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 ESPN 83715 broad.mit.edu 36 1 6423026 6423026 + Missense_Mutation SNP A A G novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 6423026 6423026 ESPN 1 A A G 10 SMPDL3B 27293 broad.mit.edu 36 1 28153489 28153489 + Silent SNP G G T novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 28153489 28153489 SMPDL3B 1 G G T 43 GNL2 29889 broad.mit.edu 36 1 37812874 37812874 + Silent SNP G G A novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 37812874 37812874 GNL2 1 G G A 41 CDC7 8317 broad.mit.edu 36 1 91762452 91762452 + Missense_Mutation SNP G G C novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 91762452 91762452 CDC7 1 G G C 33 ITGA10 8515 broad.mit.edu 36 1 144245273 144245273 + Missense_Mutation SNP G G A novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 G A G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 144245273 144245273 ITGA10 1 G G A 40 FAM63A 55793 broad.mit.edu 36 1 149237234 149237234 + Missense_Mutation SNP G G A novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 149237234 149237234 FAM63A 1 G G A 35 APCS 325 broad.mit.edu 36 1 157824849 157824849 + Silent SNP G G A novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 157824849 157824849 APCS 1 G G A 47 ARHGAP21 57584 broad.mit.edu 36 10 24924689 24924689 + Silent SNP G G C novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 24924689 24924689 ARHGAP21 10 G G C 35 CCDC6 8030 broad.mit.edu 36 10 61244452 61244452 + Missense_Mutation SNP A A G novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 A G A A Unknown Valid Somatic x x 454_PCR_WGA x Broad Missense_Mutation SNP 61244452 61244452 CCDC6 10 A A G 11 CDK1 broad.mit.edu 36 10 62215450 62215450 + Missense_Mutation SNP G G C novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 G C G G Unknown Valid Somatic x x 454_PCR_WGA x Broad Missense_Mutation SNP 62215450 62215450 CDK1 10 G G C 41 SUPV3L1 6832 broad.mit.edu 36 10 70621417 70621417 + Missense_Mutation SNP G G T novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 70621417 70621417 SUPV3L1 10 G G T 43 PRF1 5551 broad.mit.edu 36 10 72027815 72027815 + Nonstop_Mutation SNP T T A novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Nonstop_Mutation SNP 72027815 72027815 PRF1 10 T T A 54 SYNPO2L 79933 broad.mit.edu 36 10 75077114 75077114 + Missense_Mutation SNP G G C novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 75077114 75077114 SYNPO2L 10 G G C 39 ZNF503 84858 broad.mit.edu 36 10 76828582 76828582 + Silent SNP T T G novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 76828582 76828582 ZNF503 10 T T G 58 COX15 1355 broad.mit.edu 36 10 101477240 101477240 + Missense_Mutation SNP C C T novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 C T C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 101477240 101477240 COX15 10 C C T 32 INSC 387755 broad.mit.edu 36 11 15090605 15090605 + Missense_Mutation SNP C C T novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 15090605 15090605 INSC 11 C C T 24 SDHAF2 54949 broad.mit.edu 36 11 60961684 60961684 + Silent SNP G G T novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 60961684 60961684 SDHAF2 11 G G T 48 LRP5 4041 broad.mit.edu 36 11 67910716 67910716 + Missense_Mutation SNP C C G novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 67910716 67910716 LRP5 11 C C G 24 KIRREL3 84623 broad.mit.edu 36 11 125821979 125821979 + Missense_Mutation SNP A A T novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 125821979 125821979 KIRREL3 11 A A T 8 TAS2R50 259296 broad.mit.edu 36 12 11030693 11030693 + Missense_Mutation SNP G G C novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 11030693 11030693 TAS2R50 12 G G C 33 EEA1 8411 broad.mit.edu 36 12 91716817 91716817 + Silent SNP T T C novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 91716817 91716817 EEA1 12 T T C 64 CUX2 23316 broad.mit.edu 36 12 110260538 110260538 + Missense_Mutation SNP C C T novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 110260538 110260538 CUX2 12 C C T 23 KNTC1 9735 broad.mit.edu 36 12 121623710 121623710 + Silent SNP C C A novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 121623710 121623710 KNTC1 12 C C A 32 FAM123A 219287 broad.mit.edu 36 13 24643687 24643687 + Missense_Mutation