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 ARHGEF10L 55160 broad.mit.edu 36 1 17833633 17833633 + Silent SNP T T G novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 17833633 17833633 ARHGEF10L 1 T T G 55 BAI2 576 broad.mit.edu 36 1 31978222 31978222 + Missense_Mutation SNP C C T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 31978222 31978222 BAI2 1 C C T 18 SNIP1 79753 broad.mit.edu 36 1 37792280 37792280 + Silent SNP C C T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 37792280 37792280 SNIP1 1 C C T 23 CCDC163P 126661 broad.mit.edu 36 1 45737794 45737794 + Missense_Mutation SNP A A T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 45737794 45737794 CCDC163P 1 A A T 16 CYP4A22 284541 broad.mit.edu 36 1 47380453 47380453 + Missense_Mutation SNP C C T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 47380453 47380453 CYP4A22 1 C C T 26 C1orf175 374977 broad.mit.edu 36 1 54944716 54944716 + Silent SNP C C T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 54944716 54944716 C1orf175 1 C C T 27 ZNF644 84146 broad.mit.edu 36 1 91177507 91177507 + Silent SNP T T A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 91177507 91177507 ZNF644 1 T T A 51 CRTC2 200186 broad.mit.edu 36 1 152192375 152192375 + Nonsense_Mutation SNP G G A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 152192375 152192375 CRTC2 1 G G A 39 ADAR 103 broad.mit.edu 36 1 152840787 152840787 + Missense_Mutation SNP C C A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 152840787 152840787 ADAR 1 C C A 26 IQGAP3 128239 broad.mit.edu 36 1 154776269 154776269 + Silent SNP G G A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 154776269 154776269 IQGAP3 1 G G A 33 TDRD5 163589 broad.mit.edu 36 1 177926529 177926529 + Missense_Mutation SNP G G A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 177926529 177926529 TDRD5 1 G G A 40 GPR25 2848 broad.mit.edu 36 1 199109766 199109766 + Silent SNP C C T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 199109766 199109766 GPR25 1 C C T 23 PRELP 5549 broad.mit.edu 36 1 201719708 201719708 + Missense_Mutation SNP C C T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 201719708 201719708 PRELP 1 C C T 24 SIPA1L2 57568 broad.mit.edu 36 1 230717031 230717031 + Silent SNP G G C novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 230717031 230717031 SIPA1L2 1 G G C 41 NLRP3 114548 broad.mit.edu 36 1 245664067 245664067 + Missense_Mutation SNP C C G novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 245664067 245664067 NLRP3 1 C C G 17 OR2L2 26246 broad.mit.edu 36 1 246268229 246268229 + Missense_Mutation SNP T T A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 246268229 246268229 OR2L2 1 T T A 56 DIP2C 22982 broad.mit.edu 36 10 380992 380992 + Missense_Mutation SNP C C T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 380992 380992 DIP2C 10 C C T 24 GTPBP4 23560 broad.mit.edu 36 10 1036802 1036802 + Silent SNP C C T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 1036802 1036802 GTPBP4 10 C C T 29 MAPK8 5599 broad.mit.edu 36 10 49298345 49298345 + Missense_Mutation SNP C C T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 49298345 49298345 MAPK8 10 C C T 24 CSTF2T 23283 broad.mit.edu 36 10 53128896 53128896 + Missense_Mutation SNP C C T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 53128896 53128896 CSTF2T 10 C C T 17 VCL 7414 broad.mit.edu 36 10 75527093 75527093 + Missense_Mutation SNP A A T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 75527093 75527093 VCL 10 A A T 3 LDB1 8861 broad.mit.edu 36 10 103859187 103859187 + Missense_Mutation SNP C C T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 103859187 103859187 LDB1 10 C C T 27 SEC23IP 11196 broad.mit.edu 36 10 121675724 121675724 + Missense_Mutation SNP G G A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 121675724 121675724 SEC23IP 10 G G A 39 MKI67 4288 broad.mit.edu 36 10 129791611 129791611 + Missense_Mutation SNP G G A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 