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 PLEKHM2 23207 broad.mit.edu 36 1 15927387 15927388 + Missense_Mutation DNP GC GC TG novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation DNP 15927387 15927388 PLEKHM2 1 GC GC TG 46 AKR7L 246181 broad.mit.edu 36 1 19467716 19467716 + Missense_Mutation SNP G G A novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 19467716 19467716 AKR7L 1 G G A 38 THRAP3 9967 broad.mit.edu 36 1 36527639 36527639 + Missense_Mutation SNP C C A novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 36527639 36527639 THRAP3 1 C C A 18 KCNA10 3744 broad.mit.edu 36 1 110862799 110862799 + Missense_Mutation SNP G G A novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 110862799 110862799 KCNA10 1 G G A 41 GON4L 54856 broad.mit.edu 36 1 153993394 153993394 + Silent SNP G G A novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 153993394 153993394 GON4L 1 G G A 37 FMN2 56776 broad.mit.edu 36 1 238418141 238418141 + Missense_Mutation SNP G G C novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 238418141 238418141 FMN2 1 G G C 46 ATM 472 broad.mit.edu 36 11 107620790 107620790 + Missense_Mutation SNP T T C novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 107620790 107620790 ATM 11 T T C 63 ATM 472 broad.mit.edu 36 11 107705108 107705108 + Nonsense_Mutation SNP C C T novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 107705108 107705108 ATM 11 C C T 25 CD163L1 283316 broad.mit.edu 36 12 7476563 7476563 + Missense_Mutation SNP T T C novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 7476563 7476563 CD163L1 12 T T C 60 ABCC9 10060 broad.mit.edu 36 12 21851660 21851660 + Missense_Mutation SNP C C A novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 21851660 21851660 ABCC9 12 C C A 21 FAM113B 91523 broad.mit.edu 36 12 45916217 45916217 + Silent SNP C C T novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 45916217 45916217 FAM113B 12 C C T 31 KRT4 3851 broad.mit.edu 36 12 51493696 51493696 + Silent SNP G G A novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 51493696 51493696 KRT4 12 G G A 38 KRT8 3856 broad.mit.edu 36 12 51579919 51579919 + Silent SNP G G A novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 51579919 51579919 KRT8 12 G G A 40 IQCD 115811 broad.mit.edu 36 12 112129788 112129788 + Silent SNP C C T novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 112129788 112129788 IQCD 12 C C T 28 RNF6 6049 broad.mit.edu 36 13 25687649 25687649 + Missense_Mutation SNP T T C novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 25687649 25687649 RNF6 13 T T C 60 OR11G2 390439 broad.mit.edu 36 14 19735809 19735809 + Missense_Mutation SNP G G C novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 19735809 19735809 OR11G2 14 G G C 45 PRKD1 5587 broad.mit.edu 36 14 29177679 29177679 + Silent SNP C C G novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 29177679 29177679 PRKD1 14 C C G 26 SERPINA3 12 broad.mit.edu 36 14 94159877 94159877 + Missense_Mutation SNP C C G novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 94159877 94159877 SERPINA3 14 C C G 25 DUOX2 50506 broad.mit.edu 36 15 43175366 43175366 + Missense_Mutation SNP C C A novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 43175366 43175366 DUOX2 15 C C A 22 ZKSCAN2 342357 broad.mit.edu 36 16 25165606 25165606 + Missense_Mutation SNP T T A novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 25165606 25165606 ZKSCAN2 16 T T A 50 PHKB 5257 broad.mit.edu 36 16 46180502 46180502 + Silent SNP A A G novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 46180502 46180502 PHKB 16 A A G 7 CDH3 1001 broad.mit.edu 36 16 67283312 67283312 + Missense_Mutation SNP G G A novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 67283312 67283312 CDH3 16 G G A 42 KIAA1609 57707 broad.mit.edu 36 16 83077936 83077936 + Missense_Mutation SNP T T C novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 83077936 83077936 KIAA1609 16 T T C 51 TP53 7157 broad.mit.edu 36 17 7519131 7519131 + Missense_Mutation SNP C C T rs28934578 Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 7519131 7519131 TP53 17 C C T 27 NCOR1 9611 broad.mit.edu 36 17 15936019 15936019 + Missense_Mutation SNP T T C novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 15936019 15936019 NCOR1 17 T T C 52 CACNA1A 773 broad.mit.edu 36 19 13202003 13202003 + Silent SNP G G A novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 13202003 13202003 CACNA1A 19 G G A 39 RYR1 6261 broad.mit.edu 36 19 43672619 43672619 + Missense_Mutation SNP G G T novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 43672619 43672619 RYR1 19 G G T 34 FCGBP 8857 broad.mit.edu 36 19 45058257 45058257 + Missense_Mutation SNP G G A novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 45058257 45058257 FCGBP 19 G G A 38 DEDD2 162989 broad.mit.edu 36 19 47405794 47405794 + Missense_Mutation SNP G G A novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 47405794 47405794 DEDD2 19 G G A 39 PSG7 5676 broad.mit.edu 36 19 48125533 48125533 + Missense_Mutation SNP G G T novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 48125533 48125533 PSG7 19 G G T 35 KIR3DL1 3811 broad.mit.edu 36 19 60023210 60023210 + Missense_Mutation SNP T T G novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 60023210 60023210 KIR3DL1 19 T T G 53 PXDN 7837 broad.mit.edu 36 2 1649200 1649200 + Missense_Mutation SNP C C G novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 1649200 1649200 PXDN 2 C C G 30 C2orf42 54980 broad.mit.edu 36 2 70262055 70262055 + Missense_Mutation SNP C C G novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 70262055 70262055 C2orf42 2 C C G 21 TTN 7273 broad.mit.edu 36 2 179150626 179150626 + Missense_Mutation SNP T T C novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 179150626 179150626 TTN 2 T T C 49 GIGYF2 26058 broad.mit.edu 36 2 233364332 233364332 + Missense_Mutation SNP C C T novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 233364332 233364332 GIGYF2 2 C C T 19 ZBP1 81030 broad.mit.edu 36 20 55621672 55621672 + Missense_Mutation SNP A A G novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 55621672 55621672 ZBP1 20 A A G 4 OPRL1 4987 broad.mit.edu 36 20 62200170 62200170 + Silent SNP C C T novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 62200170 62200170 OPRL1 20 C C T 31 CACNA1D 776 broad.mit.edu 36 3 53728820 53728820 + Splice_Site_SNP SNP A A G novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Splice_Site_SNP SNP 53728820 53728820 CACNA1D 3 A A G 7 ARGFX 503582 broad.mit.edu 36 3 122788025 122788025 + Missense_Mutation SNP C C G novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 122788025 122788025 ARGFX 3 C C G 32 LRRC31 79782 broad.mit.edu 36 3 171061052 171061052 + Missense_Mutation SNP G G C novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 171061052 171061052 LRRC31 3 G G C 45 KIAA1211 57482 broad.mit.edu 36 4 56876077 56876077 + Missense_Mutation SNP C C G novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 56876077 56876077 KIAA1211 4 C C G 22 PDZD2 23037 broad.mit.edu 36 5 32128781 32128781 + Missense_Mutation SNP T T G novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 32128781 32128781 PDZD2 5 T T G 56 ABLIM3 22885 broad.mit.edu 36 5 148576783 148576783 + Silent SNP A A T novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 148576783 148576783 ABLIM3 5 A A T 11 LAMA2 3908 broad.mit.edu 36 6 129246100 129246100 + Missense_Mutation SNP G G T novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 129246100 129246100 LAMA2 6 G G T 43 IGF2R 3482 broad.mit.edu 36 6 160430178 160430178 + Missense_Mutation SNP G G A novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 160430178 160430178 IGF2R 6 G G A 46 ELN 2006 broad.mit.edu 36 7 73107035 73107035 + Missense_Mutation SNP G G A novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 73107035 73107035 ELN 7 G G A 39 MUC17 140453 broad.mit.edu 36 7 100471957 100471957 + Nonsense_Mutation SNP G G T novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 100471957 100471957 MUC17 7 G G T 45 MPDZ 8777 broad.mit.edu 36 9 13196068 13196068 + Missense_Mutation SNP T T C novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 13196068 13196068 MPDZ 9 T T C 61 LOC340602 0 broad.mit.edu 36 X 51167567 51167567 + Missense_Mutation SNP G G A novel Unknown TCGA-25-2399-01 TCGA-25-2399-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 51167567 51167567 LOC340602 23 G G A 42