SNP C C A novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 24643687 24643687 FAM123A 13 C C A 22 ATP11A 23250 broad.mit.edu 36 13 112521659 112521659 + Missense_Mutation SNP A A G novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 112521659 112521659 ATP11A 13 A A G 11 HECTD1 25831 broad.mit.edu 36 14 30653011 30653011 + Missense_Mutation SNP G G C novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 30653011 30653011 HECTD1 14 G G C 34 EIF2S1 1965 broad.mit.edu 36 14 66901240 66901240 + Missense_Mutation SNP G G T novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 66901240 66901240 EIF2S1 14 G G T 46 CCDC88C 440193 broad.mit.edu 36 14 90825370 90825370 + Missense_Mutation SNP G G A novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 90825370 90825370 CCDC88C 14 G G A 40 DISP2 85455 broad.mit.edu 36 15 38448827 38448827 + Silent SNP C C A novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 38448827 38448827 DISP2 15 C C A 27 VPS39 23339 broad.mit.edu 36 15 40267316 40267316 + Missense_Mutation SNP T T C novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 40267316 40267316 VPS39 15 T T C 50 DUOX1 53905 broad.mit.edu 36 15 43231933 43231933 + Silent SNP C C G novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 43231933 43231933 DUOX1 15 C C G 29 DNAJA4 55466 broad.mit.edu 36 15 76344187 76344187 + Missense_Mutation SNP C C A novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 76344187 76344187 DNAJA4 15 C C A 17 NR2F2 7026 broad.mit.edu 36 15 94676663 94676663 + Missense_Mutation SNP A A T novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 94676663 94676663 NR2F2 15 A A T 11 MSLNL 401827 broad.mit.edu 36 16 770434 770434 + Missense_Mutation SNP G G T novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 770434 770434 MSLNL 16 G G T 39 PRSS21 10942 broad.mit.edu 36 16 2811384 2811384 + Missense_Mutation SNP C C G novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 2811384 2811384 PRSS21 16 C C G 22 DNAH3 55567 broad.mit.edu 36 16 20906662 20906662 + Missense_Mutation SNP T T C novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 20906662 20906662 DNAH3 16 T T C 50 SLC5A11 115584 broad.mit.edu 36 16 24809691 24809691 + Missense_Mutation SNP G G T novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 24809691 24809691 SLC5A11 16 G G T 44 CES3 23491 broad.mit.edu 36 16 65558184 65558184 + Missense_Mutation SNP A A G novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 65558184 65558184 CES3 16 A A G 3 TXNL4B 54957 broad.mit.edu 36 16 70678142 70678142 + Missense_Mutation SNP C C A novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 70678142 70678142 TXNL4B 16 C C A 29 ANKRD11 29123 broad.mit.edu 36 16 87875898 87875898 + Missense_Mutation SNP G G C novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 87875898 87875898 ANKRD11 16 G G C 41 CHMP1A 5119 broad.mit.edu 36 16 88239867 88239867 + Missense_Mutation SNP C C G novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 88239867 88239867 CHMP1A 16 C C G 26 TP53 7157 broad.mit.edu 36 17 7518284 7518284 + Missense_Mutation SNP G G A rs28934573 Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 7518284 7518284 TP53 17 G G A 41 NF1 4763 broad.mit.edu 36 17 26514375 26514375 + Nonsense_Mutation SNP C C T novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 C T C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Nonsense_Mutation SNP 26514375 26514375 NF1 17 C C T 17 CIC 23152 broad.mit.edu 36 19 47482805 47482805 + Missense_Mutation SNP G G C novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 47482805 47482805 CIC 19 G G C 47 SIGLEC11 114132 broad.mit.edu 36 19 55155842 55155842 + Missense_Mutation SNP G G C novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 55155842 55155842 SIGLEC11 19 G G C 47 PEG3 5178 broad.mit.edu 36 19 62024923 62024923 + Missense_Mutation SNP G G A novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 62024923 62024923 PEG3 19 G G A 38 NPHP1 4867 broad.mit.edu 36 2 110279507 110279507 + Missense_Mutation SNP A A C novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 110279507 110279507 NPHP1 2 A A C 16 CYTIP 9595 broad.mit.edu 36 2 157980773 157980773 + Missense_Mutation SNP T T A novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 157980773 157980773 CYTIP 2 