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 PCDH15 65217 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 10 55581631 55581631 + Missense_Mutation SNP G G C TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 CAGTGAAGTAGATTGACTGTG 0.363 23 125 OR6Q1 219952 hgsc.bcm.edu;broad.mit.edu 37 11 57798711 57798711 + Missense_Mutation SNP T T C TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 GGCAAGAATATCTCTTATGCT 0.483 10 149 COQ5 84274 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 12 120947837 120947837 + Missense_Mutation SNP C C T TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 ATGTGTGTGACATTCCGGATC 0.433 15 45 CEBPE 1053 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 14 23588124 23588124 + Silent SNP G G A rs141320203 TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 CTGGCTTCACGGCAAAGAGAT 0.647 28 163 OTX2 5015 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 14 57268721 57268721 + Missense_Mutation SNP C C A TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 ATATGATCCACAGTCCATGCC 0.522 22 83 PLIN1 5346 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 15 90212791 90212791 + Missense_Mutation SNP C C T TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 GGGCCCGGGCCATGGTCTGCA 0.642 23 71 WDR24 84219 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 16 739166 739166 + Missense_Mutation SNP A A T TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 TCACCCGAGAAGGTGCTGACA 0.632 44 102 CYP4F12 66002 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 19 15807863 15807863 + Missense_Mutation SNP C C T TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 GCTTTGGCTGCGGGTGGAGCC 0.567 24 120 ZNF676 163223 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 19 22363763 22363763 + Silent SNP G G A TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 CACATTTGTAGGGTTTCTCTC 0.373 30 66 ZNF644 84146 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 1 91405999 91405999 + Silent SNP G G T rs144274015 byFrequency TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 AGCAATCCTCGGTATAACGAG 0.343 10 30 INSRR 3645 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 1 156815851 156815851 + Missense_Mutation SNP C C T TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 TGGCTTCCAGCGCACCAGGAG 0.622 18 85 FCRL2 79368 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 1 157738222 157738222 + Missense_Mutation SNP C C T TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 GGGATATTCACCACCTTGCTC 0.478 19 104 ABL2 27 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 1 179084144 179084144 + Missense_Mutation SNP T T A TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 GGTAGCAATTTCCCACAACAA 0.378 20 105 RD3 343035 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 1 211652456 211652456 + Silent SNP G G A TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 CCACGTCCTCGGAGATGGTCC 0.716 6 29 CHRM3 1131 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 1 240071128 240071128 + Missense_Mutation SNP C C T TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 AATCTGTTTACGACCTACATC 0.468 20 39 CHAF1B 8208 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 21 37775114 37775114 + Missense_Mutation SNP G G C TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 CGTAGACTGAGTTTCACTCCC 0.443 55 265 MORC2 22880 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 22 31330834 31330834 + Silent SNP A A C TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 TGGGAGAAGGAACCTCCCGAG 0.552 70 220 NLRC4 58484 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 2 32449596 32449596 + Silent SNP A A G TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 CATCATCATCAAATTGCCACC 0.378 47 75 IFIH1 64135 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 2 163133214 163133214 + Missense_Mutation SNP A A C TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 ATGGGTTTGAACTCACTGCTG 0.398 12 70 IDH1 3417 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 2 209113112 209113112 + Missense_Mutation SNP C C T rs121913500 TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 ATAAGCATGACGACCTATGAT 0.393 22 27 CCDC13 152206 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 3 42750573 42750573 + Missense_Mutation SNP G G A TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 TCCTTTCCCCGCAGGGCACTG 0.592 21 85 TRAIP 10293 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 3 49867117 49867117 + Missense_Mutation SNP C C T TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 