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 CHD5 26038 broad.mit.edu 36 1 6111605 6111605 + Missense_Mutation SNP T T C novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 6111605 6111605 CHD5 1 T T C 50 LCK 3932 broad.mit.edu 36 1 32518373 32518373 + Silent SNP C C T novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 32518373 32518373 LCK 1 C C T 29 PHC2 1912 broad.mit.edu 36 1 33567230 33567230 + Missense_Mutation SNP C C G novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 33567230 33567230 PHC2 1 C C G 17 MAP7D1 55700 broad.mit.edu 36 1 36418127 36418127 + Missense_Mutation SNP A A G novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 36418127 36418127 MAP7D1 1 A A G 11 KLF17 128209 broad.mit.edu 36 1 44368256 44368256 + Missense_Mutation SNP G G T novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 44368256 44368256 KLF17 1 G G T 34 ERI3 79033 broad.mit.edu 36 1 44551427 44551427 + Splice_Site_SNP SNP C C G novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Splice_Site_SNP SNP 44551427 44551427 ERI3 1 C C G 18 ROR1 4919 broad.mit.edu 36 1 64416902 64416902 + Missense_Mutation SNP A A G novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 64416902 64416902 ROR1 1 A A G 15 ASB17 127247 broad.mit.edu 36 1 76170547 76170547 + Missense_Mutation SNP T T A novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 76170547 76170547 ASB17 1 T T A 52 HBXIP 10542 broad.mit.edu 36 1 110745685 110745685 + Missense_Mutation SNP G G T novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 110745685 110745685 HBXIP 1 G G T 46 TDRD10 126668 broad.mit.edu 36 1 152783129 152783129 + Missense_Mutation SNP T T G novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 152783129 152783129 TDRD10 1 T T G 49 PKLR 5313 broad.mit.edu 36 1 153530996 153530996 + Missense_Mutation SNP C C A novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 153530996 153530996 PKLR 1 C C A 23 INSRR 3645 broad.mit.edu 36 1 155082117 155082117 + Missense_Mutation SNP C C T novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 155082117 155082117 INSRR 1 C C T 18 OR10X1 128367 broad.mit.edu 36 1 156816160 156816161 + Nonsense_Mutation DNP GG GG TT novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation DNP 156816160 156816161 OR10X1 1 GG GG TT 35 HMCN1 83872 broad.mit.edu 36 1 184164386 184164386 + Missense_Mutation SNP G G T novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 184164386 184164386 HMCN1 1 G G T 35 MDM4 4194 broad.mit.edu 36 1 202782580 202782580 + Silent SNP G G A novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 202782580 202782580 MDM4 1 G G A 35 PLXNA2 5362 broad.mit.edu 36 1 206336085 206336085 + Missense_Mutation SNP C C G novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 206336085 206336085 PLXNA2 1 C C G 21 EPHX1 2052 broad.mit.edu 36 1 224094163 224094163 + Missense_Mutation SNP G G C rs66903687 Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 224094163 224094163 EPHX1 1 G G C 35 OR2M3 127062 broad.mit.edu 36 1 246433390 246433390 + Missense_Mutation SNP C C A novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 246433390 246433390 OR2M3 1 C C A 18 HNRNPH3 3189 broad.mit.edu 36 10 69771816 69771816 + Nonstop_Mutation SNP G G C novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Nonstop_Mutation SNP 69771816 69771816 HNRNPH3 10 G G C 45 VDAC2 7417 broad.mit.edu 36 10 76643806 76643806 + Missense_Mutation SNP A A G novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 76643806 76643806 VDAC2 10 A A G 12 ATRNL1 26033 broad.mit.edu 36 10 117030924 117030924 + Missense_Mutation SNP A A T novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 117030924 117030924 ATRNL1 10 A A T 3 SPI1 6688 broad.mit.edu 36 11 47333408 47333408 + Silent SNP G G A novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 47333408 47333408 SPI1 11 G G A 38 OR1S2 219958 broad.mit.edu 36 11 57727663 57727663 + Silent SNP G G A novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 57727663 57727663 OR1S2 11 G G A 36 CD5 921 broad.mit.edu 36 11 60645770 60645770 + Missense_Mutation SNP C C A novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 60645770 60645770 CD5 11 C C A 26 INTS5 80789 broad.mit.edu 36 11 62173408 62173408 + Silent SNP G G A novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 62173408 62173408 INTS5 11 G G A 43 MAP4K2 5871 broad.mit.edu 36 11 