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 NTF3 4908 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 12 5603654 5603654 + Silent SNP C C T TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 GGACACCGAACTGCTGCGACA 0.632 30 38 PA2G4 5036 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 12 56504240 56504240 + Silent SNP C C T TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 TGGATGTTCTCGTCAGCTCAG 0.403 29 38 FGF14 2259 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 13 103053948 103053948 + Silent SNP C C T TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 GCTTAGACACCCTGAGAAAGA 0.413 22 55 OR11G2 390439 hgsc.bcm.edu;broad.mit.edu 37 14 20666311 20666311 + Nonsense_Mutation SNP A A T TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 AGCTGGGAGAAGAAAGGCTTT 0.517 10 159 MYH6 4624 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 14 23855703 23855703 + Missense_Mutation SNP G G A TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 TCCACCACCCGCTGGTGGTTG 0.592 53 112 PTPN21 11099 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 14 88938593 88938593 + Missense_Mutation SNP T T C TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 CTCACCTTAATATGTGATGCG 0.373 23 19 MYO9A 4649 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 15 72122614 72122614 + Silent SNP T T C TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 CAGGAGACGATGGACCTGGAT 0.468 42 35 LRRK1 79705 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 15 101555560 101555560 + Missense_Mutation SNP T T G TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 ACGAAGCGTATTGCCTTTTTC 0.517 8 10 SLC35G6 643664 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 17 7385399 7385399 + Silent SNP G G A TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 AGTGCTGCCAGCCCTCTGATG 0.662 29 44 USH1G 124590 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 17 72916252 72916252 + Missense_Mutation SNP C C T TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 GTGCCTTCGCCGCCCTGCTTG 0.692 24 33 PPP4R1 9989 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 18 9549244 9549244 + Silent SNP G G A TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 GCACTCGCACGTTAGGAACCC 0.478 61 67 SH2D2A 9047 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 1 156785835 156785835 + Missense_Mutation SNP A A G TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 CCTGCGGGTCATGTCTGTGAT 0.612 13 10 C1orf106 0 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 1 200880752 200880752 + Silent SNP C C T TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 CTGACGTCTCCAGCATCTCCC 0.667 58 87 OR1C1 26188 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 1 247921335 247921335 + Missense_Mutation SNP G G A TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 GTGGCAAATCGCCACATATCT 0.502 26 19 CD93 22918 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 20 23065004 23065004 + Missense_Mutation SNP C C T TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 CTTCGCTCTCCGCTTGCGATA 0.577 69 91 CHMP4B 128866 hgsc.bcm.edu;broad.mit.edu 37 20 32439895 32439895 + Missense_Mutation SNP G G A TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 TGAGCTCATGGCGGAATTAGA 0.493 11 122 SON 6651 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 21 34921914 34921914 + Missense_Mutation SNP A A G TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 aaagaaaaggaaaaaaaaTAT 0.303 13 17 LZTR1 8216 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 22 21348256 21348256 + Missense_Mutation SNP G G A TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 GTCACAGCGCGGAGCCGCTGG 0.647 13 18 FBLN1 2192 hgsc.bcm.edu;broad.mit.edu 37 22 45931164 45931164 + Missense_Mutation SNP C C A TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 CGCTGCCGACCCAAGCTACAG 0.483 23 42 CYP26B1 56603 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 2 72360210 72360210 + Missense_Mutation SNP C C T TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 CGTGAACAGGCGCATGACCTC 0.677 17 20 IDH1 3417 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 2 209113112 209113112 + Missense_Mutation SNP C C T rs121913500 TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 ATAAGCATGACGACCTATGAT 0.393 24 43 SLC6A6 6533 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 3 14508027 14508027 + Missense_Mutation SNP