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 Tumor_Sample_UUID Matched_Norm_Sample_UUID ref_context gc_content t_alt_count t_ref_count CDH23 64072 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 10 73548698 73548698 + Splice_Site SNP A A G TCGA-FG-8188-01A-11D-2253-08 TCGA-FG-8188-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 4fec960b-9288-453a-8c65-5b3e04b61550 c145c9e4-6e4d-4f21-a264-4bbb8a82930a CCCTTGCAGGATTATGACTTG 0.547 17 31 APLNR 187 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 11 57003348 57003348 + Silent SNP A A G TCGA-FG-8188-01A-11D-2253-08 TCGA-FG-8188-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 4fec960b-9288-453a-8c65-5b3e04b61550 c145c9e4-6e4d-4f21-a264-4bbb8a82930a AGTCAACCACAAGGGTCTCCT 0.612 25 40 NADSYN1 55191 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 11 71166162 71166162 + Missense_Mutation SNP A A G TCGA-FG-8188-01A-11D-2253-08 TCGA-FG-8188-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 4fec960b-9288-453a-8c65-5b3e04b61550 c145c9e4-6e4d-4f21-a264-4bbb8a82930a ACAGGTATTGAAATTGCCAAA 0.438 22 53 RYR3 6263 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 15 33893721 33893721 + Silent SNP C C G TCGA-FG-8188-01A-11D-2253-08 TCGA-FG-8188-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 4fec960b-9288-453a-8c65-5b3e04b61550 c145c9e4-6e4d-4f21-a264-4bbb8a82930a GAAACCTACTCCTGCAGACAC 0.512 26 33 KIAA0556 23247 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 16 27786309 27786309 + Silent SNP G G A TCGA-FG-8188-01A-11D-2253-08 TCGA-FG-8188-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 4fec960b-9288-453a-8c65-5b3e04b61550 c145c9e4-6e4d-4f21-a264-4bbb8a82930a TGGAGGGTGTGGGCGGGGACG 0.627 16 87 TP53 7157 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 17 7577121 7577121 + Missense_Mutation SNP G G A rs121913343 TCGA-FG-8188-01A-11D-2253-08 TCGA-FG-8188-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 4fec960b-9288-453a-8c65-5b3e04b61550 c145c9e4-6e4d-4f21-a264-4bbb8a82930a GCACAAACACGCACCTCAAAG 0.542 12 14 VPS13D 55187 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 1 12461735 12461735 + Silent SNP T T C TCGA-FG-8188-01A-11D-2253-08 TCGA-FG-8188-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 4fec960b-9288-453a-8c65-5b3e04b61550 c145c9e4-6e4d-4f21-a264-4bbb8a82930a TAAGTTTCTTTGGCTACGATC 0.373 49 73 SF3A3 10946 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 1 38435137 38435137 + Splice_Site SNP C C A TCGA-FG-8188-01A-11D-2253-08 TCGA-FG-8188-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 4fec960b-9288-453a-8c65-5b3e04b61550 c145c9e4-6e4d-4f21-a264-4bbb8a82930a AGGGAATAGGCTAAAAAAGAA 0.418 15 34 COL9A2 1298 hgsc.bcm.edu;broad.mit.edu 37 1 40782860 40782860 + Missense_Mutation SNP C C T TCGA-FG-8188-01A-11D-2253-08 TCGA-FG-8188-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 4fec960b-9288-453a-8c65-5b3e04b61550 c145c9e4-6e4d-4f21-a264-4bbb8a82930a GAGGCCGTAGCGGCGGCCATG 0.701 11 5 KRTAP10-12 386685 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 21 46117134 46117134 + Silent SNP C C T TCGA-FG-8188-01A-11D-2253-08 TCGA-FG-8188-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 4fec960b-9288-453a-8c65-5b3e04b61550 c145c9e4-6e4d-4f21-a264-4bbb8a82930a TCTGCTCCAGCGACCTGAGCT 0.642 37 210 PCYOX1 51449 hgsc.bcm.edu;broad.mit.edu 37 2 70504434 70504434 + Silent SNP C C T TCGA-FG-8188-01A-11D-2253-08 TCGA-FG-8188-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 