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 MACF1 23499 broad.mit.edu 36 1 39570443 39570443 + Missense_Mutation SNP C C G novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 39570443 39570443 MACF1 1 C C G 24 PIGK 10026 broad.mit.edu 36 1 77392875 77392875 + Missense_Mutation SNP C C T novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 77392875 77392875 PIGK 1 C C T 20 CELSR2 1952 broad.mit.edu 36 1 109596284 109596284 + Missense_Mutation SNP C C T novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 109596284 109596284 CELSR2 1 C C T 26 OR2G6 391211 broad.mit.edu 36 1 246751966 246751966 + Silent SNP C C T novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 246751966 246751966 OR2G6 1 C C T 17 OR2G6 391211 broad.mit.edu 36 1 246752338 246752338 + Silent SNP A A T novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 246752338 246752338 OR2G6 1 A A T 16 PRKCQ 5588 broad.mit.edu 36 10 6544284 6544284 + Nonsense_Mutation SNP C C A novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 6544284 6544284 PRKCQ 10 C C A 24 DCLRE1C 64421 broad.mit.edu 36 10 15021860 15021860 + Silent SNP G G T novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 15021860 15021860 DCLRE1C 10 G G T 37 JMJD1C 221037 broad.mit.edu 36 10 64620677 64620677 + Missense_Mutation SNP A A G novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 64620677 64620677 JMJD1C 10 A A G 16 C10orf79 80217 broad.mit.edu 36 10 105980449 105980449 + Missense_Mutation SNP C C T novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 105980449 105980449 C10orf79 10 C C T 19 DNHD1 144132 broad.mit.edu 36 11 6548900 6548900 + Missense_Mutation SNP C C G novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 6548900 6548900 DNHD1 11 C C G 32 OR5AS1 219447 broad.mit.edu 36 11 55555019 55555019 + Silent SNP T T C novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 55555019 55555019 OR5AS1 11 T T C 54 ANO1 55107 broad.mit.edu 36 11 69655709 69655709 + Missense_Mutation SNP G G A novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 69655709 69655709 ANO1 11 G G A 48 CCDC82 79780 broad.mit.edu 36 11 95757511 95757511 + Missense_Mutation SNP C C T novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 95757511 95757511 CCDC82 11 C C T 19 FGD4 121512 broad.mit.edu 36 12 32642767 32642767 + Nonsense_Mutation SNP C C T novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 32642767 32642767 FGD4 12 C C T 23 AACS 65985 broad.mit.edu 36 12 124184519 124184519 + Missense_Mutation SNP G G T novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 124184519 124184519 AACS 12 G G T 37 PIWIL1 9271 broad.mit.edu 36 12 129413273 129413273 + Silent SNP A A C novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 129413273 129413273 PIWIL1 12 A A C 6 UTP14C 9724 broad.mit.edu 36 13 51502309 51502309 + Silent SNP C C T novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 51502309 51502309 UTP14C 13 C C T 23 ZC3H14 79882 broad.mit.edu 36 14 88104225 88104225 + Missense_Mutation SNP A A T novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 88104225 88104225 ZC3H14 14 A A T 9 PLCB2 5330 broad.mit.edu 36 15 38378119 38378119 + Missense_Mutation SNP G G C novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 38378119 38378119 PLCB2 15 G G C 44 SCNN1B 6338 broad.mit.edu 36 16 23297581 23297581 + Silent SNP C C A novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 23297581 23297581 SCNN1B 16 C C A 22 NLRC5 84166 broad.mit.edu 36 16 55632971 55632971 + Missense_Mutation SNP G G A novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 55632971 55632971 NLRC5 16 G G A 39 TP53 7157 broad.mit.edu 36 17 7519244 7519244 + Silent SNP C C A novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 7519244 7519244 TP53 17 C C A 21 RNF43 54894 broad.mit.edu 36 17 53803294 53803294 + Missense_Mutation SNP G G T novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 53803294 53803294 RNF43 17 G G T 43 ABCA9 10350 broad.mit.edu 36 17 64558770 64558770 + Missense_Mutation SNP C C G novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 64558770 64558770 ABCA9 17 C C G 17 ABCA6 23460 broad.mit.edu 36 17 64590624 64590624 + Missense_Mutation SNP G G A novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 64590624 64590624 ABCA6 17 G G A 34 TECR 9524 broad.mit.edu 36 19 14536086 14536086 + Missense_Mutation SNP G G A novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 14536086 14536086 TECR 19 G G A 38 ZNF536 9745 broad.mit.edu 36 19 35730977 35730977 + Missense_Mutation SNP G G C novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 35730977 35730977 ZNF536 19 G G C 43 KIAA0355 9710 broad.mit.edu 36 19 39525116 39525116 + Missense_Mutation SNP C C T novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 39525116 39525116 KIAA0355 19 C C T 18 FCGBP 8857 broad.mit.edu 36 19 