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 TMCO2 127391 broad.mit.edu 36 1 40489833 40489833 + Missense_Mutation SNP G G C novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 40489833 40489833 TMCO2 1 G G C 35 RPS8 6202 broad.mit.edu 36 1 45016024 45016024 + Silent SNP G G T novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 45016024 45016024 RPS8 1 G G T 47 OSBPL9 114883 broad.mit.edu 36 1 51952316 51952316 + Missense_Mutation SNP C C A novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 51952316 51952316 OSBPL9 1 C C A 32 EPS8L3 79574 broad.mit.edu 36 1 110103833 110103833 + Missense_Mutation SNP A A G novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 110103833 110103833 EPS8L3 1 A A G 4 OLFML2B 25903 broad.mit.edu 36 1 160236674 160236675 + Missense_Mutation DNP CC CC AA novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation DNP 160236674 160236675 OLFML2B 1 CC CC AA 26 SLC26A9 115019 broad.mit.edu 36 1 204171506 204171506 + Missense_Mutation SNP A A T novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 204171506 204171506 SLC26A9 1 A A T 8 HLX 3142 broad.mit.edu 36 1 219119876 219119876 + Silent SNP G G T novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 219119876 219119876 HLX 1 G G T 39 LRRC18 474354 broad.mit.edu 36 10 49792137 49792137 + Missense_Mutation SNP T T A novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 49792137 49792137 LRRC18 10 T T A 52 BMPR1A 657 broad.mit.edu 36 10 88641943 88641943 + Missense_Mutation SNP G G A novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 88641943 88641943 BMPR1A 10 G G A 45 OR5J2 282775 broad.mit.edu 36 11 55701170 55701170 + Silent SNP C C G novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 55701170 55701170 OR5J2 11 C C G 24 STIP1 10963 broad.mit.edu 36 11 63718643 63718643 + Nonsense_Mutation SNP C C T novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 63718643 63718643 STIP1 11 C C T 19 ACTN3 89 broad.mit.edu 36 11 66087148 66087148 + Missense_Mutation SNP C C A novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 66087148 66087148 ACTN3 11 C C A 23 SLC36A4 120103 broad.mit.edu 36 11 92540844 92540844 + Missense_Mutation SNP C C G novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 92540844 92540844 SLC36A4 11 C C G 29 CD163L1 283316 broad.mit.edu 36 12 7413464 7413464 + Silent SNP G G A novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 7413464 7413464 CD163L1 12 G G A 34 CNTN1 1272 broad.mit.edu 36 12 39694366 39694366 + Missense_Mutation SNP C C T novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 39694366 39694366 CNTN1 12 C C T 27 VDR 7421 broad.mit.edu 36 12 46537578 46537578 + Silent SNP G G C novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 46537578 46537578 VDR 12 G G C 35 PAH 5053 broad.mit.edu 36 12 101770838 101770838 + Nonsense_Mutation SNP G G A rs5030846 Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 101770838 101770838 PAH 12 G G A 39 CRY1 1407 broad.mit.edu 36 12 105917967 105917967 + Silent SNP T T C novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 105917967 105917967 CRY1 12 T T C 58 OR4K15 81127 broad.mit.edu 36 14 19513894 19513894 + Missense_Mutation SNP T T A novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 19513894 19513894 OR4K15 14 T T A 62 PROX2 283571 broad.mit.edu 36 14 74399290 74399290 + Nonsense_Mutation SNP A A T novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 74399290 74399290 PROX2 14 A A T 5 TTBK2 146057 broad.mit.edu 36 15 40831560 40831560 + Nonsense_Mutation SNP C C T novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 40831560 40831560 TTBK2 15 C C T 21 ISL2 64843 broad.mit.edu 36 15 74417365 74417365 + Splice_Site_SNP SNP T T C novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Splice_Site_SNP SNP 74417365 74417365 ISL2 15 T T C 59 NTRK3 4916 broad.mit.edu 36 15 86277384 86277384 + Missense_Mutation SNP A A T novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 86277384 86277384 NTRK3 15 A A T 4 OR2C1 4993 broad.mit.edu 36 16 3346250 3346250 + Silent SNP C C T novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 3346250 3346250 OR2C1 16 C C T 32 JPH3 57338 broad.mit.edu 36 16 86235798 86235798 + Missense_Mutation SNP G G T novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 86235798 86235798 JPH3 16 G G T 34 STAT3 6774 broad.mit.edu 36 17 37752228 37752228 + Missense_Mutation SNP G G C novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 37752228 37752228 STAT3 17 G G C 42 FZD2 2535 broad.mit.edu 36 17 39991386 39991386 + Silent SNP A A G novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 39991386 39991386 FZD2 17 A A G 15 MGAT5B 146664 broad.mit.edu 36 17 72389851 72389851 + Missense_Mutation SNP G G A novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 72389851 72389851 MGAT5B 17 G G A 39 SUPT5H 6829 broad.mit.edu 36 19 44635845 44635845 + Nonsense_Mutation SNP G G T novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Nonsense_Mutation SNP 44635845 44635845 SUPT5H 19 G G T 33 CEACAM1 634 broad.mit.edu 36 19 47717295 47717295 + Missense_Mutation SNP A A C novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 47717295 47717295 CEACAM1 19 A A C 7 SYMPK 8189 broad.mit.edu 36 19 51030228 51030228 + Silent SNP C C T novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 51030228 51030228 SYMPK 19 C C T 28 ZNF415 55786 broad.mit.edu 36 19 