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 GAD2 2572 hgsc.bcm.edu;ucsc.edu 37 10 26513539 26513539 + Missense_Mutation SNP T T C rs143186590 byFrequency TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 AGAGAAATCATTGGCTGGCCA 0.388 74 159 PCNXL3 399909 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 11 65403262 65403262 + Missense_Mutation SNP G G A TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 TGGCTCCTGCGCACCTGGGAG 0.687 10 9 PLEKHA5 54477 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 12 19475547 19475547 + Silent SNP T T C TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 TACAAAGGGATGATTTACAAA 0.408 65 71 VWA8 23078 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 13 42293731 42293731 + Missense_Mutation SNP T T C TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 CCTTACTCCTTTGCCAGCTGC 0.373 84 83 PYGL 5836 hgsc.bcm.edu;ucsc.edu 37 14 51378586 51378586 + Missense_Mutation SNP C C T TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 TATCCTGGGGCAGCCTTTGGG 0.453 90 149 GGA2 23062 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 16 23491094 23491094 + Missense_Mutation SNP G G T TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 ACCCAAGGCTGCCAGGTCCTG 0.612 15 101 ABCC12 94160 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 16 48145730 48145730 + Missense_Mutation SNP C C T TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 TTTTGCATAGCGCCCTCTCTC 0.463 41 88 WDR81 124997 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 17 1637326 1637326 + Silent SNP C C T rs143987787 TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 TCTTCCTGAGCGGCAGCAAGG 0.657 57 87 RABEP1 9135 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 17 5257698 5257698 + Silent SNP A A G TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 AGGATCACAAAAAAGCAGATG 0.338 26 28 TP53 7157 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 17 7577121 7577121 + Missense_Mutation SNP G G A rs121913343 TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 GCACAAACACGCACCTCAAAG 0.542 23 5 CASC3 22794 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 17 38320314 38320314 + Missense_Mutation SNP G G T TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 AGCTCCGGTGGATTCTAGTAC 0.542 36 36 G6PC 2538 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 17 41059590 41059590 + Missense_Mutation SNP G G A TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 CTACGTGATGGTCACATCTAC 0.517 30 57 RFX1 5989 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 19 14077272 14077272 + Missense_Mutation SNP T T C TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 GCTGAGGTTGTACCTCCAGAA 0.642 29 34 RASIP1 54922 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 19 49227649 49227649 + Missense_Mutation SNP C C T TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 GGAGAGTTTCCGGAAGAACTC 0.572 61 81 NOTCH2 4853 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 1 120468319 120468319 + Missense_Mutation SNP A A T TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 CCTGACTCGCAGTCCCGGGGA 0.642 25 21 SFT2D2 375035 hgsc.bcm.edu;broad.mit.edu 37 1 168205989 168205989 + Nonsense_Mutation SNP C C T TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 CTGCATTTTGCAGTCTTTGGC 0.403 139 179 TPR 7175 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 1 186292829 186292829 + Missense_Mutation SNP G G A TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 TGAACTGGTGGTCCCAACTCC 0.463 96 180 SPATA17 128153 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 1 217915355 217915355 + Missense_Mutation SNP A A G TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 AAAGAAAGAGAAGAGAAGAAG 0.403 32 29 TRIM58 25893 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 1 248039522 248039522 + Missense_Mutation SNP C C T TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 CCTTGCCTCCCCATCAGTGCC 0.512 25 202 JPH2 57158 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 20 42788430 42788430 + Missense_Mutation SNP C C T TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 CGGTGGCCGTCGGGCAGCGTG 0.662 45 32 KRTAP20-2 337976 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 21 32007647 32007647 + Missense_Mutation SNP A A G TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 GGCGGTGGCTATGGCTGTGGC 0.562 77 80 COL5A2 1290 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 2 189933563 189933563 + Silent SNP C C T TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 CACCTCTCTGCCCCTGAGGAC 