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 TNFRSF9 3604 broad.mit.edu 36 1 7922616 7922616 + Missense_Mutation SNP A A T novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 7922616 7922616 TNFRSF9 1 A A T 14 YBX1 4904 broad.mit.edu 36 1 42921706 42921706 + Missense_Mutation SNP G G T novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 42921706 42921706 YBX1 1 G G T 41 NPR1 4881 broad.mit.edu 36 1 151926389 151926389 + Silent SNP G G A novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 151926389 151926389 NPR1 1 G G A 33 PFKP 5214 broad.mit.edu 36 10 3164604 3164604 + Missense_Mutation SNP G G C novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 3164604 3164604 PFKP 10 G G C 33 KIAA1462 57608 broad.mit.edu 36 10 30356945 30356945 + Missense_Mutation SNP G G C novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 30356945 30356945 KIAA1462 10 G G C 39 AGAP8 728404 broad.mit.edu 36 10 50895039 50895039 + Missense_Mutation SNP A A T novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 50895039 50895039 AGAP8 10 A A T 12 PSD 5662 broad.mit.edu 36 10 104166290 104166290 + Missense_Mutation SNP C C T novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 104166290 104166290 PSD 10 C C T 26 OR6A2 8590 broad.mit.edu 36 11 6772720 6772720 + Missense_Mutation SNP G G A novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 6772720 6772720 OR6A2 11 G G A 37 A2ML1 144568 broad.mit.edu 36 12 8882264 8882264 + Silent SNP G G A novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 8882264 8882264 A2ML1 12 G G A 40 PDE1B 5153 broad.mit.edu 36 12 53256677 53256677 + Missense_Mutation SNP G G A novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 53256677 53256677 PDE1B 12 G G A 48 TIMELESS 8914 broad.mit.edu 36 12 55103349 55103349 + Silent SNP A A G novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 55103349 55103349 TIMELESS 12 A A G 6 MTIF3 219402 broad.mit.edu 36 13 26909388 26909388 + Silent SNP C C A novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 26909388 26909388 MTIF3 13 C C A 29 C13orf23 80209 broad.mit.edu 36 13 38484999 38484999 + Missense_Mutation SNP G G C novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 38484999 38484999 C13orf23 13 G G C 47 HOMEZ 57594 broad.mit.edu 36 14 22814962 22814962 + Missense_Mutation SNP G G T novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 22814962 22814962 HOMEZ 14 G G T 44 CLEC14A 161198 broad.mit.edu 36 14 37794184 37794184 + Missense_Mutation SNP G G C novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 37794184 37794184 CLEC14A 14 G G C 36 SYNE2 23224 broad.mit.edu 36 14 63759661 63759661 + Missense_Mutation SNP A A C novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 63759661 63759661 SYNE2 14 A A C 5 OCA2 4948 broad.mit.edu 36 15 25902144 25902144 + Missense_Mutation SNP G G C novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 25902144 25902144 OCA2 15 G G C 36 INO80 54617 broad.mit.edu 36 15 39063352 39063352 + Silent SNP G G A novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 39063352 39063352 INO80 15 G G A 48 MGRN1 23295 broad.mit.edu 36 16 4658286 4658286 + Missense_Mutation SNP C C T novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 4658286 4658286 MGRN1 16 C C T 32 IL21R 50615 broad.mit.edu 36 16 27367753 27367753 + Missense_Mutation SNP G G A novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 27367753 27367753 IL21R 16 G G A 43 RBL2 5934 broad.mit.edu 36 16 52061578 52061578 + Missense_Mutation SNP C C T novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 52061578 52061578 RBL2 16 C C T 19 ZNF319 57567 broad.mit.edu 36 16 56588171 56588171 + Silent SNP G G A novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 56588171 56588171 ZNF319 16 G G A 44 HYDIN 54768 broad.mit.edu 36 16 69512218 69512219 + Missense_Mutation DNP GT GT AG novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation DNP 69512218 69512219 HYDIN 16 GT GT AG 40 KRTAP9-3 83900 broad.mit.edu 36 17 36642507 36642507 + Silent SNP T T C novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 36642507 36642507 KRTAP9-3 17 T T C 57 GPR142 350383 broad.mit.edu 36 17 69875436 69875436 + Nonsense_Mutation SNP G G A novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 69875436 69875436 GPR142 17 G G A 47 DNAH17 8632 broad.mit.edu 36 17 73967479 73967479 + Missense_Mutation SNP G G C novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 73967479 73967479 DNAH17 17 G G C 42 CETN1 1068 broad.mit.edu 36 18 570898 570898 + Missense_Mutation SNP C C T novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 570898 570898 CETN1 18 C C T 31 ALPK2 115701 