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 LY9 4063 broad.mit.edu 36 1 159050292 159050292 + Missense_Mutation SNP T T A novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 159050292 159050292 LY9 1 T T A 54 GPR158 57512 broad.mit.edu 36 10 25927870 25927870 + Silent SNP C C T novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 25927870 25927870 GPR158 10 C C T 19 SVIL 6840 broad.mit.edu 36 10 29880010 29880010 + Missense_Mutation SNP C C A novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 29880010 29880010 SVIL 10 C C A 26 PCDH15 65217 broad.mit.edu 36 10 55625533 55625533 + Silent SNP A A G novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 55625533 55625533 PCDH15 10 A A G 7 FAM35A 54537 broad.mit.edu 36 10 88901636 88901636 + Missense_Mutation SNP G G C novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 88901636 88901636 FAM35A 10 G G C 48 TAF5 6877 broad.mit.edu 36 10 105137817 105137817 + Silent SNP T T C novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 105137817 105137817 TAF5 10 T T C 51 FANK1 92565 broad.mit.edu 36 10 127687025 127687025 + Silent SNP G G A novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 127687025 127687025 FANK1 10 G G A 39 UBQLN3 50613 broad.mit.edu 36 11 5485405 5485405 + Missense_Mutation SNP G G C novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 5485405 5485405 UBQLN3 11 G G C 48 LRP4 4038 broad.mit.edu 36 11 46849744 46849744 + Missense_Mutation SNP C C T novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 46849744 46849744 LRP4 11 C C T 25 CATSPER1 117144 broad.mit.edu 36 11 65545150 65545150 + Missense_Mutation SNP T T G novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 65545150 65545150 CATSPER1 11 T T G 57 GRM5 2915 broad.mit.edu 36 11 88420415 88420415 + Missense_Mutation SNP C C G novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 88420415 88420415 GRM5 11 C C G 22 SLC36A4 120103 broad.mit.edu 36 11 92557273 92557273 + Missense_Mutation SNP G G C novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 92557273 92557273 SLC36A4 11 G G C 41 POU2F3 25833 broad.mit.edu 36 11 119685431 119685431 + Nonsense_Mutation SNP C C T novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 119685431 119685431 POU2F3 11 C C T 23 PDE3A 5139 broad.mit.edu 36 12 20674322 20674322 + Missense_Mutation SNP G G T novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 20674322 20674322 PDE3A 12 G G T 48 ATP2A2 488 broad.mit.edu 36 12 109262911 109262911 + Missense_Mutation SNP C C A novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 109262911 109262911 ATP2A2 12 C C A 30 KNTC1 9735 broad.mit.edu 36 12 121585231 121585231 + Nonsense_Mutation SNP C C A novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 121585231 121585231 KNTC1 12 C C A 29 PAK6 56924 broad.mit.edu 36 15 38352839 38352839 + Missense_Mutation SNP G G C novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 38352839 38352839 PAK6 15 G G C 42 CNTNAP4 85445 broad.mit.edu 36 16 75150013 75150013 + Missense_Mutation SNP G G A novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 75150013 75150013 CNTNAP4 16 G G A 42 TP53 7157 broad.mit.edu 36 17 7519131 7519131 + Missense_Mutation SNP C C T rs28934578 Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 7519131 7519131 TP53 17 C C T 27 SLC6A4 6532 broad.mit.edu 36 17 25573043 25573043 + Silent SNP A A G novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 25573043 25573043 SLC6A4 17 A A G 4 CCDC40 55036 broad.mit.edu 36 17 75678206 75678206 + Missense_Mutation SNP G G A novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 75678206 75678206 CCDC40 17 G G A 46 CEP192 55125 broad.mit.edu 36 18 13039205 13039205 + Missense_Mutation SNP G G T novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 13039205 13039205 CEP192 18 G G T 48 SIRT6 51548 broad.mit.edu 36 19 4125893 4125893 + Silent SNP G G A novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 4125893 4125893 SIRT6 19 G G A 43 CHAF1A 10036 broad.mit.edu 36 19 4379827 4379827 + Missense_Mutation SNP G G A novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 4379827 4379827 CHAF1A 19 G G A 39 LPHN1 22859 broad.mit.edu 36 19 14129845 14129845 + Missense_Mutation SNP G G T novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 14129845 14129845 LPHN1 19 G G T 34 GPI 2821 broad.mit.edu 36 19 39562300 39562300 + Missense_Mutation SNP C C A novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 39562300 39562300 GPI 19 C C A 20 HIPK4 147746 broad.mit.edu 36 19 45587617 45587617 + Silent SNP G G A novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 45587617 45587617 HIPK4 19 G G A 40 LIPE 3991 broad.mit.edu 36 19 47598919 47598919 + Missense_Mutation SNP C C T novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 47598919 47598919 LIPE 19 C C T 22 KIF3C 3797 broad.mit.edu 36 2 26030759 26030759 + Splice_Site_SNP SNP C C T novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Splice_Site_SNP SNP 26030759 26030759 KIF3C 2 C C T 28 DYSF 8291 broad.mit.edu 36 2 71615936 71615936 + Missense_Mutation SNP C C T novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 71615936 71615936 DYSF 2 C C T 31 INPP4A 3631 broad.mit.edu 36 2 98547657 98547657 + Silent SNP C C T novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 