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 ZMYM4 9202 broad.mit.edu 36 1 35625678 35625678 + Missense_Mutation SNP G G A novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 35625678 35625678 ZMYM4 1 G G A 45 TIE1 7075 broad.mit.edu 36 1 43545181 43545181 + Missense_Mutation SNP A A T novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 43545181 43545181 TIE1 1 A A T 11 CYP4A11 1579 broad.mit.edu 36 1 47175040 47175040 + Missense_Mutation SNP C C G novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 47175040 47175040 CYP4A11 1 C C G 25 USP24 23358 broad.mit.edu 36 1 55375897 55375897 + Missense_Mutation SNP T T C novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 55375897 55375897 USP24 1 T T C 62 KANK4 163782 broad.mit.edu 36 1 62513112 62513112 + Silent SNP T T C novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 62513112 62513112 KANK4 1 T T C 55 AP4B1 10717 broad.mit.edu 36 1 114240158 114240158 + Silent SNP C C A novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 114240158 114240158 AP4B1 1 C C A 22 C1orf9 51430 broad.mit.edu 36 1 170845647 170845647 + Missense_Mutation SNP A A G novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 170845647 170845647 C1orf9 1 A A G 15 KIAA1614 57710 broad.mit.edu 36 1 179180170 179180170 + Missense_Mutation SNP G G T novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 179180170 179180170 KIAA1614 1 G G T 39 C10orf71 118461 broad.mit.edu 36 10 50200965 50200965 + Silent SNP G G A novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 50200965 50200965 C10orf71 10 G G A 33 KIAA0913 23053 broad.mit.edu 36 10 75226634 75226634 + Missense_Mutation SNP A A T novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 75226634 75226634 KIAA0913 10 A A T 11 SORCS3 22986 broad.mit.edu 36 10 107012096 107012096 + Missense_Mutation SNP A A T novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 107012096 107012096 SORCS3 10 A A T 2 PRLHR 2834 broad.mit.edu 36 10 120343884 120343884 + Missense_Mutation SNP G G T novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 120343884 120343884 PRLHR 10 G G T 42 C10orf46 143384 broad.mit.edu 36 10 120504057 120504057 + Missense_Mutation SNP G G C novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 120504057 120504057 C10orf46 10 G G C 43 FAM53B 9679 broad.mit.edu 36 10 126360325 126360325 + Silent SNP T T G novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 126360325 126360325 FAM53B 10 T T G 59 PSMD13 5719 broad.mit.edu 36 11 237370 237370 + Missense_Mutation SNP C C G novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 C G C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 237370 237370 PSMD13 11 C C G 29 OR52A4 390053 broad.mit.edu 36 11 5099082 5099082 + Missense_Mutation SNP G G C novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 5099082 5099082 OR52A4 11 G G C 42 SLC35C1 55343 broad.mit.edu 36 11 45784160 45784160 + Missense_Mutation SNP T T G novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 45784160 45784160 SLC35C1 11 T T G 56 OR4A47 403253 broad.mit.edu 36 11 48467462 48467462 + Missense_Mutation SNP C C T novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 48467462 48467462 OR4A47 11 C C T 22 C11orf57 55216 broad.mit.edu 36 11 111458848 111458848 + Missense_Mutation SNP G G A novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 111458848 111458848 C11orf57 11 G G A 38 FAM55D 54827 broad.mit.edu 36 11 113958227 113958227 + Missense_Mutation SNP A A G novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 113958227 113958227 FAM55D 11 A A G 3 CHD4 1108 broad.mit.edu 36 12 6577366 6577366 + Missense_Mutation SNP C C T novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 6577366 6577366 CHD4 12 C C T 22 TAS2R46 259292 broad.mit.edu 36 12 11105796 11105796 + Missense_Mutation SNP T T C novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 11105796 11105796 TAS2R46 12 T T C 56 SOX5 6660 broad.mit.edu 36 12 