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 NPHP4 261734 broad.mit.edu 36 1 5930817 5930817 + Missense_Mutation SNP C C G novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 5930817 5930817 NPHP4 1 C C G 19 PADI6 353238 broad.mit.edu 36 1 17600483 17600483 + Missense_Mutation SNP G G C novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 17600483 17600483 PADI6 1 G G C 44 KIF17 57576 broad.mit.edu 36 1 20897531 20897531 + Missense_Mutation SNP C C G novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 20897531 20897531 KIF17 1 C C G 24 HMGCL 3155 broad.mit.edu 36 1 24003512 24003512 + Silent SNP G G A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 24003512 24003512 HMGCL 1 G G A 35 SRSF4 6429 broad.mit.edu 36 1 29347560 29347560 + Silent SNP A A C novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 29347560 29347560 SRSF4 1 A A C 7 AMPD1 270 broad.mit.edu 36 1 115018116 115018116 + Silent SNP G G A rs34778674 Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 115018116 115018116 AMPD1 1 G G A 41 ADAR 103 broad.mit.edu 36 1 152825367 152825367 + Missense_Mutation SNP T T C novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 152825367 152825367 ADAR 1 T T C 64 CCT3 7203 broad.mit.edu 36 1 154548617 154548617 + Missense_Mutation SNP C C G novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 154548617 154548617 CCT3 1 C C G 20 INSRR 3645 broad.mit.edu 36 1 155085753 155085753 + Silent SNP T T C novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 155085753 155085753 INSRR 1 T T C 60 CASQ1 844 broad.mit.edu 36 1 158431493 158431493 + Missense_Mutation SNP A A G novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 158431493 158431493 CASQ1 1 A A G 12 DARS2 55157 broad.mit.edu 36 1 172069149 172069149 + Missense_Mutation SNP C C G novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 172069149 172069149 DARS2 1 C C G 32 CACNA1S 779 broad.mit.edu 36 1 199313732 199313732 + Missense_Mutation SNP C C A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 199313732 199313732 CACNA1S 1 C C A 28 PKP1 5317 broad.mit.edu 36 1 199553426 199553426 + Missense_Mutation SNP G G T novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 199553426 199553426 PKP1 1 G G T 35 CHI3L1 1116 broad.mit.edu 36 1 201416371 201416371 + Silent SNP C C A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 201416371 201416371 CHI3L1 1 C C A 22 KIAA1804 84451 broad.mit.edu 36 1 231578332 231578332 + Nonsense_Mutation SNP C C T novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 231578332 231578332 KIAA1804 1 C C T 31 TRIM58 25893 broad.mit.edu 36 1 246106268 246106268 + Missense_Mutation SNP C C A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 246106268 246106268 TRIM58 1 C C A 20 AKR1C1 1645 broad.mit.edu 36 10 4998151 4998151 + Missense_Mutation SNP G G A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 4998151 4998151 AKR1C1 10 G G A 34 SVIL 6840 broad.mit.edu 36 10 29862321 29862321 + Silent SNP T T G novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 29862321 29862321 SVIL 10 T T G 61 SVIL 6840 broad.mit.edu 36 10 29879989 29879989 + Missense_Mutation SNP G G C novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 29879989 29879989 SVIL 10 G G C 33 ZNF438 220929 broad.mit.edu 36 10 31177724 31177724 + Missense_Mutation SNP A A G novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 31177724 31177724 ZNF438 10 A A G 4 C10orf71 118461 broad.mit.edu 36 10 50201419 50201419 + Missense_Mutation SNP A A C novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 50201419 50201419 C10orf71 10 A A C 15 LDB3 11155 broad.mit.edu 36 10 88431336 88431336 + Missense_Mutation SNP G G C novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 88431336 88431336 LDB3 10 G G C 42 BTRC 8945 broad.mit.edu 36 10 103286364 103286364 + Missense_Mutation SNP T T A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 103286364 103286364 BTRC 10 T T A 64 TECTB 6975 broad.mit.edu 36 10 114036084 114036084 + Missense_Mutation SNP T T C novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 114036084 114036084 TECTB 10 T T C 59 ATRNL1 26033 broad.mit.edu 36 10 117016428 117016428 + Missense_Mutation SNP G G T novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 117016428 117016428 ATRNL1 10 G G T 43 INPP5F 22876 broad.mit.edu 36 10 121561360 121561360 + Missense_Mutation SNP G G A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 121561360 121561360 INPP5F 10 G G A 41 MUC5B 727897 broad.mit.edu 36 11 1229130 1229130 + Missense_Mutation SNP C C T novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 1229130 1229130 MUC5B 11 C C T 19 SBF2 81846 broad.mit.edu 36 11 9834647 9834647 + Missense_Mutation SNP T T G novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 9834647 9834647 SBF2 11 T T G 60 ARFGAP2 84364 broad.mit.edu 36 11 47144488 47144488 + Silent SNP C C G novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 47144488 47144488 ARFGAP2 11 C C G 25 OR4S2 219431 broad.mit.edu 36 11 55175024 55175024 + Missense_Mutation SNP A A T novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 55175024 55175024 OR4S2 11 A A T 3 OR10W1 81341 broad.mit.edu 36 11 57791742 57791742 + Silent SNP G G A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 57791742 57791742 OR10W1 11 G G A 46 OR5B3 441608 broad.mit.edu 36 11 57927449 57927449 + Missense_Mutation SNP T T C novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 57927449 57927449 OR5B3 11 T T C 61 OSBP 5007 broad.mit.edu 36 11 59118142 59118142 + Missense_Mutation SNP T T C novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 59118142 59118142 OSBP 11 T T C 55 NUMA1 4926 broad.mit.edu 36 11 71404395 71404395 + Missense_Mutation SNP G G A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 71404395 71404395 NUMA1 11 G G A 38 EED 8726 broad.mit.edu 36 11 85633952 85633952 + Silent SNP G G A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 85633952 85633952 EED 11 G G A 39 TRPC6 7225 broad.mit.edu 36 11 100867523 100867523 + Missense_Mutation SNP G G T novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 100867523 100867523 TRPC6 11 G G T 36 ANGPTL5 253935 broad.mit.edu 36 11 101267415 101267415 + Silent SNP G G A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 101267415 101267415 ANGPTL5 11 G G A 46 NCAM1 4684 broad.mit.edu 36 11 112636188 112636188 + Silent SNP C C T novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 112636188 112636188 NCAM1 11 C C T 18 SCN4B 6330 broad.mit.edu 36 11 117517214 117517214 + Missense_Mutation SNP C C A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 117517214 117517214 SCN4B 11 C C A 22 PHLDB1 23187 broad.mit.edu 36 11 118003566 118003566 + Missense_Mutation SNP A A T novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 118003566 118003566 PHLDB1 11 A A T 7 PRB3 5544 broad.mit.edu 36 12 11312160 11312160 + Missense_Mutation SNP C C G novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 11312160 11312160 PRB3 12 C C G 30 RECQL 5965 broad.mit.edu 36 12 21515263 21515263 + Silent SNP C C G rs2417989 Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 21515263 21515263 RECQL 12 C C G 19 C12orf34 84915 broad.mit.edu 36 12 108691299 108691299 + Missense_Mutation SNP G G C novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 108691299 108691299 C12orf34 12 G G C 33 RASAL1 8437 broad.mit.edu 36 12 112027981 112027981 + Missense_Mutation SNP G G A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 112027981 112027981 RASAL1 12 G G A 42 PXN 5829 broad.mit.edu 36 12 119143917 119143917 + Missense_Mutation SNP C C G novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 119143917 119143917 PXN 12 C C G 32 WDR66 144406 broad.mit.edu 36 12 120873797 120873797 + Missense_Mutation SNP G G C novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 120873797 120873797 WDR66 12 G G C 36 B3GNT4 79369 broad.mit.edu 36 12 121257289 121257289 + Missense_Mutation SNP G G A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 121257289 121257289 B3GNT4 12 G G A 45 CENPJ 55835 broad.mit.edu 36 13 24378452 24378452 + Missense_Mutation SNP A A G novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 24378452 24378452 CENPJ 13 A A G 13 GPR137C 283554 broad.mit.edu 36 14 52170020 52170020 + Missense_Mutation SNP G G T novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 52170020 52170020 GPR137C 14 G G T 41 FERMT2 10979 broad.mit.edu 36 14 52396912 52396912 + Missense_Mutation SNP C C A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 52396912 52396912 FERMT2 14 C C A 26 WDHD1 11169 broad.mit.edu 36 14 54518072 54518072 + Missense_Mutation SNP G G A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 54518072 54518072 