98547657 98547657 INPP4A 2 C C T 19 COBLL1 22837 broad.mit.edu 36 2 165259149 165259149 + Missense_Mutation SNP C C T novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 165259149 165259149 COBLL1 2 C C T 20 ZNF804A 91752 broad.mit.edu 36 2 185510677 185510677 + Missense_Mutation SNP G G A novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 185510677 185510677 ZNF804A 2 G G A 37 PGAP1 80055 broad.mit.edu 36 2 197420956 197420956 + Missense_Mutation SNP T T C novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 197420956 197420956 PGAP1 2 T T C 63 OR6B3 150681 broad.mit.edu 36 2 240633458 240633458 + Missense_Mutation SNP C C A novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 240633458 240633458 OR6B3 2 C C A 30 PRDM15 63977 broad.mit.edu 36 21 42103580 42103580 + Missense_Mutation SNP T T C novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 42103580 42103580 PRDM15 21 T T C 54 CCDC134 79879 broad.mit.edu 36 22 40535924 40535924 + Missense_Mutation SNP G G C novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 40535924 40535924 CCDC134 22 G G C 45 CCDC134 79879 broad.mit.edu 36 22 40536209 40536209 + Missense_Mutation SNP G G A novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 40536209 40536209 CCDC134 22 G G A 43 ADAMTS9 56999 broad.mit.edu 36 3 64647538 64647538 + Missense_Mutation SNP A A C novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 64647538 64647538 ADAMTS9 3 A A C 11 C3orf22 152065 broad.mit.edu 36 3 127751454 127751454 + Missense_Mutation SNP C C G novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 127751454 127751454 C3orf22 3 C C G 26 RHOH 399 broad.mit.edu 36 4 39921469 39921469 + Missense_Mutation SNP G G A novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 39921469 39921469 RHOH 4 G G A 38 OTUD4 54726 broad.mit.edu 36 4 146278178 146278178 + Missense_Mutation SNP C C A novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 146278178 146278178 OTUD4 4 C C A 17 SLC4A9 83697 broad.mit.edu 36 5 139723899 139723899 + Missense_Mutation SNP T T G novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 139723899 139723899 SLC4A9 5 T T G 52 ANKHD1-EIF4EBP3 404734 broad.mit.edu 36 5 139818393 139818393 + Splice_Site_SNP SNP G G T novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Splice_Site_SNP SNP 139818393 139818393 ANKHD1-EIF4EBP3 5 G G T 35 PCDHGA9 56107 broad.mit.edu 36 5 140763341 140763341 + Missense_Mutation SNP C C T novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 140763341 140763341 PCDHGA9 5 C C T 19 PCDHGA10 56106 broad.mit.edu 36 5 140774373 140774373 + Missense_Mutation SNP C C G novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 140774373 140774373 PCDHGA10 5 C C G 22 PCDHGA11 56105 broad.mit.edu 36 5 140781349 140781350 + Missense_Mutation DNP TA TA GG novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation DNP 140781349 140781350 PCDHGA11 5 TA TA GG 49 PPARGC1B 133522 broad.mit.edu 36 5 149190629 149190629 + Missense_Mutation SNP C C T novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 149190629 149190629 PPARGC1B 5 C C T 24 ATP10B 23120 broad.mit.edu 36 5 159949258 159949258 + Missense_Mutation SNP A A C novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 159949258 159949258 ATP10B 5 A A C 8 DNAH11 8701 broad.mit.edu 36 7 21607028 21607028 + Silent SNP A A G novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 21607028 21607028 DNAH11 7 A A G 3 GPR37 2861 broad.mit.edu 36 7 124191711 124191711 + Missense_Mutation SNP C C G novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 124191711 124191711 GPR37 7 C C G 28 FAM160B2 64760 broad.mit.edu 36 8 22014083 22014083 + Missense_Mutation SNP C C A novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 22014083 22014083 FAM160B2 8 C C A 28 PURG 29942 broad.mit.edu 36 8 31009734 31009734 + Missense_Mutation SNP T T A novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 31009734 31009734 PURG 8 T T A 59 TRAM1 23471 broad.mit.edu 36 8 71661745 71661745 + Missense_Mutation SNP C C G novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 71661745 71661745 TRAM1 8 C C G 17 OLFML2A 169611 broad.mit.edu 36 9 126601561 126601561 + Silent SNP C C A novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 126601561 126601561 OLFML2A 9 C C A 22 RBM3 5935 broad.mit.edu 36 X 48319938 48319938 + Splice_Site_SNP SNP T T G novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Splice_Site_SNP SNP 48319938 48319938 RBM3 23 T T G 59 SMC1A 8243 broad.mit.edu 36 X 53452728 53452728 + Missense_Mutation SNP G G T novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 53452728 53452728 SMC1A 23 G G T 35 KIAA2022 340533 broad.mit.edu 36 X 73880322 73880322 + Silent SNP A A T novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 73880322 73880322 KIAA2022 23 A A T 13 PDE4DIP 9659 broad.mit.edu 36 1 143565954 143565959 + In_Frame_Del DEL TCGCTC - TCGCTC novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad In_Frame_Del DEL 143565954 143565959 PDE4DIP 1 TCGCTC - TCGCTC 58 BEND7 222389 broad.mit.edu 36 10 13521201 13521202 + Frame_Shift_Ins INS - TCCC - novel Unknown TCGA-24-2281-01 TCGA-24-2281-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad Frame_Shift_Ins INS 13521201 13521202 BEND7 10 - TCCC - 45