23648643 23648643 + Missense_Mutation SNP G G A novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 23648643 23648643 SOX5 12 G G A 33 ALG10B 144245 broad.mit.edu 36 12 37000505 37000505 + Missense_Mutation SNP G G T novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 37000505 37000505 ALG10B 12 G G T 33 POU6F1 5463 broad.mit.edu 36 12 49870461 49870461 + Missense_Mutation SNP C C A novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 49870461 49870461 POU6F1 12 C C A 26 SLC4A8 9498 broad.mit.edu 36 12 50154489 50154489 + Silent SNP G G T novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 50154489 50154489 SLC4A8 12 G G T 45 ZNF385A 25946 broad.mit.edu 36 12 53051593 53051593 + Missense_Mutation SNP G G A novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 53051593 53051593 ZNF385A 12 G G A 38 TAC3 6866 broad.mit.edu 36 12 55693716 55693716 + Missense_Mutation SNP G G T novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 55693716 55693716 TAC3 12 G G T 41 LRP1 4035 broad.mit.edu 36 12 55874041 55874041 + Missense_Mutation SNP G G A novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 55874041 55874041 LRP1 12 G G A 38 TRPV4 59341 broad.mit.edu 36 12 108725281 108725281 + Missense_Mutation SNP T T A novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 108725281 108725281 TRPV4 12 T T A 63 ACAD10 80724 broad.mit.edu 36 12 110631810 110631810 + Missense_Mutation SNP T T G novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 110631810 110631810 ACAD10 12 T T G 64 TM9SF2 9375 broad.mit.edu 36 13 99005865 99005865 + Missense_Mutation SNP C C T novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 C T C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 99005865 99005865 TM9SF2 13 C C T 25 C14orf181 400223 broad.mit.edu 36 14 68332643 68332643 + Missense_Mutation SNP G G C novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 68332643 68332643 C14orf181 14 G G C 47 PNMA1 9240 broad.mit.edu 36 14 73249158 73249158 + Missense_Mutation SNP G G T novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 73249158 73249158 PNMA1 14 G G T 34 PTPN21 11099 broad.mit.edu 36 14 88016272 88016272 + Missense_Mutation SNP G G T novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 88016272 88016272 PTPN21 14 G G T 35 DISP2 85455 broad.mit.edu 36 15 38448441 38448441 + Missense_Mutation SNP T T C novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 38448441 38448441 DISP2 15 T T C 63 LDHAL6B 92483 broad.mit.edu 36 15 57287097 57287097 + Missense_Mutation SNP G G C novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 G C G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 57287097 57287097 LDHAL6B 15 G G C 45 LCTL 197021 broad.mit.edu 36 15 64637123 64637123 + Missense_Mutation SNP C C T novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 64637123 64637123 LCTL 15 C C T 30 HYDIN 54768 broad.mit.edu 36 16 69583524 69583524 + Silent SNP T T C novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 69583524 69583524 HYDIN 16 T T C 63 CHST6 4166 broad.mit.edu 36 16 74070482 74070482 + Missense_Mutation SNP T T A rs72547540 Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 74070482 74070482 CHST6 16 T T A 59 SPNS3 201305 broad.mit.edu 36 17 4284121 4284122 + Missense_Mutation DNP GG GG TT novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation DNP 4284121 4284122 SPNS3 17 GG GG TT 47 TP53 7157 broad.mit.edu 36 17 7518264 7518264 + Missense_Mutation SNP G G A novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 7518264 7518264 TP53 17 G G A 39 GGNBP2 79893 broad.mit.edu 36 17 31987262 31987262 + Missense_Mutation SNP A A T novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 31987262 31987262 GGNBP2 17 A A T 3 NDC80 10403 broad.mit.edu 36 18 2598740 2598740 + Silent SNP G G A novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 G A G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Silent SNP 2598740 2598740 NDC80 18 G G A 36 