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 SPEN 23013 broad.mit.edu 36 1 16131779 16131779 + Missense_Mutation SNP G G A novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 16131779 16131779 SPEN 1 G G A 40 HSPG2 3339 broad.mit.edu 36 1 22077668 22077668 + Silent SNP G G T novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 22077668 22077668 HSPG2 1 G G T 42 PAFAH2 5051 broad.mit.edu 36 1 26175832 26175832 + Missense_Mutation SNP C C T novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 26175832 26175832 PAFAH2 1 C C T 19 FAM167B 84734 broad.mit.edu 36 1 32485670 32485670 + Missense_Mutation SNP G G T novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 32485670 32485670 FAM167B 1 G G T 43 LRRC8C 84230 broad.mit.edu 36 1 89952291 89952291 + Missense_Mutation SNP T T G novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 89952291 89952291 LRRC8C 1 T T G 53 NPL 80896 broad.mit.edu 36 1 181054357 181054357 + Silent SNP G G A novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 181054357 181054357 NPL 1 G G A 45 NUP133 55746 broad.mit.edu 36 1 227697889 227697889 + Missense_Mutation SNP C C T novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 227697889 227697889 NUP133 1 C C T 31 OR2T5 401993 broad.mit.edu 36 1 246718638 246718638 + Silent SNP G G C novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 246718638 246718638 OR2T5 1 G G C 40 C11orf24 53838 broad.mit.edu 36 11 67786710 67786711 + Missense_Mutation DNP AC AC GA novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation DNP 67786710 67786711 C11orf24 11 AC AC GA 6 RECQL 5965 broad.mit.edu 36 12 21517783 21517783 + Missense_Mutation SNP G G T novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 21517783 21517783 RECQL 12 G G T 48 H1FNT 341567 broad.mit.edu 36 12 47010040 47010040 + Silent SNP G G A novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 47010040 47010040 H1FNT 12 G G A 33 MYL6 4637 broad.mit.edu 36 12 54839636 54839636 + Splice_Site_SNP SNP A A G novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Splice_Site_SNP SNP 54839636 54839636 MYL6 12 A A G 7 WIF1 11197 broad.mit.edu 36 12 63757792 63757792 + Splice_Site_SNP SNP C C T novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Splice_Site_SNP SNP 63757792 63757792 WIF1 12 C C T 18 KIAA0564 23078 broad.mit.edu 36 13 41305524 41305524 + Silent SNP C C T novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 41305524 41305524 KIAA0564 13 C C T 27 SLITRK1 114798 broad.mit.edu 36 13 83352756 83352756 + Missense_Mutation SNP C C A novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 83352756 83352756 SLITRK1 13 C C A 24 NUMB 8650 broad.mit.edu 36 14 72813185 72813185 + Missense_Mutation SNP T T C novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 72813185 72813185 NUMB 14 T T C 57 AHNAK2 113146 broad.mit.edu 36 14 104479038 104479038 + Missense_Mutation SNP G G T novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 104479038 104479038 AHNAK2 14 G G T 47 NPRL3 8131 broad.mit.edu 36 16 90411 90411 + Silent SNP C C T novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 90411 90411 NPRL3 16 C C T 29 MAPK8IP3 23162 broad.mit.edu 36 16 1757828 1757828 + Missense_Mutation SNP C C T novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 1757828 1757828 MAPK8IP3 16 C C T 30 ZNF434 54925 broad.mit.edu 36 16 3380121 3380121 + Missense_Mutation SNP C C T novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 3380121 3380121 ZNF434 16 C C T 19 ERCC4 2072 broad.mit.edu 36 16 13937037 13937037 + Missense_Mutation SNP G G A novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 13937037 13937037 ERCC4 16 G G A 38 GGA2 23062 broad.mit.edu 36 16 23388842 23388842 + Silent SNP G G T novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 23388842 23388842 GGA2 16 G G T 45 KIAA0664 23277 broad.mit.edu 36 17 2551228 2551228 + Missense_Mutation SNP G G C novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 2551228 2551228 KIAA0664 17 G G C 45 TP53 7157 broad.mit.edu 36 17 7518263 7518263 + Missense_Mutation SNP C C T rs11540652 byHapMap TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 7518263 7518263 TP53 17 C C T 23 MBTD1 54799 broad.mit.edu 36 17 46625164 46625164 + Silent SNP T T C novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 46625164 46625164 MBTD1 17 T T C 60 TXNDC2 84203 broad.mit.edu 36 18 9877220 9877220 + Silent SNP G G A novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 9877220 9877220 TXNDC2 18 G G A 34 CEP192 55125 broad.mit.edu 36 18 13049273 13049273 + Missense_Mutation SNP G G A novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 13049273 13049273 CEP192 18 G G A 40 ZNF846 162993 broad.mit.edu 36 19 9729185 9729185 + Missense_Mutation SNP T T C novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 9729185 9729185 ZNF846 19 T T C 64 ZNF14 7561 broad.mit.edu 36 19 19684594 19684594 + Missense_Mutation SNP C C T novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 19684594 19684594 ZNF14 19 C C T 20 KCNN4 3783 broad.mit.edu 36 19 48976695 48976695 + Silent SNP C C T novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 48976695 48976695 KCNN4 19 C C T 23 ZC3H4 23211 broad.mit.edu 36 19 52262365 52262365 + Silent SNP C C T novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 52262365 52262365 ZC3H4 19 C C T 23 NLRP11 204801 broad.mit.edu 36 19 60999429 60999429 + Splice_Site_SNP SNP C C A novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Splice_Site_SNP SNP 60999429 60999429 NLRP11 19 C C A 28 PTPN4 5775 broad.mit.edu 36 2 120439567 120439567 + Missense_Mutation SNP C C G novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 120439567 120439567 PTPN4 2 C C G 29 AGPS 8540 broad.mit.edu 36 2 178010001 178010001 + Silent SNP C C A novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 178010001 178010001 AGPS 2 C C A 27 CST7 8530 broad.mit.edu 36 20 24885932 24885932 + Missense_Mutation SNP C C A novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 24885932 24885932 CST7 20 C C A 30 ASXL1 171023 broad.mit.edu 36 20 30420578 30420578 + Silent SNP C C T novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 30420578 30420578 ASXL1 20 C C T 29 MYH7B 57644 broad.mit.edu 36 20 33051880 33051880 + Missense_Mutation SNP G G C novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 33051880 33051880 MYH7B 20 G G C 34 SS18L1 26039 broad.mit.edu 36 20 60183019 60183019 + Missense_Mutation SNP G G A novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 60183019 60183019 SS18L1 20 G G A 42 GMEB2 26205 broad.mit.edu 36 20 61721179 61721179 + Missense_Mutation SNP C C T novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 61721179 61721179 GMEB2 20 C C T 19 RNF160 26046 broad.mit.edu 36 21 29246387 29246387 + Missense_Mutation SNP C C T novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 29246387 29246387 RNF160 21 C C T 29 SMARCB1 6598 broad.mit.edu 36 22 22497603 22497604 + Splice_Site_SNP DNP GT GT AC novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Splice_Site_SNP DNP 22497603 22497604 SMARCB1 22 GT GT AC 44 NCAPH2 29781 broad.mit.edu 36 22 49307644 49307644 + Nonsense_Mutation SNP G G T novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 49307644 49307644 NCAPH2 22 G G T 45 HDAC11 79885 broad.mit.edu 36 3 13517290 13517290 + Splice_Site_SNP SNP G G C novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Splice_Site_SNP SNP 13517290 13517290 HDAC11 3 G G C 44 DNAH1 25981 broad.mit.edu 36 3 52398530 52398530 + Missense_Mutation SNP C C T novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 52398530 52398530 DNAH1 3 C C T 19 ZMAT3 64393 broad.mit.edu 36 3 180268015 180268015 + Missense_Mutation SNP G G C novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 180268015 180268015 ZMAT3 3 G G C 36 NPFFR2 10886 broad.mit.edu 36 4 73213311 73213311 + Missense_Mutation SNP A A G novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 73213311 73213311 NPFFR2 4 A A G 4 CDH10 1008 broad.mit.edu 36 5 24523914 24523914 + Missense_Mutation SNP C C T novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 24523914 24523914 CDH10 5 C C T 18 ACTBL2 345651 broad.mit.edu 36 5 56813689 56813689 + Missense_Mutation SNP G G T novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 56813689 56813689 ACTBL2 5 G G T 45 ACTBL2 345651 broad.mit.edu 36 5 56813808 56813808 + Missense_Mutation SNP G G T novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 56813808 56813808 ACTBL2 5 G G T 45 RGL2 5863 broad.mit.edu 36 6 33369221 33369221 + Missense_Mutation SNP C C T novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 33369221 33369221 RGL2 6 C C T 21 CLVS2 134829 broad.mit.edu 36 6 123360735 123360735 + Silent SNP C C T novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 123360735 123360735 CLVS2 6 C C T 29 HIVEP2 3097 broad.mit.edu 36 6 143137420 143137420 + Missense_Mutation SNP A A G novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 143137420 143137420 HIVEP2 6 A A G 16 LAMB4 22798 broad.mit.edu 36 7 107539614 107539614 + Missense_Mutation SNP C C T novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 107539614 107539614 LAMB4 7 C C T 25 IQUB 154865 broad.mit.edu 36 7 122888709 122888709 + Nonsense_Mutation SNP G G A novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 122888709 122888709 IQUB 7 G G A 45 C9orf11 54586 broad.mit.edu 36 9 27276331 27276331 + Missense_Mutation SNP T T A novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 27276331 27276331 C9orf11 9 T T A 64 FAM166B 730112 broad.mit.edu 36 9 35552533 35552533 + Missense_Mutation SNP C C G novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 35552533 35552533 FAM166B 9 C C G 23 PGK1 5230 broad.mit.edu 36 X 77255900 77255900 + Missense_Mutation SNP T T G novel Unknown TCGA-57-1993-01 TCGA-57-1993-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 77255900 77255900 PGK1 23 T T G 61