64313672 64313672 + Silent SNP T T C novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 64313672 64313672 MAP4K2 11 T T C 54 MTL5 9633 broad.mit.edu 36 11 68234924 68234924 + Missense_Mutation SNP T T A novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 68234924 68234924 MTL5 11 T T A 59 FAT3 120114 broad.mit.edu 36 11 92174160 92174160 + Missense_Mutation SNP C C G novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 92174160 92174160 FAT3 11 C C G 28 KDM5A 5927 broad.mit.edu 36 12 287126 287126 + Missense_Mutation SNP G G A novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 287126 287126 KDM5A 12 G G A 36 C12orf35 55196 broad.mit.edu 36 12 32026913 32026913 + Missense_Mutation SNP C C G novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 32026913 32026913 C12orf35 12 C C G 28 DNAJC22 79962 broad.mit.edu 36 12 48029456 48029456 + Silent SNP C C T novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 48029456 48029456 DNAJC22 12 C C T 29 AQP2 359 broad.mit.edu 36 12 48634705 48634705 + Missense_Mutation SNP A A T novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 48634705 48634705 AQP2 12 A A T 4 FRY 10129 broad.mit.edu 36 13 31709670 31709670 + Missense_Mutation SNP G G T novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 31709670 31709670 FRY 13 G G T 47 PCDH9 5101 broad.mit.edu 36 13 66375734 66375734 + Missense_Mutation SNP T T C novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 66375734 66375734 PCDH9 13 T T C 60 RNASE7 84659 broad.mit.edu 36 14 20581370 20581370 + Missense_Mutation SNP A A C novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 20581370 20581370 RNASE7 14 A A C 9 CTSG 1511 broad.mit.edu 36 14 24113465 24113465 + Silent SNP C C T novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 24113465 24113465 CTSG 14 C C T 27 ZFYVE26 23503 broad.mit.edu 36 14 67334698 67334698 + Silent SNP A A G novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 67334698 67334698 ZFYVE26 14 A A G 9 FAM161B 145483 broad.mit.edu 36 14 73481016 73481016 + Missense_Mutation SNP T T C novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 73481016 73481016 FAM161B 14 T T C 51 TJP1 7082 broad.mit.edu 36 15 27781168 27781168 + Missense_Mutation SNP G G C novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 27781168 27781168 TJP1 15 G G C 46 CHRNA3 1136 broad.mit.edu 36 15 76680771 76680771 + Missense_Mutation SNP G G A novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 76680771 76680771 CHRNA3 15 G G A 33 HDDC3 374659 broad.mit.edu 36 15 89275983 89275983 + Missense_Mutation SNP C C G novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 89275983 89275983 HDDC3 15 C C G 32 LRRK1 79705 broad.mit.edu 36 15 99412822 99412822 + Missense_Mutation SNP G G C novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 99412822 99412822 LRRK1 15 G G C 34 IFT140 9742 broad.mit.edu 36 16 1514867 1514867 + Silent SNP G G A novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 1514867 1514867 IFT140 16 G G A 40 CREBBP 1387 broad.mit.edu 36 16 3726811 3726811 + Silent SNP C C G novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 3726811 3726811 CREBBP 16 C C G 29 USP7 7874 broad.mit.edu 36 16 8921759 8921759 + Missense_Mutation SNP G G A novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 8921759 8921759 USP7 16 G G A 44 ERN2 10595 broad.mit.edu 36 16 23619788 23619788 + Missense_Mutation SNP A A G novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 23619788 23619788 ERN2 16 A A G 8 CES8 283848 broad.mit.edu 36 16 65587224 65587224 + Missense_Mutation SNP A A C novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 65587224 65587224 CES8 16 A A C 14 AARS 16 broad.mit.edu 36 16 68861635 68861635 + Missense_Mutation SNP C C G novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 68861635 68861635 AARS 16 C C G 29 ANKRD11 29123 broad.mit.edu 36 16 87885088 87885088 + Missense_Mutation SNP C C G novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 87885088 87885088 ANKRD11 16 C C G 28 TP53 7157 broad.mit.edu 36 17 7518273 7518273 + Missense_Mutation SNP C C T rs28934575 Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 7518273 7518273 TP53 17 C C T 23 WFIKKN2 124857 broad.mit.edu 36 17 46273082 46273083 + Missense_Mutation DNP GG GG TT novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation DNP 46273082 46273083 WFIKKN2 17 GG GG TT 39 MC5R 