T T A 54 TANC1 85461 broad.mit.edu 36 2 159743390 159743390 + Silent SNP G G A novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 159743390 159743390 TANC1 2 G G A 46 FASTKD1 79675 broad.mit.edu 36 2 170102011 170102011 + Silent SNP C C T novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 C T C C Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Silent SNP 170102011 170102011 FASTKD1 2 C C T 23 HOXD10 3236 broad.mit.edu 36 2 176690444 176690444 + Missense_Mutation SNP G G A novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 176690444 176690444 HOXD10 2 G G A 36 IRS1 3667 broad.mit.edu 36 2 227368238 227368238 + Missense_Mutation SNP C C A novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 227368238 227368238 IRS1 2 C C A 22 COL6A3 1293 broad.mit.edu 36 2 237952151 237952151 + Missense_Mutation SNP C C A novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 237952151 237952151 COL6A3 2 C C A 32 CLIC6 54102 broad.mit.edu 36 21 35002123 35002123 + Missense_Mutation SNP A A T novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 A T A A Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 35002123 35002123 CLIC6 21 A A T 10 DSCAM 1826 broad.mit.edu 36 21 40379537 40379537 + Missense_Mutation SNP T T A novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 40379537 40379537 DSCAM 21 T T A 50 ITGB2 3689 broad.mit.edu 36 21 45143505 45143505 + Missense_Mutation SNP C C G novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 45143505 45143505 ITGB2 21 C C G 30 ISX 91464 broad.mit.edu 36 22 33811585 33811585 + Missense_Mutation SNP C C A novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 33811585 33811585 ISX 22 C C A 26 GGA1 26088 broad.mit.edu 36 22 36351895 36351895 + Missense_Mutation SNP G G A novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 36351895 36351895 GGA1 22 G G A 48 ATXN10 25814 broad.mit.edu 36 22 44467611 44467611 + Missense_Mutation SNP C C G novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 44467611 44467611 ATXN10 22 C C G 32 CELSR1 9620 broad.mit.edu 36 22 45168795 45168795 + Missense_Mutation SNP A A C novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 45168795 45168795 CELSR1 22 A A C 6 CELSR3 1951 broad.mit.edu 36 3 48672381 48672381 + Silent SNP C C A novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 48672381 48672381 CELSR3 3 C C A 21 SLC38A3 10991 broad.mit.edu 36 3 50232512 50232512 + Missense_Mutation SNP C C A novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 50232512 50232512 SLC38A3 3 C C A 24 EPHA3 2042 broad.mit.edu 36 3 89539205 89539205 + Missense_Mutation SNP T T A novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 T A T T Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 89539205 89539205 EPHA3 3 T T A 52 KIAA2018 205717 broad.mit.edu 36 3 114862666 114862666 + Missense_Mutation SNP G G C novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 114862666 114862666 KIAA2018 3 G G C 42 ACAD11 84129 broad.mit.edu 36 3 133861273 133861273 + Missense_Mutation SNP C C A novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 133861273 133861273 ACAD11 3 C C A 25 LRRC31 79782 broad.mit.edu 36 3 171061159 171061159 + Missense_Mutation SNP T T C novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 171061159 171061159 LRRC31 3 T T C 52 DLG1 1739 broad.mit.edu 36 3 198276997 198276997 + Missense_Mutation SNP T T C novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 198276997 198276997 DLG1 3 T T C 63 C4ORF50 389197 broad.mit.edu 36 4 6026355 6026355 + Missense_Mutation SNP G G T novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 6026355 6026355 C4ORF50 4 G G T 46 ANP32C 23520 broad.mit.edu 36 4 165337738 165337738 + Silent SNP C C T novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 165337738 165337738 ANP32C 4 C C T 24 IQGAP2 10788 broad.mit.edu 36 5 75902200 75902200 + Nonsense_Mutation SNP C C T novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 75902200 75902200 IQGAP2 5 C C T 21 ADAM19 8728 broad.mit.edu 36 5 156865338 156865338 + Missense_Mutation SNP G G T novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 156865338 156865338 ADAM19 5 G G T 48 TNXB 7148 broad.mit.edu 36 6 32155002 32155002 + Silent SNP C C T novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 32155002 32155002 TNXB 6 C C