EPB41L3 23136 broad.mit.edu 36 18 5387143 5387143 + Missense_Mutation SNP T T C novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 T C T T Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 5387143 5387143 EPB41L3 18 T T C 58 LAMA3 3909 broad.mit.edu 36 18 19739528 19739528 + Missense_Mutation SNP T T A novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 T A T T Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 19739528 19739528 LAMA3 18 T T A 60 TRAPPC8 22878 broad.mit.edu 36 18 27686579 27686579 + Missense_Mutation SNP G G C novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 27686579 27686579 TRAPPC8 18 G G C 46 FBXO15 201456 broad.mit.edu 36 18 69944263 69944263 + Missense_Mutation SNP G G C novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 69944263 69944263 FBXO15 18 G G C 33 DIRAS1 148252 broad.mit.edu 36 19 2668666 2668666 + Missense_Mutation SNP C C T novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 2668666 2668666 DIRAS1 19 C C T 18 TNFSF9 8744 broad.mit.edu 36 19 6485682 6485682 + Missense_Mutation SNP C C G novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 6485682 6485682 TNFSF9 19 C C G 24 RAB11B 9230 broad.mit.edu 36 19 8373134 8373134 + Missense_Mutation SNP T T C novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 8373134 8373134 RAB11B 19 T T C 59 MUC16 94025 broad.mit.edu 36 19 8872463 8872463 + Missense_Mutation SNP C C T novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 C T C C Unknown Valid Somatic x x 454_PCR_WGA x Broad Missense_Mutation SNP 8872463 8872463 MUC16 19 C C T 30 RDH8 50700 broad.mit.edu 36 19 9985252 9985252 + Missense_Mutation SNP C C G novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 9985252 9985252 RDH8 19 C C G 21 PDCD2L 84306 broad.mit.edu 36 19 39592050 39592050 + Missense_Mutation SNP C C G rs61740326 Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 39592050 39592050 PDCD2L 19 C C G 31 NLRP5 126206 broad.mit.edu 36 19 61261588 61261588 + Missense_Mutation SNP G G T novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 G T G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 61261588 61261588 NLRP5 19 G G T 43 TTC15 51112 broad.mit.edu 36 2 3370557 3370557 + Silent SNP G G A novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 3370557 3370557 TTC15 2 G G A 39 LCLAT1 253558 broad.mit.edu 36 2 30536005 30536005 + Missense_Mutation SNP T T C novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 T C T T Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 30536005 30536005 LCLAT1 2 T T C 52 SNRNP200 23020 broad.mit.edu 36 2 96328807 96328807 + Missense_Mutation SNP G G A novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 G A G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 96328807 96328807 SNRNP200 2 G G A 44 SEMA4C 54910 broad.mit.edu 36 2 96890669 96890669 + Nonsense_Mutation SNP G G C novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 96890669 96890669 SEMA4C 2 G G C 44 PLEKHB2 55041 broad.mit.edu 36 2 131600758 131600758 + Missense_Mutation SNP C C G novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 131600758 131600758 PLEKHB2 2 C C G 20 UBR3 130507 broad.mit.edu 36 2 170580092 170580092 + Missense_Mutation SNP G G T novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 170580092 170580092 UBR3 2 G G T 46 SCRN3 79634 broad.mit.edu 36 2 174977289 174977289 + Missense_Mutation SNP G G C novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 174977289 174977289 SCRN3 2 G G C 35 FAM171B 165215 broad.mit.edu 36 2 187267222 187267222 + Missense_Mutation SNP T T G novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 187267222 187267222 FAM171B 2 T T G 58 MDH1B 130752 broad.mit.edu 36 2 207330303 207330303 + Missense_Mutation SNP C C G novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 207330303 207330303 MDH1B 2 C C G 20 FASTKD2 22868 broad.mit.edu 36 2 207344916 207344916 + Missense_Mutation SNP G G A novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 