45060257 45060257 + Missense_Mutation SNP C C T novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 45060257 45060257 FCGBP 19 C C T 19 FUT1 2523 broad.mit.edu 36 19 53945323 53945323 + Missense_Mutation SNP G G A novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 53945323 53945323 FUT1 19 G G A 38 CCNT2 905 broad.mit.edu 36 2 135428303 135428303 + Missense_Mutation SNP T T G novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 135428303 135428303 CCNT2 2 T T G 60 SCN2A 6326 broad.mit.edu 36 2 165880396 165880396 + Missense_Mutation SNP A A G novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 165880396 165880396 SCN2A 2 A A G 11 SMARCAL1 50485 broad.mit.edu 36 2 217040996 217040996 + Silent SNP G G A rs2271335 byHapMap TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 217040996 217040996 SMARCAL1 2 G G A 38 SLC11A1 6556 broad.mit.edu 36 2 218966068 218966068 + Missense_Mutation SNP G G A novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 218966068 218966068 SLC11A1 2 G G A 45 COL4A4 1286 broad.mit.edu 36 2 227606426 227606426 + Missense_Mutation SNP G G A novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 227606426 227606426 COL4A4 2 G G A 35 SLC19A3 80704 broad.mit.edu 36 2 228272329 228272329 + Missense_Mutation SNP C C A novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 228272329 228272329 SLC19A3 2 C C A 18 SP140 11262 broad.mit.edu 36 2 230818845 230818845 + Missense_Mutation SNP A A G novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 230818845 230818845 SP140 2 A A G 4 C22orf42 150297 broad.mit.edu 36 22 30875766 30875766 + Missense_Mutation SNP G G C novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 30875766 30875766 C22orf42 22 G G C 46 ARPP-21 10777 broad.mit.edu 36 3 35753797 35753797 + Missense_Mutation SNP C C T novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 35753797 35753797 ARPP-21 3 C C T 23 ARL6IP5 10550 broad.mit.edu 36 3 69236363 69236363 + Missense_Mutation SNP A A C novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 69236363 69236363 ARL6IP5 3 A A C 1 FILIP1L 11259 broad.mit.edu 36 3 101050745 101050745 + Missense_Mutation SNP A A G novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 101050745 101050745 FILIP1L 3 A A G 10 TF 7018 broad.mit.edu 36 3 134960749 134960749 + Missense_Mutation SNP G G T novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 134960749 134960749 TF 3 G G T 44 SI 6476 broad.mit.edu 36 3 166192666 166192666 + Missense_Mutation SNP T T G novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 166192666 166192666 SI 3 T T G 57 CSN3 1448 broad.mit.edu 36 4 71149370 71149370 + Missense_Mutation SNP C C G novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 71149370 71149370 CSN3 4 C C G 26 HSPA4L 22824 broad.mit.edu 36 4 128971336 128971336 + Missense_Mutation SNP G G T novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 128971336 128971336 HSPA4L 4 G G T 46 DDO 8528 broad.mit.edu 36 6 110821006 110821006 + Missense_Mutation SNP C C T novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 110821006 110821006 DDO 6 C C T 17 SLC2A12 154091 broad.mit.edu 36 6 134391675 134391675 + Missense_Mutation SNP C C G novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 134391675 134391675 SLC2A12 6 C C G 24 NXPH1 30010 broad.mit.edu 36 7 8757457 8757457 + Missense_Mutation SNP A A G novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 8757457 8757457 NXPH1 7 A A G 9 MCM4 4173 broad.mit.edu 36 8 49045720 49045720 + Missense_Mutation SNP G G A novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 49045720 49045720 MCM4 8 G G A 37 RB1CC1 9821 broad.mit.edu 36 8 53717639 53717639 + Nonsense_Mutation SNP C C A novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 53717639 53717639 RB1CC1 8 C C A 32 TRPA1 8989 broad.mit.edu 36 8 73136525 73136525 + Missense_Mutation SNP A A G novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 73136525 73136525 TRPA1 8 A A G 1 TGFBR1 7046 broad.mit.edu 36 9 100940110 100940110 + Silent SNP G G T novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 100940110 100940110 TGFBR1 9 G G T 40 MED12 9968 broad.mit.edu 36 X 70273030 70273030 + Missense_Mutation SNP C C T novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 70273030 70273030 MED12 23 C C T 26 ODZ1 10178 broad.mit.edu 36 X 123857637 123857637 + Missense_Mutation SNP C C G novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 123857637 123857637 ODZ1 23 C C G 29 BCORL1 63035 broad.mit.edu 36 X 128976503 128976503 + Missense_Mutation SNP G G A novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 128976503 128976503 BCORL1 23 G G A 37 ATP2B3 492 broad.mit.edu 36 X 152460403 152460403 + Silent SNP C C T novel Unknown TCGA-25-2393-01 TCGA-25-2393-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 152460403 152460403 ATP2B3 23 C C T 23