4fec960b-9288-453a-8c65-5b3e04b61550 c145c9e4-6e4d-4f21-a264-4bbb8a82930a CAGCCCACAACGCTGCACTCC 0.468 16 297 IDH1 3417 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 2 209113112 209113112 + Missense_Mutation SNP C C T rs121913500 TCGA-FG-8188-01A-11D-2253-08 TCGA-FG-8188-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 4fec960b-9288-453a-8c65-5b3e04b61550 c145c9e4-6e4d-4f21-a264-4bbb8a82930a ATAAGCATGACGACCTATGAT 0.393 51 77 GRM7 2917 hgsc.bcm.edu;broad.mit.edu 37 3 7620372 7620372 + Silent SNP T T C TCGA-FG-8188-01A-11D-2253-08 TCGA-FG-8188-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 4fec960b-9288-453a-8c65-5b3e04b61550 c145c9e4-6e4d-4f21-a264-4bbb8a82930a GGGCTGTGATTCCTGTCTTCC 0.552 10 129 UBXN7 26043 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 3 196096372 196096372 + Missense_Mutation SNP T T A TCGA-FG-8188-01A-11D-2253-08 TCGA-FG-8188-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 4fec960b-9288-453a-8c65-5b3e04b61550 c145c9e4-6e4d-4f21-a264-4bbb8a82930a TTCCTCACTGTCATGATAAAC 0.363 14 57 PIK3R1 5295 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 5 67569270 67569270 + Silent SNP G G A TCGA-FG-8188-01A-11D-2253-08 TCGA-FG-8188-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 4fec960b-9288-453a-8c65-5b3e04b61550 c145c9e4-6e4d-4f21-a264-4bbb8a82930a ACATTGCCCCGCCTCTTCTTA 0.443 35 433 PIK3R1 5295 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 5 67591086 67591086 + Missense_Mutation SNP A A G TCGA-FG-8188-01A-11D-2253-08 TCGA-FG-8188-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 4fec960b-9288-453a-8c65-5b3e04b61550 c145c9e4-6e4d-4f21-a264-4bbb8a82930a CGAGAAATTGACAAACGTATG 0.358 27 104 CRHBP 1393 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 5 76264637 76264637 + Missense_Mutation SNP G G A TCGA-FG-8188-01A-11D-2253-08 TCGA-FG-8188-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 4fec960b-9288-453a-8c65-5b3e04b61550 c145c9e4-6e4d-4f21-a264-4bbb8a82930a TTTGAGTATCGTCAGCTGGAG 0.458 24 70 DEFB112 245915 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 6 50011409 50011409 + Missense_Mutation SNP T T C TCGA-FG-8188-01A-11D-2253-08 TCGA-FG-8188-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 4fec960b-9288-453a-8c65-5b3e04b61550 c145c9e4-6e4d-4f21-a264-4bbb8a82930a TCTTGCACAGTATGAAATCCT 0.433 39 86 TFAP2D 83741 hgsc.bcm.edu;broad.mit.edu 37 6 50696680 50696680 + Missense_Mutation SNP G G A TCGA-FG-8188-01A-11D-2253-08 TCGA-FG-8188-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 4fec960b-9288-453a-8c65-5b3e04b61550 c145c9e4-6e4d-4f21-a264-4bbb8a82930a GTAAAGAGGCGCCTCTCCCCA 0.473 7 115 BACH2 60468 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 6 90661005 90661005 + Nonsense_Mutation SNP G G A TCGA-FG-8188-01A-11D-2253-08 TCGA-FG-8188-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 4fec960b-9288-453a-8c65-5b3e04b61550 c145c9e4-6e4d-4f21-a264-4bbb8a82930a CTTTTAATCTGCCCCCTGGCA 0.532 51 64 SLC7A2 6542 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 8 17396342 17396342 + Missense_Mutation SNP A A G TCGA-FG-8188-01A-11D-2253-08 TCGA-FG-8188-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 4fec960b-9288-453a-8c65-5b3e04b61550 c145c9e4-6e4d-4f21-a264-4bbb8a82930a GAATGAAGATAGAAACAAGTG 0.388 20 77 RB1CC1 9821 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 8 53570054 53570054 + Missense_Mutation SNP C C T TCGA-FG-8188-01A-11D-2253-08 