G G A TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 CTTGCAGGTCGTCTACTTCAC 0.602 30 44 ATP10D 57205 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 4 47556756 47556756 + Missense_Mutation SNP T T C TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 ACAGACGTGGTACCAGACACC 0.363 29 34 CHD1 1105 hgsc.bcm.edu;broad.mit.edu 37 5 98207864 98207864 + Missense_Mutation SNP A A G rs150956514 by1000genomes TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 GCCCCAGTCTATATCAAAATG 0.348 5 76 PHF15 23338 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 5 133914911 133914911 + Silent SNP C C T TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 GGGAGATGAGCGACTCAGATG 0.617 28 30 PITX1 5307 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 5 134364859 134364859 + Silent SNP G G A TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 GGCTCTTGGCGGCCCAGTTGT 0.632 16 45 CUL7 9820 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 6 43010826 43010826 + Missense_Mutation SNP C C T TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 TTCTCCACCACGGCCCGCCAA 0.602 13 24 SYNE1 23345 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 6 152469200 152469200 + Missense_Mutation SNP C C T rs148008634 byFrequency TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 AACAGCTCCCCGGAGGTAGAA 0.493 14 25 WIPI2 26100 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 7 5256279 5256279 + Missense_Mutation SNP C C T TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 GAGACGCCTCCAAACCCTGCA 0.463 16 23 NPVF 64111 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 7 25266332 25266332 + Missense_Mutation SNP G G C TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 TGAATGCATGGATCCTTGACA 0.468 62 95 HEPACAM2 253012 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 7 92825189 92825189 + Nonsense_Mutation SNP G G T TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 CATATATTCCGAAGTCATCCA 0.383 30 45 PPP1R42 286187 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 8 67923054 67923054 + Missense_Mutation SNP T T A TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 ATATTCAATATACAGAGGGAT 0.308 24 26 OSR2 116039 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 8 99962883 99962883 + Splice_Site SNP G G A TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 TTGATTTTCAGATACATCCAT 0.358 6 8 KIAA0020 9933 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 9 2829886 2829886 + Missense_Mutation SNP C C T TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 TTCCGCATGCCGCAGCATCTT 0.433 57 125 PTGES2 80142 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 9 130885212 130885212 + Splice_Site SNP C C T TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 CACACACTTGCCTGCTCTTGA 0.642 17 22 HCCS 3052 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 X 11133053 11133053 + Missense_Mutation SNP C C A TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 CGTGGAGTGTCCCATTAGGGG 0.498 44 61 GABRE 2564 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 X 151123361 151123361 + Missense_Mutation SNP C C T TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 TCACAGCAGGCCAGCTTGGAG 0.617 21 22 ATP2B3 492 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 X 152845601 152845601 + Missense_Mutation SNP C C T TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 GAACGAGGAGCGCCTCCGGGC 0.592 70 71 GLIS3 169792 broad.mit.edu;ucsc.edu 37 9 4286155 4286155 + Missense_Mutation SNP G G A TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 CCATTGGTGAGCATTTGTCTC 0.562 33 50 GPR123 84435 broad.mit.edu;ucsc.edu 37 10 134898495 134898495 + Silent SNP T T C TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 AACAGGAACGTATCCTCCGCC 0.532 48 74 AIFM2 84883 broad.mit.edu;ucsc.edu 37 10 71880314 71880314 + Silent SNP C C T TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 CCACTCCAGCCGAGCCTCCTC 0.522 38 77 SLC6A19 340024 broad.mit.edu;hgsc.bcm.edu 37 5 1216915 1216915 + Frame_Shift_Del DEL C C - TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 AACATCCTGACCCTCATCAAC 0.657 48 67 CIC 23152 hgsc.bcm.edu 37 19 42794103 42794103 + Splice_Site SNP G G A TCGA-DU-5874-01A-11D-1705-08 TCGA-DU-5874-10A-01D-1705-08 Untested Somatic Phase_I WXS none Illumina GAIIx 85d915b8-0184-4ec7-93ad-e9ffa2f5743b 0b75be09-bdd0-435e-84ad-0624c781a430 AGGGCAACAAGGTGAGGGCTT 0.592 6 0