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 OR10A3 26496 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 11 7960884 7960884 + Missense_Mutation SNP A A C TCGA-DU-A5TR-01A-11D-A289-08 TCGA-DU-A5TR-10A-01D-A289-08 Untested Somatic Phase_I WXS none Illumina GAIIx 56852011-5aeb-486e-bb3b-a18a3dc03c9e cb5a609e-6d17-48f8-b473-8f6f9a8fef59 TTCAGGAGGAACAGGTACATG 0.453 45 43 AMBRA1 55626 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 11 46563768 46563768 + Nonsense_Mutation SNP C C T TCGA-DU-A5TR-01A-11D-A289-08 TCGA-DU-A5TR-10A-01D-A289-08 Untested Somatic Phase_I WXS none Illumina GAIIx 56852011-5aeb-486e-bb3b-a18a3dc03c9e cb5a609e-6d17-48f8-b473-8f6f9a8fef59 GGGGACCTGCCAAGAGGAACT 0.592 18 25 C2CD5 9847 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 12 22643145 22643145 + Missense_Mutation SNP C C A TCGA-DU-A5TR-01A-11D-A289-08 TCGA-DU-A5TR-10A-01D-A289-08 Untested Somatic Phase_I WXS none Illumina GAIIx 56852011-5aeb-486e-bb3b-a18a3dc03c9e cb5a609e-6d17-48f8-b473-8f6f9a8fef59 AAAATGCAGACCTCTTCACTA 0.388 12 32 MPHOSPH9 10198 hgsc.bcm.edu;broad.mit.edu 37 12 123649912 123649912 + Missense_Mutation SNP G G C TCGA-DU-A5TR-01A-11D-A289-08 TCGA-DU-A5TR-10A-01D-A289-08 Untested Somatic Phase_I WXS none Illumina GAIIx 56852011-5aeb-486e-bb3b-a18a3dc03c9e cb5a609e-6d17-48f8-b473-8f6f9a8fef59 CCCTCATCAAGTTCTTTTAAA 0.373 6 84 KLHL28 54813 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 14 45403339 45403339 + Missense_Mutation SNP T T C TCGA-DU-A5TR-01A-11D-A289-08 TCGA-DU-A5TR-10A-01D-A289-08 Untested Somatic Phase_I WXS none Illumina GAIIx 56852011-5aeb-486e-bb3b-a18a3dc03c9e cb5a609e-6d17-48f8-b473-8f6f9a8fef59 GGCAGGACCATACCCACCAAT 0.363 21 45 GANC 2595 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 15 42600494 42600494 + Missense_Mutation SNP T T C TCGA-DU-A5TR-01A-11D-A289-08 TCGA-DU-A5TR-10A-01D-A289-08 Untested Somatic Phase_I WXS none Illumina GAIIx 56852011-5aeb-486e-bb3b-a18a3dc03c9e cb5a609e-6d17-48f8-b473-8f6f9a8fef59 ACATGCAGAATCACACCAACT 0.393 56 103 TP53 7157 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 17 7577121 7577121 + Missense_Mutation SNP G G A rs121913343 TCGA-DU-A5TR-01A-11D-A289-08 TCGA-DU-A5TR-10A-01D-A289-08 Untested Somatic Phase_I WXS none Illumina GAIIx 56852011-5aeb-486e-bb3b-a18a3dc03c9e cb5a609e-6d17-48f8-b473-8f6f9a8fef59 GCACAAACACGCACCTCAAAG 0.542 20 16 ABCA10 10349 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 17 67189276 67189276 + Missense_Mutation SNP G G C TCGA-DU-A5TR-01A-11D-A289-08 TCGA-DU-A5TR-10A-01D-A289-08 Untested Somatic Phase_I WXS none Illumina GAIIx 56852011-5aeb-486e-bb3b-a18a3dc03c9e cb5a609e-6d17-48f8-b473-8f6f9a8fef59 CCTCATCCATGAATTGGGTAC 0.418 27 99 MEX3D 399664 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 19 1556792 1556792 + Silent SNP C C T TCGA-DU-A5TR-01A-11D-A289-08 TCGA-DU-A5TR-10A-01D-A289-08 Untested Somatic Phase_I WXS none Illumina GAIIx 56852011-5aeb-486e-bb3b-a18a3dc03c9e cb5a609e-6d17-48f8-b473-8f6f9a8fef59 