C T 19 DOCK10 55619 broad.mit.edu 36 2 225347989 225347989 + Missense_Mutation SNP G G A novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 225347989 225347989 DOCK10 2 G G A 39 NGEF 25791 broad.mit.edu 36 2 233461000 233461000 + Missense_Mutation SNP T T C novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 233461000 233461000 NGEF 2 T T C 56 DOCK3 1795 broad.mit.edu 36 3 51374417 51374417 + Silent SNP G G C novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 51374417 51374417 DOCK3 3 G G C 47 MME 4311 broad.mit.edu 36 3 156315588 156315588 + Missense_Mutation SNP G G T novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 156315588 156315588 MME 3 G G T 40 RAI14 26064 broad.mit.edu 36 5 34860034 34860034 + Missense_Mutation SNP C C T novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 34860034 34860034 RAI14 5 C C T 28 HIST1H2BH 8345 broad.mit.edu 36 6 26359862 26359862 + Missense_Mutation SNP C C T novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 26359862 26359862 HIST1H2BH 6 C C T 24 USP49 25862 broad.mit.edu 36 6 41882255 41882255 + Missense_Mutation SNP G G A novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 41882255 41882255 USP49 6 G G A 38 AARS2 57505 broad.mit.edu 36 6 44380903 44380903 + Missense_Mutation SNP C C T novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 44380903 44380903 AARS2 6 C C T 23 C6orf174 387104 broad.mit.edu 36 6 127838890 127838890 + Silent SNP C C G novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 127838890 127838890 C6orf174 6 C C G 25 SDK1 221935 broad.mit.edu 36 7 4083181 4083181 + Silent SNP C C T novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 4083181 4083181 SDK1 7 C C T 19 OPN1SW 611 broad.mit.edu 36 7 128203051 128203051 + Nonsense_Mutation SNP A A T novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 128203051 128203051 OPN1SW 7 A A T 12 AKR1B1 231 broad.mit.edu 36 7 133786091 133786091 + Missense_Mutation SNP G G A novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 133786091 133786091 AKR1B1 7 G G A 39 CSMD3 114788 broad.mit.edu 36 8 113731645 113731646 + Missense_Mutation DNP TG TG AT novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation DNP 113731645 113731646 CSMD3 8 TG TG AT 55 MYC 4609 broad.mit.edu 36 8 128820338 128820338 + Silent SNP C C T novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 128820338 128820338 MYC 8 C C T 32 DGKK 139189 broad.mit.edu 36 X 50139449 50139449 + Missense_Mutation SNP C C G novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 50139449 50139449 DGKK 23 C C G 25 MAGED1 9500 broad.mit.edu 36 X 51656376 51656376 + Silent SNP C C G novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 51656376 51656376 MAGED1 23 C C G 32 ZDHHC15 158866 broad.mit.edu 36 X 74566512 74566512 + Missense_Mutation SNP G G A novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 74566512 74566512 ZDHHC15 23 G G A 43 PACS1 55690 broad.mit.edu 36 11 65740818 65740830 + Splice_Site_Del DEL CAAGGGTGAGCCT - CAAGGGTGAGCCT novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad Splice_Site_Del DEL 65740818 65740830 PACS1 11 CAAGGGTGAGCCT - CAAGGGTGAGCCT 17 LRWD1 222229 broad.mit.edu 36 7 101893502 101893515 + Splice_Site_Del DEL CGGTAAGTGGGAGC - CGGTAAGTGGGAGC novel Unknown TCGA-24-2261-01 TCGA-24-2261-11 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad Splice_Site_Del DEL 101893502 101893515 LRWD1 7 CGGTAAGTGGGAGC - CGGTAAGTGGGAGC 19