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 CA6 765 broad.mit.edu 36 1 8941642 8941642 + Silent SNP C C T novel Unknown TCGA-25-2396-01 TCGA-25-2396-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 8941642 8941642 CA6 1 C C T 31 SERINC2 347735 broad.mit.edu 36 1 31674871 31674871 + Silent SNP C C T novel Unknown TCGA-25-2396-01 TCGA-25-2396-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 31674871 31674871 SERINC2 1 C C T 19 DLGAP3 58512 broad.mit.edu 36 1 35143560 35143560 + Silent SNP G G A novel Unknown TCGA-25-2396-01 TCGA-25-2396-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 35143560 35143560 DLGAP3 1 G G A 44 STK40 83931 broad.mit.edu 36 1 36586901 36586901 + Silent SNP G G A novel Unknown TCGA-25-2396-01 TCGA-25-2396-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 36586901 36586901 STK40 1 G G A 39 ASPM 259266 broad.mit.edu 36 1 195337700 195337700 + Missense_Mutation SNP A A G novel Unknown TCGA-25-2396-01 TCGA-25-2396-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 195337700 195337700 ASPM 1 A A G 4 ANKRD26 22852 broad.mit.edu 36 10 27366150 27366150 + Missense_Mutation SNP C C T novel Unknown TCGA-25-2396-01 TCGA-25-2396-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 27366150 27366150 ANKRD26 10 C C T 29 CHST15 51363 broad.mit.edu 36 10 125759819 125759819 + Silent SNP A A G novel Unknown TCGA-25-2396-01 TCGA-25-2396-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 125759819 125759819 CHST15 10 A A G 1 KCNJ11 3767 broad.mit.edu 36 11 17366174 17366174 + Missense_Mutation SNP A A C novel Unknown TCGA-25-2396-01 TCGA-25-2396-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 17366174 17366174 KCNJ11 11 A A C 7 OR8J1 219477 broad.mit.edu 36 11 55884914 55884914 + Missense_Mutation SNP A A T novel Unknown TCGA-25-2396-01 TCGA-25-2396-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 55884914 55884914 OR8J1 11 A A T 1 OR5A1 219982 broad.mit.edu 36 11 58967926 58967926 + Nonsense_Mutation SNP C C T novel Unknown TCGA-25-2396-01 TCGA-25-2396-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 58967926 58967926 OR5A1 11 C C T 23 ATP11A 23250 broad.mit.edu 36 13 112533842 112533842 + Silent SNP G G A novel Unknown TCGA-25-2396-01 TCGA-25-2396-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 112533842 112533842 ATP11A 13 G G A 40 AP1G2 8906 broad.mit.edu 36 14 23105182 23105182 + Missense_Mutation SNP G G A novel Unknown TCGA-25-2396-01 TCGA-25-2396-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 23105182 23105182 AP1G2 14 G G A 39 ARID4A 5926 broad.mit.edu 36 14 57901165 57901165 + Missense_Mutation SNP A A G novel Unknown TCGA-25-2396-01 TCGA-25-2396-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 57901165 57901165 ARID4A 14 A A G 4 TP53 7157 broad.mit.edu 36 17 7518990 7518990 + Missense_Mutation SNP A A G novel Unknown TCGA-25-2396-01 TCGA-25-2396-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 7518990 7518990 TP53 17 A A G 12 JAK3 3718 broad.mit.edu 36 19 17811423 17811423 + Missense_Mutation SNP G G A novel Unknown TCGA-25-2396-01 TCGA-25-2396-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 17811423 17811423 JAK3 19 G G A 48 ZNF181 339318 broad.mit.edu 36 19 39923917 39923917 + Missense_Mutation SNP C C G novel Unknown TCGA-25-2396-01 TCGA-25-2396-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 39923917 39923917 ZNF181 19 C C G 22 GEN1 348654 broad.mit.edu 36 2 17826623 17826623 + Missense_Mutation SNP G G C novel Unknown TCGA-25-2396-01 TCGA-25-2396-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 17826623 17826623 GEN1 2 G G C 44 C2orf29 55571 broad.mit.edu 36 2 101240751 101240751 + Missense_Mutation SNP G G C novel Unknown TCGA-25-2396-01 