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 PRAMEF4 400735 broad.mit.edu 36 1 12862293 12862293 + Missense_Mutation SNP C C G novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 12862293 12862293 PRAMEF4 1 C C G 32 IL12RB2 3595 broad.mit.edu 36 1 67589210 67589210 + Missense_Mutation SNP G G A novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 67589210 67589210 IL12RB2 1 G G A 35 ZNF697 90874 broad.mit.edu 36 1 119967025 119967025 + Silent SNP C C T novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 119967025 119967025 ZNF697 1 C C T 23 ZBTB7B 51043 broad.mit.edu 36 1 153254223 153254223 + Missense_Mutation SNP G G A novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 153254223 153254223 ZBTB7B 1 G G A 45 RGS4 5999 broad.mit.edu 36 1 161310852 161310852 + Missense_Mutation SNP C C T novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 C T C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 161310852 161310852 RGS4 1 C C T 23 CNIH4 29097 broad.mit.edu 36 1 222614833 222614833 + Missense_Mutation SNP C C T novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 222614833 222614833 CNIH4 1 C C T 32 ARID4B 51742 broad.mit.edu 36 1 233412052 233412052 + Nonsense_Mutation SNP C C T novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 C T C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Nonsense_Mutation SNP 233412052 233412052 ARID4B 1 C C T 26 ITIH5 80760 broad.mit.edu 36 10 7658806 7658806 + Missense_Mutation SNP C C G novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 7658806 7658806 ITIH5 10 C C G 27 ANKRD30A 91074 broad.mit.edu 36 10 37470979 37470979 + Missense_Mutation SNP T T A novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 37470979 37470979 ANKRD30A 10 T T A 50 DLG5 9231 broad.mit.edu 36 10 79265505 79265505 + Missense_Mutation SNP A A C novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 79265505 79265505 DLG5 10 A A C 12 ZNF518A 9849 broad.mit.edu 36 10 97906850 97906850 + Missense_Mutation SNP C C T novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 97906850 97906850 ZNF518A 10 C C T 30 LOXL4 84171 broad.mit.edu 36 10 100005384 100005384 + Missense_Mutation SNP C C G novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 100005384 100005384 LOXL4 10 C C G 23 SLC6A5 9152 broad.mit.edu 36 11 20606139 20606139 + Missense_Mutation SNP T T C novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 20606139 20606139 SLC6A5 11 T T C 61 LRRC4C 57689 broad.mit.edu 36 11 40094374 40094374 + Silent SNP A A C novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 40094374 40094374 LRRC4C 11 A A C 10 OR5L1 219437 broad.mit.edu 36 11 55336359 55336359 + Missense_Mutation SNP G G C rs61735738 Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 55336359 55336359 OR5L1 11 G G C 40 LPXN 9404 broad.mit.edu 36 11 58073901 58073901 + Missense_Mutation SNP T T C novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 58073901 58073901 LPXN 11 T T C 52 SLC22A25 387601 broad.mit.edu 36 11 62753477 62753477 + Missense_Mutation SNP A A G novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 62753477 62753477 SLC22A25 11 A A G 12 SSH3 54961 broad.mit.edu 36 11 66835861 66835861 + Missense_Mutation SNP C C T novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 66835861 66835861 SSH3 11 C C T 30 LRRK2 120892 broad.mit.edu 36 12 38979286 38979286 + Nonsense_Mutation SNP T T A novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 T A T T Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Nonsense_Mutation SNP 38979286 38979286 LRRK2 12 T T A 58 CLLU1OS 574028 broad.mit.edu 36 12 91342744 91342744 + Missense_Mutation SNP T T G novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 91342744 91342744 CLLU1OS 12 T T G 62 RASAL1 8437 broad.mit.edu 36 12 112026390 112026390 + Missense_Mutation SNP C C T novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 112026390 112026390 RASAL1 12 C C T 30 TPCN1 53373 broad.mit.edu 36 12 112213821 112213821 + Missense_Mutation SNP C C T novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 112213821 112213821 TPCN1 12 C C T 21 WSB2 55884 broad.mit.edu 36 12 116956429 116956429 + Silent SNP T T C novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 116956429 116956429 WSB2 12 T T C 63 RPLP0 6175 broad.mit.edu 36 12 119119580 119119580 + Silent SNP A A G novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 119119580 119119580 RPLP0 12 A A G 15 MTUS2 23281 broad.mit.edu 36 13 28497284 28497284 + Missense_Mutation SNP G G T novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 G T G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 28497284 28497284 MTUS2 13 G G T 35 HMGB1 3146 broad.mit.edu 36 13 29935343 29935343 + Splice_Site_SNP SNP C C T novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 C T C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Splice_Site_SNP SNP 29935343 29935343 HMGB1 13 C C T 19 GPC5 