0.502 20 32 IDH1 3417 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 2 209113112 209113112 + Missense_Mutation SNP C C T rs121913500 TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 ATAAGCATGACGACCTATGAT 0.393 70 66 IRS1 3667 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 2 227661149 227661149 + Missense_Mutation SNP C C T TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 CTTAAAGGATCTTGGCAATGA 0.627 184 228 SCN10A 6336 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 3 38768259 38768259 + Silent SNP T T C TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 CTCTGGGAGCTTGGAGCCCTC 0.577 31 48 FGFRL1 53834 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 4 1018108 1018108 + Missense_Mutation SNP G G A TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 GAGCGGACCCGTTCCAAGCCC 0.711 45 57 EVC2 132884 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 4 5586352 5586352 + Missense_Mutation SNP G G A rs139610006 TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 GCACTCACCCGGCTGTGCGAC 0.602 12 14 STPG2 285555 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 4 99030425 99030425 + Missense_Mutation SNP C C A TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 AAAATGTATACCTTTGTATTT 0.313 31 57 MROH2B 133558 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 5 41070936 41070936 + Nonsense_Mutation SNP C C A TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 CCTATGGATTCCTCTGTACTA 0.423 7 12 HLA-DOA 3111 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 6 32974943 32974943 + Silent SNP A A G TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 GGCCCAGGGCACAGACCAGGG 0.577 51 83 PKHD1 5314 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 6 51892645 51892645 + Missense_Mutation SNP A A G TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 GACCCACAGCAAGGCTCGATG 0.413 38 77 WBSCR17 64409 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 7 71135022 71135022 + Missense_Mutation SNP G G C TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 TAAAGTGTAAGAATTTCCAGT 0.438 73 127 ADAM28 10863 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 8 24151678 24151678 + Missense_Mutation SNP C C G TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 GCAAGGTCTCCTGCCAGTCAG 0.498 105 116 HAUS6 54801 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 9 19093264 19093264 + Nonsense_Mutation SNP G G C TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 AAGAAATAGTGAACCAACAAC 0.313 8 39 CNTNAP3 79937 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 9 39140572 39140572 + Missense_Mutation SNP A A C TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 ATCTGCATCAATATAGTAAAG 0.453 42 46 OR1N2 138882 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 9 125316257 125316257 + Missense_Mutation SNP G G T TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 CTCTTCTATGGGTCTCTTATG 0.473 50 57 FANCB 2187 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 X 14863149 14863149 + Missense_Mutation SNP G G A TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 GTTAAAAGTGGTGAAAGAGAT 0.388 87 15 GRPR 2925 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 X 16170454 16170454 + Missense_Mutation SNP C C A TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 GCTCCCCAATCATGTCATCTA 0.547 182 24 ZNF609 23060 broad.mit.edu;ucsc.edu 37 15 64966267 64966267 + Missense_Mutation SNP C C G TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 CGGGCAGGAGCCAATAGCAAA 0.567 75 121 SVEP1 79987 broad.mit.edu;ucsc.edu 37 9 113275228 113275228 + Silent SNP G G A TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 TCTCTGAACCGGACCACAAAC 0.443 36 61 OR2L2 26246 broad.mit.edu;ucsc.edu 37 1 248202456 248202456 + Missense_Mutation SNP T T C TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 AACAAGGAGGTGATGGGGGCC 0.463 68 87 HAUS6 54801 broad.mit.edu;ucsc.edu 37 9 19093229 19093229 + Missense_Mutation SNP G G A rs151253216 TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 TACATCAGATGAATAAACTTA 0.294 4 29 AFP 174 broad.mit.edu;ucsc.edu 37 4 74316388 74316388 + Missense_Mutation SNP C C T TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 GAGCTGATGGCCATCACCAGA 0.507 37 40 ATRX 546 broad.mit.edu;hgsc.bcm.edu 37 X 76937611 76937615 + Frame_Shift_Del DEL CTTTT CTTTT - TCGA-IK-7675-01A-11D-2086-08 TCGA-IK-7675-10A-01D-2086-08 Untested Somatic Phase_I WXS none Illumina GAIIx a78544d7-65c6-4778-af62-ceec24c14056 110272fc-ed7e-4515-84d7-5e7262cfc9a8 TATTTTTTTACTTTTCTTTTCTCCA 0.337 35 19