207344916 207344916 FASTKD2 2 G G A 48 DNER 92737 broad.mit.edu 36 2 229939884 229939884 + Missense_Mutation SNP C C T novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 229939884 229939884 DNER 2 C C T 27 TRIP12 9320 broad.mit.edu 36 2 230366008 230366008 + Missense_Mutation SNP G G C novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 G C G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 230366008 230366008 TRIP12 2 G G C 46 RBM44 375316 broad.mit.edu 36 2 238397705 238397705 + Missense_Mutation SNP T T C novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 238397705 238397705 RBM44 2 T T C 55 GGT7 2686 broad.mit.edu 36 20 32905997 32905997 + Silent SNP G G A novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 G A G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Silent SNP 32905997 32905997 GGT7 20 G G A 45 FAM83C 128876 broad.mit.edu 36 20 33337974 33337974 + Silent SNP G G T novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 33337974 33337974 FAM83C 20 G G T 43 EYA2 2139 broad.mit.edu 36 20 45159136 45159136 + Silent SNP G G C novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 G C G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Silent SNP 45159136 45159136 EYA2 20 G G C 48 SPATA2 9825 broad.mit.edu 36 20 47955616 47955616 + Missense_Mutation SNP T T G novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 47955616 47955616 SPATA2 20 T T G 63 DIDO1 11083 broad.mit.edu 36 20 60984142 60984143 + Missense_Mutation DNP TT TT GC novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation DNP 60984142 60984143 DIDO1 20 TT TT GC 60 TMPRSS15 5651 broad.mit.edu 36 21 18697686 18697686 + Missense_Mutation SNP G G T novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 G T G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 18697686 18697686 TMPRSS15 21 G G T 48 AGPAT3 56894 broad.mit.edu 36 21 44213437 44213437 + Missense_Mutation SNP T T A novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 44213437 44213437 AGPAT3 21 T T A 58 ZNF74 7625 broad.mit.edu 36 22 19089703 19089703 + Missense_Mutation SNP G G A novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 19089703 19089703 ZNF74 22 G G A 42 WNT7B 7477 broad.mit.edu 36 22 44697494 44697494 + Missense_Mutation SNP G G T novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 44697494 44697494 WNT7B 22 G G T 44 XPC 7508 broad.mit.edu 36 3 14165214 14165214 + Missense_Mutation SNP C C G novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 14165214 14165214 XPC 3 C C G 21 CCDC13 152206 broad.mit.edu 36 3 42774686 42774686 + Missense_Mutation SNP C C A novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 42774686 42774686 CCDC13 3 C C A 24 ITIH1 3697 broad.mit.edu 36 3 52797288 52797288 + Missense_Mutation SNP T T A novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 52797288 52797288 ITIH1 3 T T A 59 ITIH3 3699 broad.mit.edu 36 3 52803899 52803899 + Missense_Mutation SNP C C T novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 52803899 52803899 ITIH3 3 C C T 28 OR5H1 26341 broad.mit.edu 36 3 99335088 99335088 + Missense_Mutation SNP A A T novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 99335088 99335088 OR5H1 3 A A T 4 UMPS 7372 broad.mit.edu 36 3 125939494 125939494 + Missense_Mutation SNP C C G novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 C G C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 125939494 125939494 UMPS 3 C C G 26 C3orf25 90288 broad.mit.edu 36 3 130612864 130612864 + Missense_Mutation SNP C C T novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 130612864 130612864 C3orf25 3 C C T 32 IFT122 55764 broad.mit.edu 36 3 130701528 130701528 + Missense_Mutation SNP G G T novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 130701528 130701528 IFT122 3 G G T 40 SLC33A1 9197 broad.mit.edu 36 3 157043032 157043032 + Silent SNP G G A novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 G A