2262 broad.mit.edu 36 13 91178860 91178860 + Missense_Mutation SNP A A G novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 91178860 91178860 GPC5 13 A A G 11 MCF2L 23263 broad.mit.edu 36 13 112682002 112682002 + Missense_Mutation SNP C C G novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 112682002 112682002 MCF2L 13 C C G 30 GAS6 2621 broad.mit.edu 36 13 113572816 113572816 + Silent SNP C C T novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 113572816 113572816 GAS6 13 C C T 30 FANCM 57697 broad.mit.edu 36 14 44714326 44714326 + Silent SNP T T C novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 44714326 44714326 FANCM 14 T T C 57 KLHDC2 23588 broad.mit.edu 36 14 49314664 49314664 + Silent SNP G G A novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 49314664 49314664 KLHDC2 14 G G A 44 C14orf135 64430 broad.mit.edu 36 14 59651732 59651732 + Missense_Mutation SNP A A G novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 A G A A Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 59651732 59651732 C14orf135 14 A A G 4 BAG5 9529 broad.mit.edu 36 14 103097175 103097175 + Missense_Mutation SNP A A C novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 103097175 103097175 BAG5 14 A A C 2 MKRN3 7681 broad.mit.edu 36 15 21362248 21362248 + Missense_Mutation SNP C C T novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 C T C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 21362248 21362248 MKRN3 15 C C T 22 CYP19A1 1588 broad.mit.edu 36 15 49307299 49307299 + Silent SNP G G A novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 49307299 49307299 CYP19A1 15 G G A 33 LMF1 64788 broad.mit.edu 36 16 859943 859943 + Missense_Mutation SNP A A T novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 859943 859943 LMF1 16 A A T 7 LMF1 64788 broad.mit.edu 36 16 860800 860800 + Missense_Mutation SNP T T A novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 860800 860800 LMF1 16 T T A 54 LMF1 64788 broad.mit.edu 36 16 869648 869648 + Missense_Mutation SNP C C T novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 869648 869648 LMF1 16 C C T 31 CASKIN1 57524 broad.mit.edu 36 16 2175362 2175362 + Missense_Mutation SNP G G A novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 2175362 2175362 CASKIN1 16 G G A 37 ABCC1 4363 broad.mit.edu 36 16 16116173 16116173 + Silent SNP G G A novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 16116173 16116173 ABCC1 16 G G A 47 TP53 7157 broad.mit.edu 36 17 7518263 7518263 + Missense_Mutation SNP C C T rs11540652 byHapMap TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 7518263 7518263 TP53 17 C C T 23 WDR16 146845 broad.mit.edu 36 17 9476937 9476937 + Silent SNP C C T novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 9476937 9476937 WDR16 17 C C T 19 SHMT1 6470 broad.mit.edu 36 17 18172818 18172818 + Missense_Mutation SNP A A C novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 A C A A Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 18172818 18172818 SHMT1 17 A A C 3 GAS2L2 246176 broad.mit.edu 36 17 31101239 31101239 + Missense_Mutation SNP C C G novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 31101239 31101239 GAS2L2 17 C C G 28 KRT31 3881 broad.mit.edu 36 17 36807218 36807218 + Missense_Mutation SNP C C G novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 36807218 36807218 KRT31 17 C C G 26 KLHL11 55175 broad.mit.edu 36 17 37263588 37263588 + Missense_Mutation SNP C C T novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 37263588 37263588 KLHL11 17 C C T 32 TUBG2 27175 broad.mit.edu 36 17 38071305 38071305 + Silent SNP G G C novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 38071305 38071305 TUBG2 17 G G C 38 MPP3 4356 broad.mit.edu 36 17 39264780 39264780 + Missense_Mutation SNP G G C novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 39264780 39264780 MPP3 17 G G C 36 NGFR 4804 broad.mit.edu 36 17 44945149 44945149 + Missense_Mutation SNP G G T novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 G T G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 44945149 44945149 NGFR 17 G G T 46 CLTC 1213 broad.mit.edu 36 17 55115150 55115150 + Missense_Mutation SNP A A G novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 A G A A Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 55115150 55115150 CLTC 17 A A G 14 AZI1 22994 broad.mit.edu 36 17 76779382 76779382 + Missense_Mutation SNP G G C novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 76779382 76779382 AZI1 17 G G C 34 LAMA3 3909 broad.mit.edu 36 18 19583423 19583423 + Missense_Mutation SNP G G A novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 19583423 19583423 LAMA3 18 G G A 39 ILF3 3609 broad.mit.edu 36 19 10653757 10653757 + Silent SNP G G A rs35968299 Unknown TCGA-23-1032-01 TCGA-23-1032-10 G A G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Silent SNP 10653757 10653757 ILF3 19 G G A 33 