T 27 B3GAT2 135152 broad.mit.edu 36 6 71628310 71628310 + Missense_Mutation SNP G G C novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 G C G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 71628310 71628310 B3GAT2 6 G G C 33 KIAA0644 9865 broad.mit.edu 36 7 28963656 28963656 + Silent SNP A A G novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 28963656 28963656 KIAA0644 7 A A G 3 SCRN1 9805 broad.mit.edu 36 7 29946841 29946841 + Missense_Mutation SNP T T A novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 29946841 29946841 SCRN1 7 T T A 55 HERPUD2 64224 broad.mit.edu 36 7 35641357 35641357 + Missense_Mutation SNP C C T novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 35641357 35641357 HERPUD2 7 C C T 31 MUC17 140453 broad.mit.edu 36 7 100469992 100469992 + Missense_Mutation SNP G G A novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 100469992 100469992 MUC17 7 G G A 40 CUX1 1523 broad.mit.edu 36 7 101346125 101346125 + Missense_Mutation SNP A A T novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 101346125 101346125 CUX1 7 A A T 12 CDHR3 222256 broad.mit.edu 36 7 105442888 105442888 + Nonsense_Mutation SNP C C G novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 105442888 105442888 CDHR3 7 C C G 20 NRCAM 4897 broad.mit.edu 36 7 107612214 107612214 + Missense_Mutation SNP T T C novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 T C T T Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Missense_Mutation SNP 107612214 107612214 NRCAM 7 T T C 59 RP1 6101 broad.mit.edu 36 8 55704383 55704383 + Silent SNP G G T novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 55704383 55704383 RP1 8 G G T 37 MYBL1 4603 broad.mit.edu 36 8 67639598 67639598 + Missense_Mutation SNP T T C novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 67639598 67639598 MYBL1 8 T T C 62 FAM83A 84985 broad.mit.edu 36 8 124264603 124264603 + Missense_Mutation SNP C C T novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 124264603 124264603 FAM83A 8 C C T 26 FER1L6 654463 broad.mit.edu 36 8 125176440 125176440 + Missense_Mutation SNP G G T novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 125176440 125176440 FER1L6 8 G G T 41 SECISBP2 79048 broad.mit.edu 36 9 91130309 91130309 + Missense_Mutation SNP G G C novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 91130309 91130309 SECISBP2 9 G G C 36 IKBKAP 8518 broad.mit.edu 36 9 110710486 110710486 + Missense_Mutation SNP G G T novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 110710486 110710486 IKBKAP 9 G G T 44 FKBP15 23307 broad.mit.edu 36 9 114989906 114989906 + Silent SNP G G C novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 114989906 114989906 FKBP15 9 G G C 43 MAN1B1 11253 broad.mit.edu 36 9 139103163 139103163 + Missense_Mutation SNP A A T novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 139103163 139103163 MAN1B1 9 A A T 9 ARL13A 392509 broad.mit.edu 36 X 100129873 100129873 + Missense_Mutation SNP G G C novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 100129873 100129873 ARL13A 23 G G C 33 F8 2157 broad.mit.edu 36 X 153810116 153810116 + Nonsense_Mutation SNP G G A novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 G A G G Unknown Valid Somatic x x Sequenom_PCR_WGA x Broad Nonsense_Mutation SNP 153810116 153810116 F8 23 G G A 40 SEC16B 89866 broad.mit.edu 36 1 176194718 176194728 + Frame_Shift_Del DEL CTTATGTACAT - CTTATGTACAT novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad Frame_Shift_Del DEL 176194718 176194728 SEC16B 1 CTTATGTACAT - CTTATGTACAT 24 DHX9 1660 broad.mit.edu 36 1 181089175 181089189 + Splice_Site_Del DEL CGGTAAGGCCAGCAC - CGGTAAGGCCAGCAC novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad Splice_Site_Del DEL 181089175 181089189 DHX9 1 CGGTAAGGCCAGCAC - CGGTAAGGCCAGCAC 27 HEPHL1 341208 broad.mit.edu 36 11 93458971 93458978 + Frame_Shift_Del DEL CCACAACA - CCACAACA novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad Frame_Shift_Del DEL 93458971 93458978 HEPHL1 11 CCACAACA - CCACAACA 26 KRT82 3888 broad.mit.edu 36 12 51083809 51083821 + Frame_Shift_Del DEL ACGCGGTCCCCGG - ACGCGGTCCCCGG novel Unknown TCGA-04-1367-01 TCGA-04-1367-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad Frame_Shift_Del DEL 51083809 51083821 KRT82 12 ACGCGGTCCCCGG - ACGCGGTCCCCGG 6