GTTCGGCCGCCGACAGGATCT 0.682 28 78 NWD1 284434 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 19 16860397 16860397 + Missense_Mutation SNP G G A rs143471757 byFrequency TCGA-DU-A5TR-01A-11D-A289-08 TCGA-DU-A5TR-10A-01D-A289-08 Untested Somatic Phase_I WXS none Illumina GAIIx 56852011-5aeb-486e-bb3b-a18a3dc03c9e cb5a609e-6d17-48f8-b473-8f6f9a8fef59 TTCTGCGGACGCCAGGAACTC 0.622 33 54 ZNF776 284309 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 19 58264700 58264700 + Missense_Mutation SNP A A G TCGA-DU-A5TR-01A-11D-A289-08 TCGA-DU-A5TR-10A-01D-A289-08 Untested Somatic Phase_I WXS none Illumina GAIIx 56852011-5aeb-486e-bb3b-a18a3dc03c9e cb5a609e-6d17-48f8-b473-8f6f9a8fef59 TTCTAAGCAGACCCTTTCTAT 0.463 40 102 SLC2A5 6518 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 1 9099884 9099884 + Missense_Mutation SNP C C T TCGA-DU-A5TR-01A-11D-A289-08 TCGA-DU-A5TR-10A-01D-A289-08 Untested Somatic Phase_I WXS none Illumina GAIIx 56852011-5aeb-486e-bb3b-a18a3dc03c9e cb5a609e-6d17-48f8-b473-8f6f9a8fef59 CAGCTGCTGGCCGCCCATGAG 0.721 9 24 PRAMEF2 65122 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 1 12919085 12919085 + Missense_Mutation SNP A A G TCGA-DU-A5TR-01A-11D-A289-08 TCGA-DU-A5TR-10A-01D-A289-08 Untested Somatic Phase_I WXS none Illumina GAIIx 56852011-5aeb-486e-bb3b-a18a3dc03c9e cb5a609e-6d17-48f8-b473-8f6f9a8fef59 AAGACGCTTCATCTGGAGCCA 0.562 23 242 CLCA2 9635 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 1 86898153 86898153 + Missense_Mutation SNP T T A TCGA-DU-A5TR-01A-11D-A289-08 TCGA-DU-A5TR-10A-01D-A289-08 Untested Somatic Phase_I WXS none Illumina GAIIx 56852011-5aeb-486e-bb3b-a18a3dc03c9e cb5a609e-6d17-48f8-b473-8f6f9a8fef59 TGCACCTTTATCTACAATAGC 0.378 41 94 TSPEAR 54084 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 21 45953633 45953633 + Silent SNP T T C TCGA-DU-A5TR-01A-11D-A289-08 TCGA-DU-A5TR-10A-01D-A289-08 Untested Somatic Phase_I WXS none Illumina GAIIx 56852011-5aeb-486e-bb3b-a18a3dc03c9e cb5a609e-6d17-48f8-b473-8f6f9a8fef59 CCAGGACCAGTGTGTGCCAGC 0.692 24 54 TRABD2A 129293 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 2 85051212 85051212 + Missense_Mutation SNP G G A TCGA-DU-A5TR-01A-11D-A289-08 TCGA-DU-A5TR-10A-01D-A289-08 Untested Somatic Phase_I WXS none Illumina GAIIx 56852011-5aeb-486e-bb3b-a18a3dc03c9e cb5a609e-6d17-48f8-b473-8f6f9a8fef59 CACAAGGGGAGGCAGCGTTGA 0.642 9 38 GPR17 2840 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 2 128408985 128408985 + Missense_Mutation SNP G G A rs143108762 TCGA-DU-A5TR-01A-11D-A289-08 TCGA-DU-A5TR-10A-01D-A289-08 Untested Somatic Phase_I WXS none Illumina GAIIx 56852011-5aeb-486e-bb3b-a18a3dc03c9e cb5a609e-6d17-48f8-b473-8f6f9a8fef59 CCTGCGTGTGGAGAAGCGCCT 0.622 44 87 TTN 7273 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 2 179436446 179436446 + Missense_Mutation SNP C C T TCGA-DU-A5TR-01A-11D-A289-08 TCGA-DU-A5TR-10A-01D-A289-08 Untested Somatic Phase_I WXS none Illumina GAIIx 56852011-5aeb-486e-bb3b-a18a3dc03c9e