58311415 58311415 + Missense_Mutation SNP A A C novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 58311415 58311415 ZNF415 19 A A C 8 PRKCE 5581 broad.mit.edu 36 2 46082066 46082066 + Silent SNP C C T novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 46082066 46082066 PRKCE 2 C C T 18 VWA3B 200403 broad.mit.edu 36 2 98286608 98286608 + Silent SNP T T A novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 98286608 98286608 VWA3B 2 T T A 54 TTN 7273 broad.mit.edu 36 2 179107331 179107331 + Missense_Mutation SNP C C G novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 179107331 179107331 TTN 2 C C G 32 DIDO1 11083 broad.mit.edu 36 20 60983697 60983697 + Silent SNP G G A novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 60983697 60983697 DIDO1 20 G G A 40 NPBWR2 2832 broad.mit.edu 36 20 62208521 62208521 + Silent SNP G G T novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 62208521 62208521 NPBWR2 20 G G T 35 SLC26A6 65010 broad.mit.edu 36 3 48645960 48645960 + Missense_Mutation SNP G G T novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 48645960 48645960 SLC26A6 3 G G T 38 C3orf22 152065 broad.mit.edu 36 3 127753558 127753558 + Missense_Mutation SNP C C A novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 127753558 127753558 C3orf22 3 C C A 18 ACAD11 84129 broad.mit.edu 36 3 133846346 133846346 + Silent SNP A A G novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 133846346 133846346 ACAD11 3 A A G 9 KY 339855 broad.mit.edu 36 3 135822366 135822366 + Silent SNP G G A novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 135822366 135822366 KY 3 G G A 40 KCNAB1 7881 broad.mit.edu 36 3 157714893 157714893 + Missense_Mutation SNP G G A novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 157714893 157714893 KCNAB1 3 G G A 48 ANKRD17 26057 broad.mit.edu 36 4 74238557 74238557 + Missense_Mutation SNP C C T novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 74238557 74238557 ANKRD17 4 C C T 17 GALNTL6 442117 broad.mit.edu 36 4 173967244 173967244 + Silent SNP C C A novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 173967244 173967244 GALNTL6 4 C C A 29 BTN3A1 11119 broad.mit.edu 36 6 26514145 26514145 + Missense_Mutation SNP C C T novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 26514145 26514145 BTN3A1 6 C C T 26 BAT2 7916 broad.mit.edu 36 6 31703919 31703919 + Silent SNP G G T novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 31703919 31703919 BAT2 6 G G T 47 SYNGAP1 8831 broad.mit.edu 36 6 33507998 33507998 + Silent SNP C C T novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 33507998 33507998 SYNGAP1 6 C C T 30 PKHD1 5314 broad.mit.edu 36 6 51809160 51809160 + Splice_Site_SNP SNP C C A novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Splice_Site_SNP SNP 51809160 51809160 PKHD1 6 C C A 18 BEND3 57673 broad.mit.edu 36 6 107526493 107526493 + Silent SNP C C G novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 107526493 107526493 BEND3 6 C C G 25 PNLDC1 154197 broad.mit.edu 36 6 160160303 160160303 + Silent SNP G G C novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 160160303 160160303 PNLDC1 6 G G C 43 HIP1 3092 broad.mit.edu 36 7 75021418 75021418 + Silent SNP G G C novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 75021418 75021418 HIP1 7 G G C 43 FAM180A 389558 broad.mit.edu 36 7 135069408 135069408 + Missense_Mutation SNP G G C novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 135069408 135069408 FAM180A 7 G G C 48 TNKS 8658 broad.mit.edu 36 8 9647523 9647523 + Missense_Mutation SNP C C T novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 9647523 9647523 TNKS 8 C C T 31 LGI3 203190 broad.mit.edu 36 8 22061981 22061981 + Missense_Mutation SNP G G T novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 22061981 22061981 LGI3 8 G G T 36 ANK1 286 broad.mit.edu 36 8 41699886 41699886 + Missense_Mutation SNP G G T novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 41699886 41699886 ANK1 8 G G T 44 CHD7 55636 broad.mit.edu 36 8 61940738 61940738 + Missense_Mutation SNP T T C novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 61940738 61940738 CHD7 8 T T C 58 SLCO5A1 81796 broad.mit.edu 36 8 70747889 70747889 + Missense_Mutation SNP C C G novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 70747889 70747889 SLCO5A1 8 C C G 32 ADAMTSL1 92949 broad.mit.edu 36 9 18896802 18896802 + Missense_Mutation SNP G G T novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 18896802 18896802 ADAMTSL1 9 G G T 48 HAUS6 54801 broad.mit.edu 36 9 19053008 19053008 + Missense_Mutation SNP C C T novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 19053008 19053008 HAUS6 9 C C T 32 NOL6 65083 broad.mit.edu 36 9 33456615 33456615 + Silent SNP C C T novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 33456615 33456615 NOL6 9 C C T 29 CCIN 881 broad.mit.edu 36 9 36160503 36160503 + Missense_Mutation SNP C C A novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 36160503 36160503 CCIN 9 C C A 18 HIATL1 84641 broad.mit.edu 36 9 96247096 96247096 + Silent SNP C C T novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Silent SNP 96247096 96247096 HIATL1 9 C C T 29 USP26 83844 broad.mit.edu 36 X 131987996 131987996 + Missense_Mutation SNP G G C novel Unknown TCGA-59-2354-01 TCGA-59-2354-11 Unknown Unknown Unknown x x --- x Broad Missense_Mutation SNP 131987996 131987996 USP26 23 G G C 33