129791611 129791611 MKI67 10 G G A 45 MUC5B 727897 broad.mit.edu 36 11 1204570 1204570 + Missense_Mutation SNP C C A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 1204570 1204570 MUC5B 11 C C A 21 RIC3 79608 broad.mit.edu 36 11 8088973 8088973 + Missense_Mutation SNP C C G novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 8088973 8088973 RIC3 11 C C G 25 OR5T2 219464 broad.mit.edu 36 11 55756168 55756168 + Missense_Mutation SNP G G T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 55756168 55756168 OR5T2 11 G G T 36 SYT7 9066 broad.mit.edu 36 11 61047909 61047909 + Silent SNP C C G novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 61047909 61047909 SYT7 11 C C G 30 FADS3 3995 broad.mit.edu 36 11 61400413 61400413 + Missense_Mutation SNP G G T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 61400413 61400413 FADS3 11 G G T 34 CACNA1C 775 broad.mit.edu 36 12 2670356 2670356 + Missense_Mutation SNP T T A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 2670356 2670356 CACNA1C 12 T T A 63 ARID2 196528 broad.mit.edu 36 12 44531603 44531603 + Missense_Mutation SNP C C T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 44531603 44531603 ARID2 12 C C T 26 ZDHHC17 23390 broad.mit.edu 36 12 75727712 75727712 + Silent SNP C C T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 75727712 75727712 ZDHHC17 12 C C T 32 TMPO 7112 broad.mit.edu 36 12 97451652 97451652 + Nonsense_Mutation SNP G G T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 97451652 97451652 TMPO 12 G G T 45 NOS1 4842 broad.mit.edu 36 12 116149679 116149679 + Missense_Mutation SNP G G T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 116149679 116149679 NOS1 12 G G T 43 LECT1 11061 broad.mit.edu 36 13 52175822 52175822 + Missense_Mutation SNP G G C novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 52175822 52175822 LECT1 13 G G C 47 SLC10A2 6555 broad.mit.edu 36 13 102501610 102501610 + Nonsense_Mutation SNP G G C novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 102501610 102501610 SLC10A2 13 G G C 48 GMPR2 51292 broad.mit.edu 36 14 23776199 23776199 + Splice_Site_SNP SNP G G C novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Splice_Site_SNP SNP 23776199 23776199 GMPR2 14 G G C 44 L2HGDH 79944 broad.mit.edu 36 14 49839442 49839442 + Missense_Mutation SNP C C G novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 49839442 49839442 L2HGDH 14 C C G 25 NAA30 122830 broad.mit.edu 36 14 56927999 56927999 + Silent SNP C C T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 56927999 56927999 NAA30 14 C C T 24 POMT2 29954 broad.mit.edu 36 14 76832350 76832350 + Silent SNP C C A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 76832350 76832350 POMT2 14 C C A 29 C14orf102 55051 broad.mit.edu 36 14 89838915 89838915 + Missense_Mutation SNP T T G novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 89838915 89838915 C14orf102 14 T T G 59 TTC7B 145567 broad.mit.edu 36 14 90154079 90154079 + Silent SNP A A T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 90154079 90154079 TTC7B 14 A A T 3 SERPINA4 5267 broad.mit.edu 36 14 94099875 94099875 + Silent SNP C C A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 94099875 94099875 SERPINA4 14 C C A 30 C15orf2 23742 broad.mit.edu 36 15 22472428 22472428 + Missense_Mutation SNP G G T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 22472428 22472428 C15orf2 15 G G T 44 RYR3 6263 broad.mit.edu 36 15 31682691 31682691 + Silent SNP C C T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 31682691 31682691 RYR3 15 C C T 31 MTFMT 123263 broad.mit.edu 36 15 63101003 63101003 + Missense_Mutation SNP C C T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 63101003 63101003 MTFMT 15 C C T 29 HEXA 3073 broad.mit.edu 36 15 70430550 70430550 + Missense_Mutation SNP G G C novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 70430550 70430550 HEXA 15 G G C 36 STOML1 9399 broad.mit.edu 36 15 72063456 72063456 + Missense_Mutation SNP C C G novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 