TCGA-25-2396-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 101240751 101240751 C2orf29 2 G G C 39 KCNJ4 3761 broad.mit.edu 36 22 37153490 37153490 + Silent SNP G G A novel Unknown TCGA-25-2396-01 TCGA-25-2396-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 37153490 37153490 KCNJ4 22 G G A 46 SCN10A 6336 broad.mit.edu 36 3 38745228 38745228 + Nonsense_Mutation SNP G G A novel Unknown TCGA-25-2396-01 TCGA-25-2396-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 38745228 38745228 SCN10A 3 G G A 39 GABRA4 2557 broad.mit.edu 36 4 46673881 46673881 + Silent SNP C C G novel Unknown TCGA-25-2396-01 TCGA-25-2396-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 46673881 46673881 GABRA4 4 C C G 21 BBS12 166379 broad.mit.edu 36 4 123884049 123884049 + Missense_Mutation SNP A A G novel Unknown TCGA-25-2396-01 TCGA-25-2396-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 123884049 123884049 BBS12 4 A A G 15 TKTL2 84076 broad.mit.edu 36 4 164614169 164614169 + Silent SNP C C T novel Unknown TCGA-25-2396-01 TCGA-25-2396-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 164614169 164614169 TKTL2 4 C C T 31 COL12A1 1303 broad.mit.edu 36 6 75958775 75958775 + Silent SNP T T C novel Unknown TCGA-25-2396-01 TCGA-25-2396-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 75958775 75958775 COL12A1 6 T T C 52 TRAF3IP2 10758 broad.mit.edu 36 6 112008224 112008224 + Silent SNP C C T novel Unknown TCGA-25-2396-01 TCGA-25-2396-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 112008224 112008224 TRAF3IP2 6 C C T 28 HOXA7 3204 broad.mit.edu 36 7 27161209 27161209 + Missense_Mutation SNP C C A novel Unknown TCGA-25-2396-01 TCGA-25-2396-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 27161209 27161209 HOXA7 7 C C A 32 KIAA1539 80256 broad.mit.edu 36 9 35097610 35097610 + Missense_Mutation SNP T T C novel Unknown TCGA-25-2396-01 TCGA-25-2396-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 35097610 35097610 KIAA1539 9 T T C 52 NR4A3 8013 broad.mit.edu 36 9 101634829 101634829 + Missense_Mutation SNP C C A novel Unknown TCGA-25-2396-01 TCGA-25-2396-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 101634829 101634829 NR4A3 9 C C A 25 DBH 1621 broad.mit.edu 36 9 135502794 135502794 + Missense_Mutation SNP A A C novel Unknown TCGA-25-2396-01 TCGA-25-2396-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 135502794 135502794 DBH 9 A A C 1 CASK 8573 broad.mit.edu 36 X 41275294 41275294 + Silent SNP G G A novel Unknown TCGA-25-2396-01 TCGA-25-2396-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 41275294 41275294 CASK 23 G G A 42 ABCB7 22 broad.mit.edu 36 X 74292690 74292690 + Missense_Mutation SNP G G A novel Unknown TCGA-25-2396-01 TCGA-25-2396-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 74292690 74292690 ABCB7 23 G G A 42 F9 2158 broad.mit.edu 36 X 138450950 138450950 + Missense_Mutation SNP G G C novel Unknown TCGA-25-2396-01 TCGA-25-2396-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 138450950 138450950 F9 23 G G C 35 NBPF10 100132406 broad.mit.edu 36 1 144038903 144038907 + Frame_Shift_Del DEL TGAAT - TGAAT novel Unknown TCGA-25-2396-01 TCGA-25-2396-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad Frame_Shift_Del DEL 144038903 144038907 NBPF10 1 TGAAT - TGAAT 55 IWS1 55677 broad.mit.edu 36 2 127978935 127978937 + In_Frame_Del DEL CTT - CTT novel Unknown TCGA-25-2396-01 TCGA-25-2396-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad In_Frame_Del DEL 127978935 127978937 IWS1 2 CTT - CTT 24 COG5 10466 broad.mit.edu 36 7 106991606 106991606 + Frame_Shift_Del DEL G - G novel Unknown TCGA-25-2396-01 TCGA-25-2396-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad Frame_Shift_Del DEL 106991606 106991606 COG5 7 G - G 34