TCGA-FG-8188-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 4fec960b-9288-453a-8c65-5b3e04b61550 c145c9e4-6e4d-4f21-a264-4bbb8a82930a ACATTTGTATCCTGCATTCGT 0.403 37 111 ACOT9 23597 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 X 23748659 23748659 + Missense_Mutation SNP G G T TCGA-FG-8188-01A-11D-2253-08 TCGA-FG-8188-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 4fec960b-9288-453a-8c65-5b3e04b61550 c145c9e4-6e4d-4f21-a264-4bbb8a82930a AAGCTGTCAAGATCCTCAAGA 0.343 50 16 GPC4 2239 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 X 132458383 132458383 + Silent SNP G G A TCGA-FG-8188-01A-11D-2253-08 TCGA-FG-8188-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 4fec960b-9288-453a-8c65-5b3e04b61550 c145c9e4-6e4d-4f21-a264-4bbb8a82930a GCTCCAGGAGGCGAGCCCAGA 0.468 24 98 FMR1 2332 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 X 147010283 147010283 + Missense_Mutation SNP T T C TCGA-FG-8188-01A-11D-2253-08 TCGA-FG-8188-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 4fec960b-9288-453a-8c65-5b3e04b61550 c145c9e4-6e4d-4f21-a264-4bbb8a82930a AAAGATACTTTCCATAAGATC 0.368 16 97 RARS2 57038 broad.mit.edu;ucsc.edu 37 6 88239302 88239302 + Missense_Mutation SNP A A C TCGA-FG-8188-01A-11D-2253-08 TCGA-FG-8188-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 4fec960b-9288-453a-8c65-5b3e04b61550 c145c9e4-6e4d-4f21-a264-4bbb8a82930a CAACTTTAAGACCTCTTGAGA 0.308 20 56 TP53 7157 broad.mit.edu;ucsc.edu 37 17 7578457 7578457 + Missense_Mutation SNP C C T TCGA-FG-8188-01A-11D-2253-08 TCGA-FG-8188-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 4fec960b-9288-453a-8c65-5b3e04b61550 c145c9e4-6e4d-4f21-a264-4bbb8a82930a GGCCATGGCGCGGACGCGGGT 0.627 51 72 TENM3 55714 broad.mit.edu;ucsc.edu 37 4 183609326 183609326 + Silent SNP T T C TCGA-FG-8188-01A-11D-2253-08 TCGA-FG-8188-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 4fec960b-9288-453a-8c65-5b3e04b61550 c145c9e4-6e4d-4f21-a264-4bbb8a82930a TAGAAATATGTTCTGTGGACT 0.527 67 114 PRKDC 5591 broad.mit.edu;ucsc.edu 37 8 48706915 48706915 + Missense_Mutation SNP T T C TCGA-FG-8188-01A-11D-2253-08 TCGA-FG-8188-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 4fec960b-9288-453a-8c65-5b3e04b61550 c145c9e4-6e4d-4f21-a264-4bbb8a82930a CTTTCGCTGCTTATGATGAAG 0.423 9 14 DEFB113 245927 broad.mit.edu;ucsc.edu 37 6 49936551 49936551 + Missense_Mutation SNP C C T TCGA-FG-8188-01A-11D-2253-08 TCGA-FG-8188-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 4fec960b-9288-453a-8c65-5b3e04b61550 c145c9e4-6e4d-4f21-a264-4bbb8a82930a CTTTTTCTCTCTGCAACTTCT 0.383 4 28 SLC9A2 6549 broad.mit.edu;ucsc.edu 37 2 103324661 103324661 + Missense_Mutation SNP C C G TCGA-FG-8188-01A-11D-2253-08 TCGA-FG-8188-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 4fec960b-9288-453a-8c65-5b3e04b61550 c145c9e4-6e4d-4f21-a264-4bbb8a82930a CTTGCCAGAACAGTTCTCCAA 0.537 29 147 MKRN1 23608 broad.mit.edu;hgsc.bcm.edu 37 7 140154921 140154922 + Frame_Shift_Del DEL TC TC - rs1062780 TCGA-FG-8188-01A-11D-2253-08 TCGA-FG-8188-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 4fec960b-9288-453a-8c65-5b3e04b61550 c145c9e4-6e4d-4f21-a264-4bbb8a82930a GTTCCCACTTTCTGTCTCTGTG 0.485 80 186 ATRX 546 broad.mit.edu;hgsc.bcm.edu 37 X 76939473 76939474 + Frame_Shift_Del DEL TT TT - TCGA-FG-8188-01A-11D-2253-08 TCGA-FG-8188-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 4fec960b-9288-453a-8c65-5b3e04b61550 c145c9e4-6e4d-4f21-a264-4bbb8a82930a TATTTTTCTCTTTGTTTACAGC 0.361 79 35