72063456 72063456 STOML1 15 C C G 32 CIB2 10518 broad.mit.edu 36 15 76190665 76190665 + Missense_Mutation SNP G G A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 76190665 76190665 CIB2 15 G G A 37 ZFAND6 54469 broad.mit.edu 36 15 78202096 78202096 + Splice_Site_SNP SNP G G C novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Splice_Site_SNP SNP 78202096 78202096 ZFAND6 15 G G C 34 FES 2242 broad.mit.edu 36 15 89238176 89238176 + Missense_Mutation SNP A A G novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 89238176 89238176 FES 15 A A G 14 DNAH3 55567 broad.mit.edu 36 16 20878076 20878076 + Silent SNP G G A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 20878076 20878076 DNAH3 16 G G A 39 TMCO7 79613 broad.mit.edu 36 16 67631815 67631815 + Missense_Mutation SNP A A T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 67631815 67631815 TMCO7 16 A A T 1 HYDIN 54768 broad.mit.edu 36 16 69562149 69562149 + Silent SNP T T C novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 69562149 69562149 HYDIN 16 T T C 64 CNTNAP4 85445 broad.mit.edu 36 16 75044030 75044030 + Missense_Mutation SNP G G A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 75044030 75044030 CNTNAP4 16 G G A 37 PKD1L2 114780 broad.mit.edu 36 16 79776673 79776673 + Missense_Mutation SNP C C G novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 79776673 79776673 PKD1L2 16 C C G 32 CPNE7 27132 broad.mit.edu 36 16 88178713 88178714 + Missense_Mutation DNP GA GA TC novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation DNP 88178713 88178714 CPNE7 16 GA GA TC 41 SCARF1 8578 broad.mit.edu 36 17 1495264 1495264 + Missense_Mutation SNP A A T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 1495264 1495264 SCARF1 17 A A T 6 TP53 7157 broad.mit.edu 36 17 7518929 7518929 + Missense_Mutation SNP A A C novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 7518929 7518929 TP53 17 A A C 6 CHD3 1107 broad.mit.edu 36 17 7735013 7735013 + Missense_Mutation SNP C C A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 7735013 7735013 CHD3 17 C C A 28 FLJ25006 124923 broad.mit.edu 36 17 23964425 23964425 + Missense_Mutation SNP T T A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 23964425 23964425 FLJ25006 17 T T A 56 EPN3 55040 broad.mit.edu 36 17 45973163 45973163 + Silent SNP G G A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 45973163 45973163 EPN3 17 G G A 37 HEATR6 63897 broad.mit.edu 36 17 55504362 55504362 + Missense_Mutation SNP C C A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 55504362 55504362 HEATR6 17 C C A 25 TANC2 26115 broad.mit.edu 36 17 58771410 58771410 + Missense_Mutation SNP G G A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 58771410 58771410 TANC2 17 G G A 33 SAP30BP 29115 broad.mit.edu 36 17 71210211 71210211 + Silent SNP C C T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 71210211 71210211 SAP30BP 17 C C T 17 KIAA1632 57724 broad.mit.edu 36 18 41692528 41692528 + Splice_Site_SNP SNP C C A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Splice_Site_SNP SNP 41692528 41692528 KIAA1632 18 C C A 18 C18orf54 162681 broad.mit.edu 36 18 50141075 50141075 + Nonsense_Mutation SNP C C A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 50141075 50141075 C18orf54 18 C C A 17 ZCCHC2 54877 broad.mit.edu 36 18 58363069 58363069 + Missense_Mutation SNP C C G novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 58363069 58363069 ZCCHC2 18 C C G 17 TRIP10 9322 broad.mit.edu 36 19 6695700 6695700 + Missense_Mutation SNP G G A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 6695700 6695700 TRIP10 19 G G A 41 ZNF791 163049 broad.mit.edu 36 19 12599844 12599844 + Missense_Mutation SNP A A C novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 12599844 12599844 ZNF791 19 A A C 1 ARMC6 93436 broad.mit.edu 36 19 19029264 19029264 + Missense_Mutation SNP G G A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 19029264 19029264 ARMC6 19 G G A 39 MLL4 9757 broad.mit.edu 36 19 40903085 