cb5a609e-6d17-48f8-b473-8f6f9a8fef59 TTGTCAAGAACGATAACATTA 0.453 32 85 AOX1 316 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 2 201527642 201527642 + Missense_Mutation SNP G G A TCGA-DU-A5TR-01A-11D-A289-08 TCGA-DU-A5TR-10A-01D-A289-08 Untested Somatic Phase_I WXS none Illumina GAIIx 56852011-5aeb-486e-bb3b-a18a3dc03c9e cb5a609e-6d17-48f8-b473-8f6f9a8fef59 CTTTGTTTATGGAGCTGCCTG 0.473 39 44 IDH1 3417 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 2 209113113 209113113 + Missense_Mutation SNP G G T rs121913499 TCGA-DU-A5TR-01A-11D-A289-08 TCGA-DU-A5TR-10A-01D-A289-08 Untested Somatic Phase_I WXS none Illumina GAIIx 56852011-5aeb-486e-bb3b-a18a3dc03c9e cb5a609e-6d17-48f8-b473-8f6f9a8fef59 TAAGCATGACGACCTATGATG 0.398 29 40 TGFBR2 7048 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 3 30729914 30729914 + Missense_Mutation SNP C C T TCGA-DU-A5TR-01A-11D-A289-08 TCGA-DU-A5TR-10A-01D-A289-08 Untested Somatic Phase_I WXS none Illumina GAIIx 56852011-5aeb-486e-bb3b-a18a3dc03c9e cb5a609e-6d17-48f8-b473-8f6f9a8fef59 TTCCAAGGTGCGGGAGCACCC 0.502 30 91 RHO 6010 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 3 129251555 129251555 + Silent SNP G G A rs145004306 by1000genomes TCGA-DU-A5TR-01A-11D-A289-08 TCGA-DU-A5TR-10A-01D-A289-08 Untested Somatic Phase_I WXS none Illumina GAIIx 56852011-5aeb-486e-bb3b-a18a3dc03c9e cb5a609e-6d17-48f8-b473-8f6f9a8fef59 CCATCCCAGCGTTCTTTGCCA 0.582 28 65 TLR1 7096 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 4 38799264 38799264 + Missense_Mutation SNP T T C rs111596029 TCGA-DU-A5TR-01A-11D-A289-08 TCGA-DU-A5TR-10A-01D-A289-08 Untested Somatic Phase_I WXS none Illumina GAIIx 56852011-5aeb-486e-bb3b-a18a3dc03c9e cb5a609e-6d17-48f8-b473-8f6f9a8fef59 AGAGACTTCATCTGTGTAGTC 0.313 10 14 CD180 4064 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 5 66479020 66479020 + Missense_Mutation SNP C C T TCGA-DU-A5TR-01A-11D-A289-08 TCGA-DU-A5TR-10A-01D-A289-08 Untested Somatic Phase_I WXS none Illumina GAIIx 56852011-5aeb-486e-bb3b-a18a3dc03c9e cb5a609e-6d17-48f8-b473-8f6f9a8fef59 CTGTTGGCAGCCAGATTGAGG 0.478 17 34 CCNB1 891 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 5 68467121 68467121 + Missense_Mutation SNP A A G TCGA-DU-A5TR-01A-11D-A289-08 TCGA-DU-A5TR-10A-01D-A289-08 Untested Somatic Phase_I WXS none Illumina GAIIx 56852011-5aeb-486e-bb3b-a18a3dc03c9e cb5a609e-6d17-48f8-b473-8f6f9a8fef59 TCCAAGCCCAATGGAAACATC 0.423 22 49 UTRN 7402 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 6 144724310 144724310 + Missense_Mutation SNP G G A TCGA-DU-A5TR-01A-11D-A289-08 TCGA-DU-A5TR-10A-01D-A289-08 Untested Somatic Phase_I WXS none Illumina GAIIx 56852011-5aeb-486e-bb3b-a18a3dc03c9e cb5a609e-6d17-48f8-b473-8f6f9a8fef59 ATAAATGCTCGATTTTCAAAG 0.393 17 20 FIGNL1 63979 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 7 50513439 50513439 + Missense_Mutation SNP G G C TCGA-DU-A5TR-01A-11D-A289-08 TCGA-DU-A5TR-10A-01D-A289-08 Untested Somatic Phase_I WXS none Illumina GAIIx 56852011-5aeb-486e-bb3b-a18a3dc03c9e