G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Silent SNP 157043032 157043032 SLC33A1 3 G G A 40 LRRC33 375387 broad.mit.edu 36 3 197872846 197872846 + Silent SNP G G T novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 197872846 197872846 LRRC33 3 G G T 42 TBC1D1 23216 broad.mit.edu 36 4 37692887 37692887 + Silent SNP C C T novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 37692887 37692887 TBC1D1 4 C C T 32 TBCKL 93627 broad.mit.edu 36 4 107353390 107353390 + Missense_Mutation SNP C C G novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 107353390 107353390 TBCKL 4 C C G 20 KIAA1109 84162 broad.mit.edu 36 4 123490564 123490564 + Silent SNP A A G novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 123490564 123490564 KIAA1109 4 A A G 4 RWDD4A 201965 broad.mit.edu 36 4 184809194 184809194 + Missense_Mutation SNP C C A novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 184809194 184809194 RWDD4A 4 C C A 17 CARD6 84674 broad.mit.edu 36 5 40879379 40879379 + Missense_Mutation SNP G G T novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 40879379 40879379 CARD6 5 G G T 48 STARD4 134429 broad.mit.edu 36 5 110865598 110865598 + Missense_Mutation SNP G G T novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 110865598 110865598 STARD4 5 G G T 34 ALDH7A1 501 broad.mit.edu 36 5 125915628 125915628 + Missense_Mutation SNP T T C novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 125915628 125915628 ALDH7A1 5 T T C 49 PCDHA2 56146 broad.mit.edu 36 5 140155165 140155165 + Silent SNP A A G novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 140155165 140155165 PCDHA2 5 A A G 4 PCDHB6 56130 broad.mit.edu 36 5 140511666 140511666 + Silent SNP G G A novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 140511666 140511666 PCDHB6 5 G G A 47 PCDHB16 57717 broad.mit.edu 36 5 140542871 140542872 + Missense_Mutation DNP TT TT GA novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation DNP 140542871 140542872 PCDHB16 5 TT TT GA 52 NSD1 64324 broad.mit.edu 36 5 176654234 176654234 + Missense_Mutation SNP C C G novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 C G C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 176654234 176654234 NSD1 5 C C G 24 CDKAL1 54901 broad.mit.edu 36 6 21173343 21173343 + Missense_Mutation SNP G G C novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 21173343 21173343 CDKAL1 6 G G C 48 HIST1H3G 8355 broad.mit.edu 36 6 26379451 26379451 + Silent SNP C C T novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 26379451 26379451 HIST1H3G 6 C C T 21 DHX16 8449 broad.mit.edu 36 6 30740925 30740925 + Missense_Mutation SNP C C T novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 30740925 30740925 DHX16 6 C C T 26 CLIC1 1192 broad.mit.edu 36 6 31812045 31812045 + Silent SNP T T C novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 31812045 31812045 CLIC1 6 T T C 60 FAM83B 222584 broad.mit.edu 36 6 54912958 54912958 + Silent SNP T T C novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 54912958 54912958 FAM83B 6 T T C 49 FAM83B 222584 broad.mit.edu 36 6 54914197 54914197 + Silent SNP A A G novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 54914197 54914197 FAM83B 6 A A G 3 IBTK 25998 broad.mit.edu 36 6 82981010 82981010 + Silent SNP C C A novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 82981010 82981010 IBTK 6 C C A 21 TPBG 7162 broad.mit.edu 36 6 83131742 83131742 + Silent SNP G G C novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 83131742 83131742 TPBG 6 G G C 38 ZNF292 23036 broad.mit.edu 36 6 88021737 88021737 + Silent SNP A A G novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 88021737 88021737 ZNF292 6 A A G 14 CYCS 54205 broad.mit.edu 36 7 25129902 25129902 + Silent SNP C C T novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 25129902 25129902 CYCS 7 C C T 32 EPDR1 54749 broad.mit.edu 36 7 37927045 37927045 + Silent SNP G G C novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 