40903085 + Silent SNP T T C novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 40903085 40903085 MLL4 19 T T C 51 LGALS13 29124 broad.mit.edu 36 19 44787802 44787802 + Silent SNP C C T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 44787802 44787802 LGALS13 19 C C T 20 CYP2A13 1553 broad.mit.edu 36 19 46286230 46286230 + Missense_Mutation SNP G G A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 46286230 46286230 CYP2A13 19 G G A 43 CIC 23152 broad.mit.edu 36 19 47490052 47490052 + Missense_Mutation SNP C C T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 47490052 47490052 CIC 19 C C T 32 VASP 7408 broad.mit.edu 36 19 50713107 50713107 + Silent SNP C C G novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 50713107 50713107 VASP 19 C C G 26 CABP5 56344 broad.mit.edu 36 19 53235717 53235717 + Silent SNP C C A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 53235717 53235717 CABP5 19 C C A 23 KLK2 3817 broad.mit.edu 36 19 56073550 56073550 + Missense_Mutation SNP C C T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 56073550 56073550 KLK2 19 C C T 26 ZNF628 89887 broad.mit.edu 36 19 60684641 60684641 + Missense_Mutation SNP G G T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 60684641 60684641 ZNF628 19 G G T 39 PEG3 5178 broad.mit.edu 36 19 62017826 62017826 + Missense_Mutation SNP C C A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 62017826 62017826 PEG3 19 C C A 24 DUXA 503835 broad.mit.edu 36 19 62362451 62362451 + Missense_Mutation SNP A A C novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 62362451 62362451 DUXA 19 A A C 1 ZNF551 90233 broad.mit.edu 36 19 62891400 62891400 + Missense_Mutation SNP G G T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 62891400 62891400 ZNF551 19 G G T 47 FSHR 2492 broad.mit.edu 36 2 49043797 49043797 + Missense_Mutation SNP A A T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 49043797 49043797 FSHR 2 A A T 6 CNTNAP5 129684 broad.mit.edu 36 2 125246854 125246854 + Missense_Mutation SNP G G A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 125246854 125246854 CNTNAP5 2 G G A 33 RIF1 55183 broad.mit.edu 36 2 152022643 152022643 + Silent SNP A A G novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 152022643 152022643 RIF1 2 A A G 2 TTN 7273 broad.mit.edu 36 2 179152815 179152815 + Missense_Mutation SNP G G A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 179152815 179152815 TTN 2 G G A 35 MYO1B 4430 broad.mit.edu 36 2 191902954 191902954 + Silent SNP G G A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 191902954 191902954 MYO1B 2 G G A 35 PLEKHM3 389072 broad.mit.edu 36 2 208550482 208550482 + Nonsense_Mutation SNP C C T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 208550482 208550482 PLEKHM3 2 C C T 26 DGKD 8527 broad.mit.edu 36 2 234041940 234041940 + Splice_Site_SNP SNP T T G novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Splice_Site_SNP SNP 234041940 234041940 DGKD 2 T T G 57 RRBP1 6238 broad.mit.edu 36 20 17570516 17570516 + Missense_Mutation SNP C C T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 17570516 17570516 RRBP1 20 C C T 32 CYYR1 116159 broad.mit.edu 36 21 26762717 26762718 + Missense_Mutation DNP GA GA TT novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation DNP 26762717 26762718 CYYR1 21 GA GA TT 41 MX1 4599 broad.mit.edu 36 21 41752421 41752421 + Missense_Mutation SNP C C A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 41752421 41752421 MX1 21 C C A 28 C2CD2 25966 broad.mit.edu 36 21 42200838 42200838 + Silent SNP C C T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 42200838 42200838 C2CD2 21 C C T 24 CCT8L2 150160 broad.mit.edu 36 22 15452357 15452357 + Missense_Mutation SNP C C G novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 15452357 15452357 CCT8L2 22 C C G 18 CYTSA 23384 broad.mit.edu 36 22 23048635 23048635 + Missense_Mutation SNP G G C novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 23048635 23048635 CYTSA 22 G G C 33 DEPDC5 9681 broad.mit.edu 36 22 