WDHD1 14 G G A 46 DLGAP5 9787 broad.mit.edu 36 14 54706022 54706022 + Missense_Mutation SNP G G C novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 54706022 54706022 DLGAP5 14 G G C 33 PAPLN 89932 broad.mit.edu 36 14 72789167 72789167 + Missense_Mutation SNP T T A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 72789167 72789167 PAPLN 14 T T A 51 C14orf115 55237 broad.mit.edu 36 14 73893578 73893578 + Silent SNP G G A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 73893578 73893578 C14orf115 14 G G A 46 C15orf2 23742 broad.mit.edu 36 15 22475358 22475358 + Missense_Mutation SNP C C T novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 22475358 22475358 C15orf2 15 C C T 28 OCA2 4948 broad.mit.edu 36 15 25934898 25934898 + Silent SNP A A G novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 25934898 25934898 OCA2 15 A A G 12 MGA 23269 broad.mit.edu 36 15 39808680 39808680 + Silent SNP C C G novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 39808680 39808680 MGA 15 C C G 32 JMJD7-PLA2G4B 100137049 broad.mit.edu 36 15 39924508 39924508 + Missense_Mutation SNP G G C novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 39924508 39924508 JMJD7-PLA2G4B 15 G G C 34 DMXL2 23312 broad.mit.edu 36 15 49560649 49560649 + Missense_Mutation SNP G G T rs3751584 byCluster;byFrequency;byHapMap TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 49560649 49560649 DMXL2 15 G G T 40 MAN2A2 4122 broad.mit.edu 36 15 89250628 89250628 + Missense_Mutation SNP G G T novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 89250628 89250628 MAN2A2 15 G G T 33 MEFV 4210 broad.mit.edu 36 16 3239757 3239757 + Missense_Mutation SNP C C A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 3239757 3239757 MEFV 16 C C A 20 ZNF597 146434 broad.mit.edu 36 16 3427015 3427015 + Nonsense_Mutation SNP G G A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 3427015 3427015 ZNF597 16 G G A 39 ACSM5 54988 broad.mit.edu 36 16 20348527 20348527 + Missense_Mutation SNP G G T novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 20348527 20348527 ACSM5 16 G G T 48 NDRG4 65009 broad.mit.edu 36 16 57095667 57095667 + Missense_Mutation SNP A A T novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 57095667 57095667 NDRG4 16 A A T 7 CMTM4 146223 broad.mit.edu 36 16 65214876 65214876 + Missense_Mutation SNP G G C novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 65214876 65214876 CMTM4 16 G G C 35 TP53 7157 broad.mit.edu 36 17 7518988 7518988 + Nonsense_Mutation SNP G G A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 7518988 7518988 TP53 17 G G A 39 KDM6B 23135 broad.mit.edu 36 17 7695218 7695218 + Silent SNP C C T novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 7695218 7695218 KDM6B 17 C C T 21 MYH13 8735 broad.mit.edu 36 17 10157251 10157251 + Missense_Mutation SNP G G T novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 10157251 10157251 MYH13 17 G G T 44 MYO18A 399687 broad.mit.edu 36 17 24473350 24473350 + Silent SNP C C T novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 24473350 24473350 MYO18A 17 C C T 23 FBXL20 84961 broad.mit.edu 36 17 34674045 34674045 + Missense_Mutation SNP G G T novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 34674045 34674045 FBXL20 17 G G T 41 FZD2 2535 broad.mit.edu 36 17 39992097 39992097 + Silent SNP G G C novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 39992097 39992097 FZD2 17 G G C 40 MYCBPAP 84073 broad.mit.edu 36 17 45958430 45958431 + Missense_Mutation DNP CC CC AT novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation DNP 45958430 45958431 MYCBPAP 17 CC CC AT 26 PSMC5 5705 broad.mit.edu 36 17 59262161 59262161 + Missense_Mutation SNP C C T novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 59262161 59262161 PSMC5 17 C C T 25 ZNF521 25925 broad.mit.edu 36 18 21058913 21058913 + Missense_Mutation SNP G G T novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 21058913 21058913 ZNF521 18 G G T 36 NOTCH3 4854 broad.mit.edu 36 19 15142145 15142145 + Missense_Mutation SNP A A C novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 15142145 15142145 NOTCH3 19 A A C 8 C19orf55 148137 broad.mit.edu 36 19 40942198 40942198 + Missense_Mutation SNP C C A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 40942198 40942198 C19orf55 19 C C A 18 NPHS1 4868 broad.mit.edu 36 19 41034313 