cb5a609e-6d17-48f8-b473-8f6f9a8fef59 CCTTCTAGAAGATTCATGCTC 0.408 38 130 NSUN5 55695 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 7 72717707 72717707 + Missense_Mutation SNP G G C TCGA-DU-A5TR-01A-11D-A289-08 TCGA-DU-A5TR-10A-01D-A289-08 Untested Somatic Phase_I WXS none Illumina GAIIx 56852011-5aeb-486e-bb3b-a18a3dc03c9e cb5a609e-6d17-48f8-b473-8f6f9a8fef59 TCAGGCCTCGGTGGGGCCAGG 0.662 16 90 ASPH 444 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 8 62460709 62460709 + Missense_Mutation SNP C C T TCGA-DU-A5TR-01A-11D-A289-08 TCGA-DU-A5TR-10A-01D-A289-08 Untested Somatic Phase_I WXS none Illumina GAIIx 56852011-5aeb-486e-bb3b-a18a3dc03c9e cb5a609e-6d17-48f8-b473-8f6f9a8fef59 GTAGAGTGAGCGTTGCCAGAC 0.448 35 66 IL33 90865 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 9 6253587 6253587 + Missense_Mutation SNP C C T TCGA-DU-A5TR-01A-11D-A289-08 TCGA-DU-A5TR-10A-01D-A289-08 Untested Somatic Phase_I WXS none Illumina GAIIx 56852011-5aeb-486e-bb3b-a18a3dc03c9e cb5a609e-6d17-48f8-b473-8f6f9a8fef59 GTCTCAACACCCCTCAAATGA 0.383 15 39 FPGS 2356 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 9 130575671 130575671 + Missense_Mutation SNP A A G TCGA-DU-A5TR-01A-11D-A289-08 TCGA-DU-A5TR-10A-01D-A289-08 Untested Somatic Phase_I WXS none Illumina GAIIx 56852011-5aeb-486e-bb3b-a18a3dc03c9e cb5a609e-6d17-48f8-b473-8f6f9a8fef59 CCTCGTCTTCAGCTGCATTTC 0.652 54 136 NOTCH1 4851 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 9 139412326 139412326 + Missense_Mutation SNP C C G TCGA-DU-A5TR-01A-11D-A289-08 TCGA-DU-A5TR-10A-01D-A289-08 Untested Somatic Phase_I WXS none Illumina GAIIx 56852011-5aeb-486e-bb3b-a18a3dc03c9e cb5a609e-6d17-48f8-b473-8f6f9a8fef59 GCCCTGCAGACACTGGCACTC 0.657 25 74 ATRX 546 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 X 76875911 76875911 + Missense_Mutation SNP T T C TCGA-DU-A5TR-01A-11D-A289-08 TCGA-DU-A5TR-10A-01D-A289-08 Untested Somatic Phase_I WXS none Illumina GAIIx 56852011-5aeb-486e-bb3b-a18a3dc03c9e cb5a609e-6d17-48f8-b473-8f6f9a8fef59 ATAATCCTCCTCCTTGATCGT 0.328 30 8 PKHD1L1 93035 broad.mit.edu;ucsc.edu 37 8 110477192 110477192 + Missense_Mutation SNP G G A TCGA-DU-A5TR-01A-11D-A289-08 TCGA-DU-A5TR-10A-01D-A289-08 Untested Somatic Phase_I WXS none Illumina GAIIx 56852011-5aeb-486e-bb3b-a18a3dc03c9e cb5a609e-6d17-48f8-b473-8f6f9a8fef59 CAAAATAGTCGGCCATCTTGA 0.463 48 112 C2orf50 0 broad.mit.edu;ucsc.edu 37 2 11273476 11273476 + Missense_Mutation SNP A A C TCGA-DU-A5TR-01A-11D-A289-08 TCGA-DU-A5TR-10A-01D-A289-08 Untested Somatic Phase_I WXS none Illumina GAIIx 56852011-5aeb-486e-bb3b-a18a3dc03c9e cb5a609e-6d17-48f8-b473-8f6f9a8fef59 GAGCCACCCCACCCCTGGGCT 0.637 8 33 NLRP1 22861 broad.mit.edu;ucsc.edu 37 17 5442862 5442862 + Missense_Mutation SNP C C T rs148522172 TCGA-DU-A5TR-01A-11D-A289-08 TCGA-DU-A5TR-10A-01D-A289-08 Untested Somatic Phase_I WXS none Illumina GAIIx 56852011-5aeb-486e-bb3b-a18a3dc03c9e cb5a609e-6d17-48f8-b473-8f6f9a8fef59 AGCACAGAGGCCAGGTCCTGG 0.612 6 43