30583538 30583538 + Missense_Mutation SNP A A G novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 30583538 30583538 DEPDC5 22 A A G 3 EFCAB6 64800 broad.mit.edu 36 22 42399519 42399519 + Splice_Site_SNP SNP C C A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Splice_Site_SNP SNP 42399519 42399519 EFCAB6 22 C C A 32 SLC9A10 285335 broad.mit.edu 36 3 113370775 113370775 + Missense_Mutation SNP C C T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 113370775 113370775 SLC9A10 3 C C T 27 TNFSF10 8743 broad.mit.edu 36 3 173723832 173723833 + Missense_Mutation DNP CC CC TT novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation DNP 173723832 173723833 TNFSF10 3 CC CC TT 22 FAM193A 8603 broad.mit.edu 36 4 2671499 2671499 + Missense_Mutation SNP G G A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 2671499 2671499 FAM193A 4 G G A 45 UGT2B4 7363 broad.mit.edu 36 4 70394026 70394026 + Missense_Mutation SNP A A T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 70394026 70394026 UGT2B4 4 A A T 7 NAA15 80155 broad.mit.edu 36 4 140502514 140502514 + Missense_Mutation SNP G G C novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 140502514 140502514 NAA15 4 G G C 45 FAT1 2195 broad.mit.edu 36 4 187779859 187779859 + Missense_Mutation SNP T T G novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 187779859 187779859 FAT1 4 T T G 53 PRDM9 56979 broad.mit.edu 36 5 23558665 23558665 + Missense_Mutation SNP G G A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 23558665 23558665 PRDM9 5 G G A 45 RAPGEF6 51735 broad.mit.edu 36 5 130792511 130792511 + Missense_Mutation SNP G G T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 130792511 130792511 RAPGEF6 5 G G T 46 PCDHA4 56144 broad.mit.edu 36 5 140167356 140167356 + Missense_Mutation SNP C C T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 140167356 140167356 PCDHA4 5 C C T 22 PCDHGB7 56099 broad.mit.edu 36 5 140778607 140778607 + Missense_Mutation SNP G G A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 140778607 140778607 PCDHGB7 5 G G A 36 NHP2 55651 broad.mit.edu 36 5 177509382 177509382 + Missense_Mutation SNP C C T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 177509382 177509382 NHP2 5 C C T 30 NHP2 55651 broad.mit.edu 36 5 177509445 177509445 + Missense_Mutation SNP C C T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 177509445 177509445 NHP2 5 C C T 30 FLT4 2324 broad.mit.edu 36 5 179985805 179985806 + Missense_Mutation DNP TG TG CT novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation DNP 179985805 179985806 FLT4 5 TG TG CT 55 NUP153 9972 broad.mit.edu 36 6 17745743 17745743 + Missense_Mutation SNP G G C novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 17745743 17745743 NUP153 6 G G C 36 HIST1H2BH 8345 broad.mit.edu 36 6 26360083 26360083 + Missense_Mutation SNP G G A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 26360083 26360083 HIST1H2BH 6 G G A 39 ZNF187 7741 broad.mit.edu 36 6 28351974 28351974 + Missense_Mutation SNP G G A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 28351974 28351974 ZNF187 6 G G A 47 HLA-E 3133 broad.mit.edu 36 6 30565660 30565660 + Missense_Mutation SNP G G T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 30565660 30565660 HLA-E 6 G G T 43 VARS2 57176 broad.mit.edu 36 6 30995963 30995963 + Silent SNP C C T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 30995963 30995963 VARS2 6 C C T 20 TAPBP 6892 broad.mit.edu 36 6 33381037 33381037 + Missense_Mutation SNP G G A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 33381037 33381037 TAPBP 6 G G A 42 PHF1 5252 broad.mit.edu 36 6 33490046 33490046 + Silent SNP G G A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 33490046 33490046 PHF1 6 G G A 33 PNPLA1 285848 broad.mit.edu 36 6 36370146 36370146 + Missense_Mutation SNP G G A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 36370146 36370146 PNPLA1 6 G G A 41 GPR115 221393 broad.mit.edu 36 6 47790221 47790221 + Nonsense_Mutation SNP G G A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 