41034313 + Missense_Mutation SNP C C A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 41034313 41034313 NPHS1 19 C C A 21 ZNF567 163081 broad.mit.edu 36 19 41902406 41902406 + Missense_Mutation SNP T T G novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 41902406 41902406 ZNF567 19 T T G 51 ZNF227 7770 broad.mit.edu 36 19 49431520 49431520 + Missense_Mutation SNP A A C novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 49431520 49431520 ZNF227 19 A A C 4 PLA2G4C 8605 broad.mit.edu 36 19 53248188 53248188 + Silent SNP G G A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 53248188 53248188 PLA2G4C 19 G G A 40 SIGLEC10 89790 broad.mit.edu 36 19 56609555 56609555 + Missense_Mutation SNP A A C novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 56609555 56609555 SIGLEC10 19 A A C 4 APOB 338 broad.mit.edu 36 2 21084376 21084376 + Missense_Mutation SNP A A T novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 21084376 21084376 APOB 2 A A T 3 PRKD3 23683 broad.mit.edu 36 2 37363257 37363257 + Missense_Mutation SNP A A G novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 37363257 37363257 PRKD3 2 A A G 9 FAM161A 84140 broad.mit.edu 36 2 61920467 61920467 + Missense_Mutation SNP T T A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 61920467 61920467 FAM161A 2 T T A 57 ANKRD36 375248 broad.mit.edu 36 2 97143353 97143354 + Nonsense_Mutation DNP CC CC GT novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation DNP 97143353 97143354 ANKRD36 2 CC CC GT 18 TMEM87B 84910 broad.mit.edu 36 2 112563719 112563719 + Missense_Mutation SNP C C G novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 112563719 112563719 TMEM87B 2 C C G 32 LRP1B 53353 broad.mit.edu 36 2 141075582 141075582 + Missense_Mutation SNP T T A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 141075582 141075582 LRP1B 2 T T A 58 ALS2CR12 130540 broad.mit.edu 36 2 201917226 201917226 + Missense_Mutation SNP T T A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 201917226 201917226 ALS2CR12 2 T T A 60 MAP2 4133 broad.mit.edu 36 2 210269925 210269925 + Missense_Mutation SNP T T C novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 210269925 210269925 MAP2 2 T T C 60 SNPH 9751 broad.mit.edu 36 20 1233730 1233730 + Nonsense_Mutation SNP C C T novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 1233730 1233730 SNPH 20 C C T 21 SUN5 140732 broad.mit.edu 36 20 31041121 31041121 + Silent SNP G G A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 31041121 31041121 SUN5 20 G G A 48 DIP2A 23181 broad.mit.edu 36 21 46800336 46800336 + Missense_Mutation SNP A A C novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 46800336 46800336 DIP2A 21 A A C 1 USP18 11274 broad.mit.edu 36 22 17020540 17020540 + Missense_Mutation SNP A A G novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 17020540 17020540 USP18 22 A A G 3 SMTN 6525 broad.mit.edu 36 22 29817458 29817458 + Silent SNP C C T novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 29817458 29817458 SMTN 22 C C T 18 CRELD2 79174 broad.mit.edu 36 22 48705208 48705208 + Silent SNP T T A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 48705208 48705208 CRELD2 22 T T A 55 TBC1D5 9779 broad.mit.edu 36 3 17177465 17177465 + Missense_Mutation SNP G G T novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 17177465 17177465 TBC1D5 3 G G T 48 TRIM71 131405 broad.mit.edu 36 3 32907212 32907212 + Silent SNP C C A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 32907212 32907212 TRIM71 3 C C A 24 WDR6 11180 broad.mit.edu 36 3 49024648 49024648 + Missense_Mutation SNP C C T novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 49024648 49024648 WDR6 3 C C T 17 USP4 7375 broad.mit.edu 36 3 49312978 49312978 + Missense_Mutation SNP G G A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 49312978 49312978 USP4 3 G G A 42 BBX 56987 broad.mit.edu 36 3 108974571 108974571 + Missense_Mutation SNP T T C novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 108974571 108974571 BBX 3 T T C 52 KIAA2018 205717 broad.mit.edu 36 3 114860013 114860013 + Missense_Mutation SNP G G A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 114860013 114860013 KIAA2018 3 G G A 35 C3orf70 285382 broad.mit.edu 36 3 186283923 186283923 + Missense_Mutation SNP T T C novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 186283923 