IL28A 282616 broad.mit.edu 36 19 44451639 44451639 + Missense_Mutation SNP C C G novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 44451639 44451639 IL28A 19 C C G 31 GRWD1 83743 broad.mit.edu 36 19 53648089 53648089 + Missense_Mutation SNP G G A novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 53648089 53648089 GRWD1 19 G G A 40 RPS9 6203 broad.mit.edu 36 19 59403184 59403184 + Missense_Mutation SNP C C A novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 59403184 59403184 RPS9 19 C C A 23 DTNB 1838 broad.mit.edu 36 2 25531778 25531778 + Missense_Mutation SNP C C T novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 25531778 25531778 DTNB 2 C C T 23 ANKRD36 375248 broad.mit.edu 36 2 97143353 97143354 + Nonsense_Mutation DNP CC CC GT novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation DNP 97143353 97143354 ANKRD36 2 CC CC GT 18 ZEB2 9839 broad.mit.edu 36 2 144903880 144903880 + Missense_Mutation SNP T T C novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 T C T T Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 144903880 144903880 ZEB2 2 T T C 50 FMNL2 114793 broad.mit.edu 36 2 153184315 153184315 + Silent SNP C C A rs72290335 Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 153184315 153184315 FMNL2 2 C C A 22 FMNL2 114793 broad.mit.edu 36 2 153184318 153184318 + Silent SNP T T C novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 153184318 153184318 FMNL2 2 T T C 54 XIRP2 129446 broad.mit.edu 36 2 167822992 167822992 + Missense_Mutation SNP C C A novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 167822992 167822992 XIRP2 2 C C A 26 TTN 7273 broad.mit.edu 36 2 179293907 179293907 + Missense_Mutation SNP G G A novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 179293907 179293907 TTN 2 G G A 38 TTN 7273 broad.mit.edu 36 2 179320116 179320117 + Missense_Mutation DNP TG TG CT novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation DNP 179320116 179320117 TTN 2 TG TG CT 59 RAPH1 65059 broad.mit.edu 36 2 204014379 204014379 + Silent SNP G G T novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 G T G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Silent SNP 204014379 204014379 RAPH1 2 G G T 47 ABCA12 26154 broad.mit.edu 36 2 215553475 215553475 + Missense_Mutation SNP G G A novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 G A G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 215553475 215553475 ABCA12 2 G G A 45 SLC16A14 151473 broad.mit.edu 36 2 230618979 230618979 + Silent SNP G G T novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 230618979 230618979 SLC16A14 2 G G T 41 UGT1A7 54577 broad.mit.edu 36 2 234256082 234256082 + Nonsense_Mutation SNP C C T novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 C T C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Nonsense_Mutation SNP 234256082 234256082 UGT1A7 2 C C T 27 ATRN 8455 broad.mit.edu 36 20 3526566 3526566 + Silent SNP T T A novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 3526566 3526566 ATRN 20 T T A 63 TTLL9 164395 broad.mit.edu 36 20 29994413 29994413 + Silent SNP C C T novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 29994413 29994413 TTLL9 20 C C T 27 PTGIS 5740 broad.mit.edu 36 20 47563206 47563206 + Splice_Site_SNP SNP C C T novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Splice_Site_SNP SNP 47563206 47563206 PTGIS 20 C C T 32 CDH4 1002 broad.mit.edu 36 20 59853122 59853122 + Missense_Mutation SNP C C T novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 C T C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 59853122 59853122 CDH4 20 C C T 23 CLDN17 26285 broad.mit.edu 36 21 30460307 30460307 + Missense_Mutation SNP A A C novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 30460307 30460307 CLDN17 21 A A C 3 MN1 4330 broad.mit.edu 36 22 26523244 26523244 + Silent SNP C C T novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 26523244 26523244 MN1 22 C C T 31 DEPDC5 9681 broad.mit.edu 36 22 30492610 30492610 + Nonsense_Mutation SNP C C T novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 30492610 30492610 DEPDC5 22 C C T 29 EFCAB6 64800 broad.mit.edu 36 22 42343043 42343043 + Missense_Mutation SNP G G C novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 42343043 42343043 EFCAB6 22 G G C 33 ROBO2 6092 broad.mit.edu 36 3 77734114 77734114 + Missense_Mutation SNP T T A novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 T A T T Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 77734114 77734114 ROBO2 3 T T A 52 GPR156 165829 broad.mit.edu 36 3 121375008 121375008 + Splice_Site_SNP SNP C C T novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Splice_Site_SNP SNP 121375008 121375008 GPR156 3 C C T 28 IGSF10 285313 broad.mit.edu 36 3 152646317 152646317 + Missense_Mutation SNP G G A novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 152646317 152646317 IGSF10 3 G G A 48 SMC4 10051 broad.mit.edu 36 3 