GATGGCATTCCGGACAAAAAT 0.587 29 51 WDR17 116966 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 4 177032847 177032847 + Missense_Mutation SNP T T C TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 GCTATCTATATTTATCAGGTA 0.343 16 39 ITPR3 3710 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 6 33632727 33632727 + Missense_Mutation SNP A A G TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 ATCGAGGAGGAGCGGCCCATC 0.667 25 48 PKHD1 5314 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 6 51768522 51768522 + Missense_Mutation SNP C C G TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 ATGTCCTGACCAGTCTAATGT 0.393 18 45 TNS3 64759 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 7 47407972 47407972 + Silent SNP G G A TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 CTTGCCGCCCGGTGGCCCTGC 0.632 74 258 COBL 23242 hgsc.bcm.edu;ucsc.edu 37 7 51093066 51093066 + Missense_Mutation SNP C C T TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 GCAGAGGATGCCACCTGGCAA 0.517 14 69 CYP3A4 1576 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 7 99364768 99364768 + Missense_Mutation SNP C C T TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 TGTGTATCTTCGAGGCGACTT 0.308 15 51 PTPRZ1 5803 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 7 121693973 121693973 + Nonsense_Mutation SNP C C T TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 GGGCTATTACCAGAGCAATGA 0.403 51 82 CRISPLD1 83690 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 8 75932115 75932115 + Missense_Mutation SNP T T C TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 CAAATATCAGTCTGCTAATTC 0.333 24 23 SPATA31C1 441452 hgsc.bcm.edu;broad.mit.edu 37 9 90535986 90535986 + RNA SNP G G A TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 GCCCTGCGTCGCAGAATAAAG 0.517 66 356 RGS3 5998 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 9 116224037 116224037 + Missense_Mutation SNP G G A TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 GGATCTCACCGTCCTGAGTGT 0.537 26 125 KIF2B 84643 broad.mit.edu;ucsc.edu 37 17 51902246 51902246 + Missense_Mutation SNP C C A TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 GGGATCTAGCCAATGGCTGGA 0.443 24 109 MAP2K5 5607 broad.mit.edu;ucsc.edu 37 15 67878228 67878228 + Splice_Site SNP C C T TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 ACTGTTTCAGCCTGCAAGCCT 0.373 9 78 APIP 51074 broad.mit.edu;ucsc.edu 37 11 34909891 34909891 + Missense_Mutation SNP T T C TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 CATCTCTTGATGTGTAATTTT 0.373 22 74 PCDHB4 56131 broad.mit.edu;ucsc.edu 37 5 140502918 140502918 + Silent SNP C C T TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 TCAATGACAACGCCCCCGCCT 0.602 115 117 NOTCH1 4851 broad.mit.edu;ucsc.edu 37 9 139412302 139412302 + Missense_Mutation SNP C C A TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 GATCTCGCATCGGGGGCCCGT 0.647 24 83 EIF4G3 8672 broad.mit.edu;hgsc.bcm.edu 37 1 21183987 21183987 + Frame_Shift_Del DEL A A - TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 CACTCTCTGGACACCTGCAGG 0.463 51 222 ATF2 1386 broad.mit.edu;hgsc.bcm.edu 37 2 175957831 175957833 + In_Frame_Del DEL CTC CTC - TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 CAGCTTTCTTCTCTAAAGACTGA 0.35 38 95 SCRIB 23513 broad.mit.edu;hgsc.bcm.edu 37 8 144886879 144886882 + Frame_Shift_Del DEL GGGA GGGA - TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 GCAGAGGGCTGGGAGGAAGAGGGC 0.696 10 30 MALAT1 378938 broad.mit.edu;hgsc.bcm.edu 37 11 65270886 65270887 + RNA INS - - TA TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 ATTTGCATCTTTAAATAATTTC 0.371 12 53 RXFP2 122042 broad.mit.edu;hgsc.bcm.edu 37 13 32371470 32371471 + Frame_Shift_Del DEL TC TC - TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 GCAAATCGTTTCTTTTTTATAG 0.396 45 52 DNAJA2 10294 broad.mit.edu;hgsc.bcm.edu 37 16 46991039 46991040 + Frame_Shift_Del DEL CT CT - TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 CCTCCTGAGCCTCGAGTGCTAT 0.465 156 304 TP53 7157 broad.mit.edu;hgsc.bcm.edu 37 17 7576886 7576887 + Frame_Shift_Ins INS - - T TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 CCAGTGGTTTCTTCTTTGGCTG 0.46 83 21 ATRX 546 broad.mit.edu;hgsc.bcm.edu 37 X 76938097 76938100 + Frame_Shift_Del DEL TCTT TCTT - TCGA-DH-A66B-01A-11D-A29Q-08 TCGA-DH-A66B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx d02d1ca6-f972-4084-be98-3b722f923bc3 622c34d2-eb7d-4cf0-b262-4ce463976d18 AGTCTCTCTCTCTTGTTTTCTTTC 0.407 79 28