47790221 47790221 GPR115 6 G G A 44 BEND6 221336 broad.mit.edu 36 6 56965185 56965186 + Missense_Mutation DNP GG GG TT novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation DNP 56965185 56965186 BEND6 6 GG GG TT 35 RIMS1 22999 broad.mit.edu 36 6 73040792 73040792 + Silent SNP C C T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 73040792 73040792 RIMS1 6 C C T 24 TXLNB 167838 broad.mit.edu 36 6 139605515 139605515 + Silent SNP A A G novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 139605515 139605515 TXLNB 6 A A G 11 ELMO1 9844 broad.mit.edu 36 7 37348807 37348807 + Missense_Mutation SNP C C T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 37348807 37348807 ELMO1 7 C C T 27 ZMIZ2 83637 broad.mit.edu 36 7 44762655 44762655 + Missense_Mutation SNP C C G novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 44762655 44762655 ZMIZ2 7 C C G 17 COBL 23242 broad.mit.edu 36 7 51120394 51120394 + Silent SNP G G C novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 51120394 51120394 COBL 7 G G C 46 STAG3 10734 broad.mit.edu 36 7 99624554 99624554 + Missense_Mutation SNP C C A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 99624554 99624554 STAG3 7 C C A 23 GCC1 79571 broad.mit.edu 36 7 127009804 127009804 + Missense_Mutation SNP C C A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 127009804 127009804 GCC1 7 C C A 26 C7orf33 202865 broad.mit.edu 36 7 147942217 147942217 + Missense_Mutation SNP G G A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 147942217 147942217 C7orf33 7 G G A 43 PLAG1 5324 broad.mit.edu 36 8 57242265 57242265 + Silent SNP C C T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 57242265 57242265 PLAG1 8 C C T 24 RGS22 26166 broad.mit.edu 36 8 101068932 101068932 + Missense_Mutation SNP C C A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 101068932 101068932 RGS22 8 C C A 19 DENND3 22898 broad.mit.edu 36 8 142268269 142268269 + Silent SNP C C T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 142268269 142268269 DENND3 8 C C T 20 C9orf125 84302 broad.mit.edu 36 9 103279181 103279181 + Silent SNP G G A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 103279181 103279181 C9orf125 9 G G A 35 TSC1 7248 broad.mit.edu 36 9 134766887 134766888 + Missense_Mutation DNP CC CC TG novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation DNP 134766887 134766888 TSC1 9 CC CC TG 30 VAV2 7410 broad.mit.edu 36 9 135646794 135646794 + Missense_Mutation SNP T T G novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 135646794 135646794 VAV2 9 T T G 63 USP11 8237 broad.mit.edu 36 X 46985713 46985713 + Missense_Mutation SNP G G A novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 46985713 46985713 USP11 23 G G A 45 SYP 6855 broad.mit.edu 36 X 48936733 48936733 + Missense_Mutation SNP C C G novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 48936733 48936733 SYP 23 C C G 32 ITIH5L 347365 broad.mit.edu 36 X 54801851 54801851 + Missense_Mutation SNP G G T novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 54801851 54801851 ITIH5L 23 G G T 48 NBPF16 728936 broad.mit.edu 36 1 147019951 147019960 + Frame_Shift_Del DEL AGATTATCTT - AGATTATCTT novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad Frame_Shift_Del DEL 147019951 147019960 NBPF16 1 AGATTATCTT - AGATTATCTT 7 IGSF9 57549 broad.mit.edu 36 1 158170866 158170877 + In_Frame_Del DEL AGGGTGGATGCA - AGGGTGGATGCA novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad In_Frame_Del DEL 158170866 158170877 IGSF9 1 AGGGTGGATGCA - AGGGTGGATGCA 11 SPEF2 79925 broad.mit.edu 36 5 35829070 35829070 + Frame_Shift_Del DEL G - G novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad Frame_Shift_Del DEL 35829070 35829070 SPEF2 5 G - G 39 PLOD3 8985 broad.mit.edu 36 7 100640600 100640609 + Frame_Shift_Del DEL TGGGGCAGCT - TGGGGCAGCT novel Unknown TCGA-61-1998-01 TCGA-61-1998-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad Frame_Shift_Del DEL 100640600 100640609 PLOD3 7 TGGGGCAGCT - TGGGGCAGCT 55