161603287 161603287 + Missense_Mutation SNP G G A novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 161603287 161603287 SMC4 3 G G A 45 AFM 173 broad.mit.edu 36 4 74570533 74570533 + Missense_Mutation SNP A A G novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 74570533 74570533 AFM 4 A A G 3 WDR17 116966 broad.mit.edu 36 4 177283414 177283414 + Missense_Mutation SNP T T C novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 177283414 177283414 WDR17 4 T T C 49 TUBB4Q 56604 broad.mit.edu 36 4 191140885 191140886 + Missense_Mutation DNP TG TG AA novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation DNP 191140885 191140886 TUBB4Q 4 TG TG AA 55 ZNF608 57507 broad.mit.edu 36 5 124012540 124012540 + Missense_Mutation SNP C C T novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 124012540 124012540 ZNF608 5 C C T 31 PCDHA2 56146 broad.mit.edu 36 5 140155230 140155230 + Missense_Mutation SNP C C A novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 140155230 140155230 PCDHA2 5 C C A 28 HSPA1L 3305 broad.mit.edu 36 6 31886415 31886415 + Silent SNP G G T novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 G T G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Silent SNP 31886415 31886415 HSPA1L 6 G G T 39 GPRC6A 222545 broad.mit.edu 36 6 117237372 117237372 + Missense_Mutation SNP A A T novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 117237372 117237372 GPRC6A 6 A A T 12 NMBR 4829 broad.mit.edu 36 6 142451184 142451184 + Missense_Mutation SNP G G A novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 142451184 142451184 NMBR 6 G G A 37 THBS2 7058 broad.mit.edu 36 6 169390750 169390750 + Missense_Mutation SNP G G A novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 G A G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 169390750 169390750 THBS2 6 G G A 40 HOXA11 3207 broad.mit.edu 36 7 27190868 27190868 + Missense_Mutation SNP C C G novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 27190868 27190868 HOXA11 7 C C G 31 GRM3 2913 broad.mit.edu 36 7 86306941 86306941 + Silent SNP A A G novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 A G A A Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Silent SNP 86306941 86306941 GRM3 7 A A G 7 LRRN3 54674 broad.mit.edu 36 7 110550787 110550787 + Silent SNP C C T novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 110550787 110550787 LRRN3 7 C C T 32 PPP1R3A 5506 broad.mit.edu 36 7 113306644 113306644 + Missense_Mutation SNP T T A novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 T A T T Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 113306644 113306644 PPP1R3A 7 T T A 50 TMEM176B 28959 broad.mit.edu 36 7 150124586 150124586 + Missense_Mutation SNP G G A novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 150124586 150124586 TMEM176B 7 G G A 40 TEX15 56154 broad.mit.edu 36 8 30825598 30825598 + Missense_Mutation SNP A A G novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 30825598 30825598 TEX15 8 A A G 9 IDO2 169355 broad.mit.edu 36 8 39959375 39959375 + Missense_Mutation SNP C C A novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 C A C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 39959375 39959375 IDO2 8 C C A 20 SPAG1 6674 broad.mit.edu 36 8 101322343 101322343 + Silent SNP C C T novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 101322343 101322343 SPAG1 8 C C T 28 KIAA1797 54914 broad.mit.edu 36 9 20864701 20864701 + Missense_Mutation SNP C C G novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 20864701 20864701 KIAA1797 9 C C G 30 CDKL5 6792 broad.mit.edu 36 X 18578623 18578623 + Silent SNP C C A novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 18578623 18578623 CDKL5 23 C C A 22 BMP15 9210 broad.mit.edu 36 X 50675797 50675797 + Missense_Mutation SNP A A T novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 50675797 50675797 BMP15 23 A A T 7 MTMR8 55613 broad.mit.edu 36 X 63491423 63491423 + Missense_Mutation SNP T T A novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 63491423 63491423 MTMR8 23 T T A 63 DACH2 117154 broad.mit.edu 36 X 85956386 85956386 + Missense_Mutation SNP A A T novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 85956386 85956386 DACH2 23 A A T 3 DIAPH2 1730 broad.mit.edu 36 X 96389487 96389487 + Missense_Mutation SNP A A T novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 96389487 96389487 DIAPH2 23 A A T 3 SLC25A14 9016 broad.mit.edu 36 X 129301983 129301983 + Missense_Mutation SNP C C T novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 129301983 129301983 SLC25A14 23 C C T 25 RANBP1 5902 broad.mit.edu 36 22 18489874 18489899 + Frame_Shift_Del DEL CAAGGAGAAAGGGGCCATCCGCCTCC - CAAGGAGAAAGGGGCCATCCGCCTCC novel Unknown TCGA-23-1032-01 TCGA-23-1032-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad Frame_Shift_Del DEL 18489874 18489899 RANBP1 22 CAAGGAGAAAGGGGCCATCCGCCTCC - CAAGGAGAAAGGGGCCATCCGCCTCC 17