broad.mit.edu 36 18 54354532 54354532 + Silent SNP G G A novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 54354532 54354532 ALPK2 18 G G A 43 FBXO15 201456 broad.mit.edu 36 18 69891772 69891772 + Silent SNP C C A novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 69891772 69891772 FBXO15 18 C C A 21 TUBB4 10382 broad.mit.edu 36 19 6446297 6446297 + Missense_Mutation SNP C C T novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 6446297 6446297 TUBB4 19 C C T 31 ZNF441 126068 broad.mit.edu 36 19 11752822 11752822 + Missense_Mutation SNP G G C novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 11752822 11752822 ZNF441 19 G G C 45 TRMT1 55621 broad.mit.edu 36 19 13081216 13081216 + Missense_Mutation SNP G G A novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 13081216 13081216 TRMT1 19 G G A 48 RYR1 6261 broad.mit.edu 36 19 43624902 43624902 + Missense_Mutation SNP T T A novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 43624902 43624902 RYR1 19 T T A 51 GRLF1 2909 broad.mit.edu 36 19 52115114 52115115 + Missense_Mutation DNP CC CC TT novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation DNP 52115114 52115115 GRLF1 19 CC CC TT 30 GRLF1 2909 broad.mit.edu 36 19 52115528 52115528 + Nonsense_Mutation SNP C C T novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 52115528 52115528 GRLF1 19 C C T 29 ZNF611 81856 broad.mit.edu 36 19 57900299 57900299 + Silent SNP T T A novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 57900299 57900299 ZNF611 19 T T A 51 ZNF776 284309 broad.mit.edu 36 19 62957005 62957005 + Missense_Mutation SNP G G C novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 62957005 62957005 ZNF776 19 G G C 33 INPP5D 3635 broad.mit.edu 36 2 233698786 233698786 + Nonsense_Mutation SNP C C G novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 233698786 233698786 INPP5D 2 C C G 29 ZNF217 7764 broad.mit.edu 36 20 51625714 51625714 + Missense_Mutation SNP C C G novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 51625714 51625714 ZNF217 20 C C G 17 KREMEN1 83999 broad.mit.edu 36 22 27867934 27867934 + Missense_Mutation SNP C C T novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 27867934 27867934 KREMEN1 22 C C T 30 PIK3IP1 113791 broad.mit.edu 36 22 30009151 30009151 + Silent SNP C C G novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 30009151 30009151 PIK3IP1 22 C C G 21 SENP7 57337 broad.mit.edu 36 3 102533628 102533628 + Silent SNP G G A novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 102533628 102533628 SENP7 3 G G A 37 ECE2 9718 broad.mit.edu 36 3 185484334 185484334 + Missense_Mutation SNP C C T novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 185484334 185484334 ECE2 3 C C T 19 WDR55 54853 broad.mit.edu 36 5 140029001 140029001 + Missense_Mutation SNP A A C novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 140029001 140029001 WDR55 5 A A C 6 MUC21 394263 broad.mit.edu 36 6 31059720 31059720 + Silent SNP G G A novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 31059720 31059720 MUC21 6 G G A 33 MUC21 394263 broad.mit.edu 36 6 31062239 31062239 + Missense_Mutation SNP G G A novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 31062239 31062239 MUC21 6 G G A 34 MUC21 394263 broad.mit.edu 36 6 31062412 31062412 + Missense_Mutation SNP G G A novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 31062412 31062412 MUC21 6 G G A 45 GPR141 353345 broad.mit.edu 36 7 37747314 37747314 + Missense_Mutation SNP A A G novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 37747314 37747314 GPR141 7 A A G 16 MAGI2 9863 broad.mit.edu 36 7 77723552 77723552 + Missense_Mutation SNP C C T novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 77723552 77723552 MAGI2 7 C C T 23 TRPV5 56302 broad.mit.edu 36 7 142335310 142335310 + Silent SNP G G T novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 142335310 142335310 TRPV5 7 G G T 40 ZNF212 7988 broad.mit.edu 36 7 148582403 148582403 + Silent SNP G G A novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 148582403 148582403 ZNF212 7 G G A 47 CACNA1F 778 broad.mit.edu 36 X 48951974 48951974 + Missense_Mutation SNP C C T novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 48951974 48951974 CACNA1F 23 C C T 22 ARMCX2 9823 broad.mit.edu 36 X 100798796 100798796 + Silent SNP C C T novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 100798796 100798796 ARMCX2 23 C C T 29 SUSD2 56241 broad.mit.edu 36 22 22909157 22909158 + Frame_Shift_Del DEL GA - GA novel Unknown TCGA-25-2398-01 TCGA-25-2398-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad Frame_Shift_Del DEL 22909157 22909158 SUSD2 22 GA - GA 41