4161 broad.mit.edu 36 18 13816276 13816276 + Missense_Mutation SNP C C T novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 13816276 13816276 MC5R 18 C C T 19 ANKRD24 170961 broad.mit.edu 36 19 4151140 4151140 + Silent SNP C C A novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 4151140 4151140 ANKRD24 19 C C A 25 ACSBG2 81616 broad.mit.edu 36 19 6133869 6133869 + Silent SNP C C T novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 6133869 6133869 ACSBG2 19 C C T 21 PSENEN 55851 broad.mit.edu 36 19 40929549 40929549 + Silent SNP G G C novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 40929549 40929549 PSENEN 19 G G C 43 PXDN 7837 broad.mit.edu 36 2 1659804 1659804 + Silent SNP G G C novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 1659804 1659804 PXDN 2 G G C 39 C2orf16 84226 broad.mit.edu 36 2 27656561 27656561 + Silent SNP A A G novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 27656561 27656561 C2orf16 2 A A G 3 HEATR5B 54497 broad.mit.edu 36 2 37084228 37084228 + Missense_Mutation SNP C C T novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 37084228 37084228 HEATR5B 2 C C T 28 AFTPH 54812 broad.mit.edu 36 2 64672626 64672626 + Missense_Mutation SNP G G A novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 64672626 64672626 AFTPH 2 G G A 34 NAT8 9027 broad.mit.edu 36 2 73721902 73721902 + Missense_Mutation SNP A A T rs62000430 Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 73721902 73721902 NAT8 2 A A T 8 SLC4A5 57835 broad.mit.edu 36 2 74332886 74332886 + Missense_Mutation SNP C C A novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 74332886 74332886 SLC4A5 2 C C A 30 DCTN1 1639 broad.mit.edu 36 2 74446964 74446964 + Nonsense_Mutation SNP G G C novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 74446964 74446964 DCTN1 2 G G C 45 TACR1 6869 broad.mit.edu 36 2 75130159 75130159 + Missense_Mutation SNP A A C novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 75130159 75130159 TACR1 2 A A C 11 KCMF1 56888 broad.mit.edu 36 2 85133839 85133839 + Silent SNP A A C novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 85133839 85133839 KCMF1 2 A A C 7 TEKT4 150483 broad.mit.edu 36 2 94903503 94903503 + Silent SNP C C A novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 94903503 94903503 TEKT4 2 C C A 31 HNMT 3176 broad.mit.edu 36 2 138487892 138487892 + Missense_Mutation SNP T T A novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 138487892 138487892 HNMT 2 T T A 50 PKP4 8502 broad.mit.edu 36 2 159227811 159227811 + Nonsense_Mutation SNP A A T novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 159227811 159227811 PKP4 2 A A T 9 FAP 2191 broad.mit.edu 36 2 162735796 162735796 + Missense_Mutation SNP G G T novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 162735796 162735796 FAP 2 G G T 40 EVX2 344191 broad.mit.edu 36 2 176653723 176653723 + Nonsense_Mutation SNP G G T novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 176653723 176653723 EVX2 2 G G T 48 ZNF385B 151126 broad.mit.edu 36 2 180117812 180117812 + Missense_Mutation SNP G G C novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 180117812 180117812 ZNF385B 2 G G C 47 ITGA4 3676 broad.mit.edu 36 2 182058900 182058900 + Missense_Mutation SNP A A T novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 182058900 182058900 ITGA4 2 A A T 4 CERKL 375298 broad.mit.edu 36 2 182131603 182131603 + Missense_Mutation SNP C C G novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 182131603 182131603 CERKL 2 C C G 22 MDH1B 130752 broad.mit.edu 36 2 207322086 207322086 + Silent SNP T T C novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 207322086 207322086 MDH1B 2 T T C 54 TRAF3IP1 26146 broad.mit.edu 36 2 238929448 238929448 + Missense_Mutation SNP A A T novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 238929448 238929448 TRAF3IP1 2 A A T 2 DEFB129 140881 broad.mit.edu 36 20 158247 158247 + Silent SNP C C A novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 158247 158247 DEFB129 20 C C A 21 NDRG3 57446 broad.mit.edu 36 20 34715422 34715422 + Missense_Mutation SNP G G T novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 34715422 34715422 NDRG3 20 G G T 44 TMPRSS15 5651 broad.mit.edu 36 21 18637753 18637753 + Missense_Mutation SNP T T A novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 18637753 18637753 TMPRSS15 21 T T A 64 KRTAP12-4 