37927045 37927045 EPDR1 7 G G C 39 URGCP 55665 broad.mit.edu 36 7 43885175 43885175 + Missense_Mutation SNP C C T novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 43885175 43885175 URGCP 7 C C T 19 TRIM50 135892 broad.mit.edu 36 7 72365147 72365147 + Missense_Mutation SNP C C G novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 72365147 72365147 TRIM50 7 C C G 24 PMPCB 9512 broad.mit.edu 36 7 102725215 102725215 + Missense_Mutation SNP C C G novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 102725215 102725215 PMPCB 7 C C G 32 NRCAM 4897 broad.mit.edu 36 7 107605735 107605735 + Silent SNP C C T novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 107605735 107605735 NRCAM 7 C C T 21 PTPRZ1 5803 broad.mit.edu 36 7 121437739 121437739 + Missense_Mutation SNP A A T novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 121437739 121437739 PTPRZ1 7 A A T 4 PARP12 64761 broad.mit.edu 36 7 139372502 139372502 + Missense_Mutation SNP G G A novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 139372502 139372502 PARP12 7 G G A 38 OR2A5 393046 broad.mit.edu 36 7 143378970 143378970 + Silent SNP C C T novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 143378970 143378970 OR2A5 7 C C T 30 RP1 6101 broad.mit.edu 36 8 55702786 55702786 + Missense_Mutation SNP T T A novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 55702786 55702786 RP1 8 T T A 57 CPA6 57094 broad.mit.edu 36 8 68584313 68584313 + Missense_Mutation SNP A A C novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 68584313 68584313 CPA6 8 A A C 4 VPS13B 157680 broad.mit.edu 36 8 100935306 100935306 + Missense_Mutation SNP C C T novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 C T C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 100935306 100935306 VPS13B 8 C C T 31 TG 7038 broad.mit.edu 36 8 133969910 133969910 + Silent SNP T T C novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 T C T T Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Silent SNP 133969910 133969910 TG 8 T T C 52 FAM135B 51059 broad.mit.edu 36 8 139449375 139449375 + Missense_Mutation SNP C C A novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 139449375 139449375 FAM135B 8 C C A 18 SLC45A4 57210 broad.mit.edu 36 8 142297957 142297957 + Missense_Mutation SNP G G C novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 142297957 142297957 SLC45A4 8 G G C 42 ZNF250 58500 broad.mit.edu 36 8 146078081 146078081 + Missense_Mutation SNP A A C novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 146078081 146078081 ZNF250 8 A A C 11 RUSC2 9853 broad.mit.edu 36 9 35550620 35550620 + Missense_Mutation SNP G G C novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 35550620 35550620 RUSC2 9 G G C 46 SMC2 10592 broad.mit.edu 36 9 105936623 105936623 + Missense_Mutation SNP T T A novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 105936623 105936623 SMC2 9 T T A 60 FRMPD4 9758 broad.mit.edu 36 X 12644682 12644682 + Missense_Mutation SNP C C T novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 C T C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 12644682 12644682 FRMPD4 23 C C T 27 ATP11C 286410 broad.mit.edu 36 X 138641482 138641482 + Missense_Mutation SNP C C A novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 138641482 138641482 ATP11C 23 C C A 17 RERE 473 broad.mit.edu 36 1 8342455 8342456 + In_Frame_Ins INS - CTCCTT - novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad In_Frame_Ins INS 8342455 8342456 RERE 1 - CTCCTT - 38 TRA2B 6434 broad.mit.edu 36 3 187124302 187124302 + Frame_Shift_Del DEL A - A novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad Frame_Shift_Del DEL 187124302 187124302 TRA2B 3 A - A 5 PDE6B 5158 broad.mit.edu 36 4 650316 650322 + Splice_Site_Del DEL CCAGCCT - CCAGCCT novel Unknown TCGA-24-1422-01 TCGA-24-1422-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad Splice_Site_Del DEL 650316 650322 PDE6B 4 CCAGCCT - CCAGCCT 18