186283923 C3orf70 3 T T C 62 SEL1L3 23231 broad.mit.edu 36 4 25428885 25428885 + Missense_Mutation SNP C C T novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 25428885 25428885 SEL1L3 4 C C T 26 LIAS 11019 broad.mit.edu 36 4 39145588 39145588 + Missense_Mutation SNP G G T novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 39145588 39145588 LIAS 4 G G T 34 FRYL 285527 broad.mit.edu 36 4 48254319 48254319 + Missense_Mutation SNP C C G novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 48254319 48254319 FRYL 4 C C G 18 NMU 10874 broad.mit.edu 36 4 56191372 56191372 + Nonsense_Mutation SNP A A T novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 56191372 56191372 NMU 4 A A T 13 MMRN1 22915 broad.mit.edu 36 4 91035647 91035647 + Missense_Mutation SNP G G T novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 91035647 91035647 MMRN1 4 G G T 40 ANK2 287 broad.mit.edu 36 4 114428235 114428235 + Missense_Mutation SNP C C T novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 114428235 114428235 ANK2 4 C C T 25 IRX1 79192 broad.mit.edu 36 5 3652431 3652431 + Silent SNP C C T novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 3652431 3652431 IRX1 5 C C T 30 PRDM9 56979 broad.mit.edu 36 5 23563012 23563012 + Missense_Mutation SNP C C G novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 23563012 23563012 PRDM9 5 C C G 17 RASGRF2 5924 broad.mit.edu 36 5 80544101 80544101 + Missense_Mutation SNP A A T novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 80544101 80544101 RASGRF2 5 A A T 14 MAN2A1 4124 broad.mit.edu 36 5 109131253 109131253 + Silent SNP T T C novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 109131253 109131253 MAN2A1 5 T T C 61 SNCAIP 9627 broad.mit.edu 36 5 121789106 121789106 + Missense_Mutation SNP C C T novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 121789106 121789106 SNCAIP 5 C C T 21 SCGB3A2 117156 broad.mit.edu 36 5 147241259 147241259 + Missense_Mutation SNP C C T novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 147241259 147241259 SCGB3A2 5 C C T 24 PDE6A 5145 broad.mit.edu 36 5 149263419 149263419 + Missense_Mutation SNP G G C novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 149263419 149263419 PDE6A 5 G G C 36 RBM22 55696 broad.mit.edu 36 5 150060704 150060704 + Nonsense_Mutation SNP G G A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 150060704 150060704 RBM22 5 G G A 46 TMEM63B 55362 broad.mit.edu 36 6 44229509 44229509 + Silent SNP G G A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 44229509 44229509 TMEM63B 6 G G A 38 GPR116 221395 broad.mit.edu 36 6 46936434 46936434 + Nonsense_Mutation SNP G G A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 46936434 46936434 GPR116 6 G G A 47 COL9A1 1297 broad.mit.edu 36 6 71027088 71027088 + Missense_Mutation SNP C C A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 71027088 71027088 COL9A1 6 C C A 22 DNAH11 8701 broad.mit.edu 36 7 21713907 21713907 + Missense_Mutation SNP C C A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 21713907 21713907 DNAH11 7 C C A 18 EGFR 1956 broad.mit.edu 36 7 55209193 55209193 + Missense_Mutation SNP A A G novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 55209193 55209193 EGFR 7 A A G 1 C7orf42 55069 broad.mit.edu 36 7 66047479 66047479 + Missense_Mutation SNP G G C novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 66047479 66047479 C7orf42 7 G G C 37 IMMP2L 83943 broad.mit.edu 36 7 110090965 110090965 + Missense_Mutation SNP G G C novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 110090965 110090965 IMMP2L 7 G G C 43 PLXNA4 91584 broad.mit.edu 36 7 131476037 131476037 + Missense_Mutation SNP T T C novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 131476037 131476037 PLXNA4 7 T T C 59 ARHGEF10 9639 broad.mit.edu 36 8 1795619 1795619 + Missense_Mutation SNP G G A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 1795619 1795619 ARHGEF10 8 G G A 41 TNFRSF10A 8797 broad.mit.edu 36 8 23125582 23125582 + Missense_Mutation SNP C C A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 23125582 23125582 TNFRSF10A 8 C C A 17 NEFL 4747 broad.mit.edu 36 8 24869819 24869819 + Missense_Mutation SNP T T C novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 24869819 24869819 NEFL 8 T T C 57 ADAM2 2515 broad.mit.edu 36 8 39813854 39813854 + Silent SNP C C T novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 39813854 39813854 ADAM2 8 C C T 23 RP1 6101 broad.mit.edu 36 8 55705226 55705226 + Missense_Mutation SNP G G T novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 55705226 55705226 RP1 8 G G T 35 RAD21 5885 broad.mit.edu 36 8 117938792 117938792 + Missense_Mutation SNP A A G novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 117938792 117938792 RAD21 8 A A G 10 DEPDC6 64798 broad.mit.edu 36 8 121046796 121046796 + Missense_Mutation SNP G G A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 121046796 121046796 DEPDC6 8 G G A 46 PARP10 84875 broad.mit.edu 36 8 145130505 145130505 + Missense_Mutation SNP C C G novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 145130505 145130505 PARP10 8 C C G 25 TTC39B 158219 broad.mit.edu 36 9 15215947 15215947 + Silent SNP C C G novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 15215947 15215947 TTC39B 9 C C G 27 CCL27 10850 broad.mit.edu 36 9 34652602 34652602 + Missense_Mutation SNP A A G novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 34652602 34652602 CCL27 9 A A G 11 CEP110 11064 broad.mit.edu 36 9 122962300 122962300 + Missense_Mutation SNP T T C novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 122962300 122962300 CEP110 9 T T C 52 MXRA5 25878 broad.mit.edu 36 X 3271695 3271695 + Missense_Mutation SNP G G C novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 3271695 3271695 MXRA5 23 G G C 45 NDUFB11 54539 broad.mit.edu 36 X 46888878 46888878 + Missense_Mutation SNP G G T novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 46888878 46888878 NDUFB11 23 G G T 43 TFE3 7030 broad.mit.edu 36 X 48782717 48782717 + Silent SNP C C T novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 48782717 48782717 TFE3 23 C C T 27 CACNA1F 778 broad.mit.edu 36 X 48954002 48954002 + Missense_Mutation SNP C C A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 48954002 48954002 CACNA1F 23 C C A 26 HUWE1 10075 broad.mit.edu 36 X 53608260 53608260 + Missense_Mutation SNP C C A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 53608260 53608260 HUWE1 23 C C A 24 PHF8 23133 broad.mit.edu 36 X 54031101 54031101 + Missense_Mutation SNP T T C novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 54031101 54031101 PHF8 23 T T C 57 ZXDA 7789 broad.mit.edu 36 X 57952406 57952406 + Missense_Mutation SNP C C T novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 57952406 57952406 ZXDA 23 C C T 27 HEPH 9843 broad.mit.edu 36 X 65340096 65340096 + Missense_Mutation SNP C C A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 65340096 65340096 HEPH 23 C C A 24 OPHN1 4983 broad.mit.edu 36 X 67419675 67419675 + Missense_Mutation SNP A A G novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 67419675 67419675 OPHN1 23 A A G 9 POF1B 79983 broad.mit.edu 36 X 84457380 84457380 + Missense_Mutation SNP A A C novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 84457380 84457380 POF1B 23 A A C 10 DIAPH2 1730 broad.mit.edu 36 X 96214634 96214634 + Missense_Mutation SNP G G T novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 96214634 96214634 DIAPH2 23 G G T 47 ZMAT1 84460 broad.mit.edu 36 X 101025268 101025268 + Missense_Mutation SNP C C T novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 101025268 101025268 ZMAT1 23 C C T 31 ZBTB33 10009 broad.mit.edu 36 X 119271918 119271918 + Missense_Mutation SNP C C A novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 119271918 119271918 ZBTB33 23 C C A 20 SMARCA1 6594 broad.mit.edu 36 X 128442389 128442389 + Silent SNP A A G novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 128442389 128442389 SMARCA1 23 A A G 9 WARS 7453 broad.mit.edu 36 14 99873122 99873169 + Splice_Site_Del DEL GGCTGTGGGCCCTTGGGGTTCCCTGCTCACCTTCCTGATCTGCTCGAG - GGCTGTGGGCCCTTGGGGTTCCCTGCTCACCTTCCTGATCTGCTCGAG novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad Splice_Site_Del DEL 99873122 99873169 WARS 14 GGCTGTGGGCCCTTGGGGTTCCCTGCTCACCTTCCTGATCTGCTCGAG - GGCTGTGGGCCCTTGGGGTTCCCTGCTCACCTTCCTGATCTGCTCGAG 39 HERC1 8925 broad.mit.edu 36 15 61737916 61737942 + In_Frame_Del DEL TGCTCTCCTAACGTTATTCTCCCAGAG - TGCTCTCCTAACGTTATTCTCCCAGAG novel Unknown TCGA-24-2289-01 TCGA-24-2289-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad In_Frame_Del DEL 61737916 61737942 HERC1 15 TGCTCTCCTAACGTTATTCTCCCAGAG - TGCTCTCCTAACGTTATTCTCCCAGAG 55