386684 broad.mit.edu 36 21 44898949 44898949 + Missense_Mutation SNP G G A novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 44898949 44898949 KRTAP12-4 21 G G A 44 ZNF280A 129025 broad.mit.edu 36 22 21199652 21199652 + Missense_Mutation SNP C C T novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 21199652 21199652 ZNF280A 22 C C T 25 MYO18B 84700 broad.mit.edu 36 22 24752607 24752607 + Missense_Mutation SNP C C A novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 24752607 24752607 MYO18B 22 C C A 18 ANO10 55129 broad.mit.edu 36 3 43593194 43593194 + Missense_Mutation SNP A A C novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 43593194 43593194 ANO10 3 A A C 9 VPRBP 9730 broad.mit.edu 36 3 51492812 51492812 + Missense_Mutation SNP G G A novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 51492812 51492812 VPRBP 3 G G A 48 GPR15 2838 broad.mit.edu 36 3 99734580 99734580 + Missense_Mutation SNP C C A novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 99734580 99734580 GPR15 3 C C A 20 TMEM45A 55076 broad.mit.edu 36 3 101770431 101770431 + Missense_Mutation SNP A A T novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 101770431 101770431 TMEM45A 3 A A T 6 GOLGB1 2804 broad.mit.edu 36 3 122898824 122898824 + Missense_Mutation SNP T T G novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 122898824 122898824 GOLGB1 3 T T G 55 COL6A6 131873 broad.mit.edu 36 3 131783252 131783252 + Silent SNP T T A novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 131783252 131783252 COL6A6 3 T T A 54 PCOLCE2 26577 broad.mit.edu 36 3 144025146 144025146 + Silent SNP A A G novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 144025146 144025146 PCOLCE2 3 A A G 2 IGSF10 285313 broad.mit.edu 36 3 152649167 152649167 + Missense_Mutation SNP T T C novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 152649167 152649167 IGSF10 3 T T C 63 FGF12 2257 broad.mit.edu 36 3 193608562 193608562 + Missense_Mutation SNP A A G novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 193608562 193608562 FGF12 3 A A G 2 ZDHHC19 131540 broad.mit.edu 36 3 197409615 197409615 + Missense_Mutation SNP G G A novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 197409615 197409615 ZDHHC19 3 G G A 42 GNRHR 2798 broad.mit.edu 36 4 68302523 68302523 + Silent SNP A A G novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 68302523 68302523 GNRHR 4 A A G 3 MMAA 166785 broad.mit.edu 36 4 146794600 146794600 + Missense_Mutation SNP T T C novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 146794600 146794600 MMAA 4 T T C 50 PDLIM3 27295 broad.mit.edu 36 4 186666465 186666465 + Missense_Mutation SNP C C G novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 186666465 186666465 PDLIM3 4 C C G 22 FAM105B 90268 broad.mit.edu 36 5 14734611 14734611 + Silent SNP G G T novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 14734611 14734611 FAM105B 5 G G T 42 RICTOR 253260 broad.mit.edu 36 5 38985589 38985589 + Missense_Mutation SNP G G A novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 38985589 38985589 RICTOR 5 G G A 41 TRIM36 55521 broad.mit.edu 36 5 114497705 114497705 + Missense_Mutation SNP C C T novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 114497705 114497705 TRIM36 5 C C T 20 CHSY3 337876 broad.mit.edu 36 5 129549287 129549287 + Missense_Mutation SNP A A T novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 129549287 129549287 CHSY3 5 A A T 15 GLRA1 2741 broad.mit.edu 36 5 151214884 151214884 + Missense_Mutation SNP C C A novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 151214884 151214884 GLRA1 5 C C A 28 OR12D3 81797 broad.mit.edu 36 6 29450706 29450706 + Missense_Mutation SNP A A T novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 29450706 29450706 OR12D3 6 A A T 7 GABBR1 2550 broad.mit.edu 36 6 29697547 29697547 + Silent SNP T T A novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 29697547 29697547 GABBR1 6 T T A 58 VPS52 6293 broad.mit.edu 36 6 33344342 33344342 + Missense_Mutation SNP G G C novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 33344342 33344342 VPS52 6 G G C 42 TAPBP 6892 broad.mit.edu 36 6 33380127 33380127 + Missense_Mutation SNP G G A novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 33380127 33380127 TAPBP 6 G G A 40 GFRAL 389400 broad.mit.edu 36 6 55324010 55324010 + Missense_Mutation SNP G G T novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 55324010 55324010 GFRAL 6 G G T 41 DST 667 broad.mit.edu 36 6 56579920 56579920 + Missense_Mutation SNP G G T novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 56579920 56579920 DST 6 G G T 47 EPHA7 2045 broad.mit.edu 36 6 94177450 94177450 + Missense_Mutation SNP C C T novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 94177450 94177450 EPHA7 6 C C T 30 VNN1 8876 broad.mit.edu 36 6 133046083 133046083 + Silent SNP C C T novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 133046083 133046083 VNN1 6 C C T 30 ZNF680 340252 broad.mit.edu 36 7 63642220 63642220 + Missense_Mutation SNP G G T novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 63642220 63642220 ZNF680 7 G G T 42 ELN 2006 broad.mit.edu 36 7 73109929 73109929 + Missense_Mutation SNP G G T novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 73109929 73109929 ELN 7 G G T 34 CLCN1 1180 broad.mit.edu 36 7 142729031 142729031 + Missense_Mutation SNP G G T novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 142729031 142729031 CLCN1 7 G G T 43 HMBOX1 79618 broad.mit.edu 36 8 28932300 28932300 + Missense_Mutation SNP C C G novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 28932300 28932300 HMBOX1 8 C C G 19 MYST3 7994 broad.mit.edu 36 8 41924575 41924575 + Missense_Mutation SNP C C T novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 41924575 41924575 MYST3 8 C C T 17 SLC20A2 6575 broad.mit.edu 36 8 42406894 42406894 + Missense_Mutation SNP C C A novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 42406894 42406894 SLC20A2 8 C C A 26 PLEKHF2 79666 broad.mit.edu 36 8 96236166 96236166 + Missense_Mutation SNP G G A novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 96236166 96236166 PLEKHF2 8 G G A 45 DEPDC6 64798 broad.mit.edu 36 8 121130995 121130995 + Splice_Site_SNP SNP G G T novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Splice_Site_SNP SNP 121130995 121130995 DEPDC6 8 G G T 35 KIFC2 90990 broad.mit.edu 36 8 145665712 145665712 + Silent SNP A A C novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 145665712 145665712 KIFC2 8 A A C 7 DFNB31 25861 broad.mit.edu 36 9 116306424 116306424 + Missense_Mutation SNP G G C novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 116306424 116306424 DFNB31 9 G G C 37 RXRA 6256 broad.mit.edu 36 9 136465823 136465823 + Missense_Mutation SNP A A G novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 136465823 136465823 RXRA 9 A A G 16 SEC16A 9919 broad.mit.edu 36 9 138489835 138489835 + Missense_Mutation SNP G G A novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 138489835 138489835 SEC16A 9 G G A 34 CXorf23 256643 broad.mit.edu 36 X 19893693 19893693 + Missense_Mutation SNP T T C novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 19893693 19893693 CXorf23 23 T T C 61 KLF8 11279 broad.mit.edu 36 X 56308437 56308437 + Missense_Mutation SNP G G A novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 56308437 56308437 KLF8 23 G G A 34 RGAG4 340526 broad.mit.edu 36 X 71267780 71267780 + Silent SNP G G A novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Silent SNP 71267780 71267780 RGAG4 23 G G A 46 MAGEC1 9947 broad.mit.edu 36 X 140823425 140823425 + Missense_Mutation SNP T T A novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 140823425 140823425 MAGEC1 23 T T A 54 HCFC1 3054 broad.mit.edu 36 X 152889377 152889377 + Missense_Mutation SNP G G A novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 152889377 152889377 HCFC1 23 G G A 39 CUBN 8029 broad.mit.edu 36 10 16995954 16995954 + Frame_Shift_Del DEL A - A novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad Frame_Shift_Del DEL 16995954 16995954 CUBN 10 A - A 11 TLE2 7089 broad.mit.edu 36 19 2979803 2979804 + Splice_Site_Ins INS - G - novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad Splice_Site_Ins INS 2979803 2979804 TLE2 19 - G - 55 ZNF264 9422 broad.mit.edu 36 19 62416080 62416096 + Frame_Shift_Del DEL AAATATTTTGCCAGAGG - AAATATTTTGCCAGAGG novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad Frame_Shift_Del DEL 62416080 62416096 ZNF264 19 AAATATTTTGCCAGAGG - AAATATTTTGCCAGAGG 5 MYO7B 4648 broad.mit.edu 36 2 128082867 128082867 + Frame_Shift_Del DEL G - G novel Unknown TCGA-09-2049-01 TCGA-09-2049-10 Unknown Unknown Unknown Phase_I Capture --- Illumina GAIIx Broad Frame_Shift_Del DEL 128082867 128082867 MYO7B 2 G - G 39