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 CHAT 1103 hgsc.bcm.edu;broad.mit.edu 37 10 50901834 50901834 + Nonstop_Mutation SNP G G T TCGA-E1-5304-01A-01D-1468-08 TCGA-E1-5304-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx e6b925bf-a091-4254-ad24-d1581fa66cb1 81f4e278-bb3d-4621-886b-5e03e7205291 GTTGGCCATAGATGGACATGA 0.463 12 135 LGI1 9211 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 10 95557106 95557106 + Missense_Mutation SNP G G A TCGA-E1-5304-01A-01D-1468-08 TCGA-E1-5304-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx e6b925bf-a091-4254-ad24-d1581fa66cb1 81f4e278-bb3d-4621-886b-5e03e7205291 AGTTCCCAGCGTCCTGTAATT 0.433 118 86 PAX6 5080 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 11 31815341 31815341 + Missense_Mutation SNP A A G TCGA-E1-5304-01A-01D-1468-08 TCGA-E1-5304-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx e6b925bf-a091-4254-ad24-d1581fa66cb1 81f4e278-bb3d-4621-886b-5e03e7205291 CTTCGATTAGAAAACCATACC 0.522 78 7 AHNAK 79026 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 11 62287998 62287998 + Missense_Mutation SNP C C A TCGA-E1-5304-01A-01D-1468-08 TCGA-E1-5304-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx e6b925bf-a091-4254-ad24-d1581fa66cb1 81f4e278-bb3d-4621-886b-5e03e7205291 ACTTTGGGGTCCCTGATGTCA 0.522 100 355 MMP19 4327 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 12 56233333 56233333 + Missense_Mutation SNP C C T rs138516871 TCGA-E1-5304-01A-01D-1468-08 TCGA-E1-5304-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx e6b925bf-a091-4254-ad24-d1581fa66cb1 81f4e278-bb3d-4621-886b-5e03e7205291 AAAGTGGGGCCGGTAGCCCTC 0.617 18 73 CMA1 1215 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 14 24976583 24976583 + Missense_Mutation SNP G G A rs13306251 by1000genomes TCGA-E1-5304-01A-01D-1468-08 TCGA-E1-5304-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx e6b925bf-a091-4254-ad24-d1581fa66cb1 81f4e278-bb3d-4621-886b-5e03e7205291 ATGAGCAGCCGTCAGCACAAA 0.488 87 180 EIF2AK4 440275 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 15 40258023 40258023 + Silent SNP G G A TCGA-E1-5304-01A-01D-1468-08 TCGA-E1-5304-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx e6b925bf-a091-4254-ad24-d1581fa66cb1 81f4e278-bb3d-4621-886b-5e03e7205291 AAAAAGAGAAGATTGATAAGT 0.443 38 122 OSGIN1 29948 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 16 83994303 83994303 + Missense_Mutation SNP C C T TCGA-E1-5304-01A-01D-1468-08 TCGA-E1-5304-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx e6b925bf-a091-4254-ad24-d1581fa66cb1 81f4e278-bb3d-4621-886b-5e03e7205291 CTGGAAGCACCGGAAGGAGCA 0.657 21 116 TP53 7157 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 17 7578550 7578550 + Missense_Mutation SNP G G T TCGA-E1-5304-01A-01D-1468-08 TCGA-E1-5304-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx e6b925bf-a091-4254-ad24-d1581fa66cb1 81f4e278-bb3d-4621-886b-5e03e7205291 GAGGGCAGGGGAGTACTGTAG 0.552 45 0 ALKBH6 84964 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 19 36501795 36501795 + Splice_Site SNP C C T TCGA-E1-5304-01A-01D-1468-08 TCGA-E1-5304-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx e6b925bf-a091-4254-ad24-d1581fa66cb1 81f4e278-bb3d-4621-886b-5e03e7205291 TGTGTGGTTACCATGATGCCC 0.592 37 104 RPS6KA1 6195 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 1 26898350 26898350 + Missense_Mutation SNP G G T TCGA-E1-5304-01A-01D-1468-08 TCGA-E1-5304-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx e6b925bf-a091-4254-ad24-d1581fa66cb1 81f4e278-bb3d-4621-886b-5e03e7205291 GTGCTGAAGCGCCAGGGCTAC 0.627 31 38 GBP3 2635 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 1 89486247 89486247 + Missense_Mutation SNP T T C TCGA-E1-5304-01A-01D-1468-08 TCGA-E1-5304-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx e6b925bf-a091-4254-ad24-d1581fa66cb1 81f4e278-bb3d-4621-886b-5e03e7205291 GTTCATCAGGTAGGATTTTCC 0.517 30 173 ABCB10 23456 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 1 229685030 229685030 + Silent SNP C C G TCGA-E1-5304-01A-01D-1468-08 TCGA-E1-5304-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx e6b925bf-a091-4254-ad24-d1581fa66cb1 81f4e278-bb3d-4621-886b-5e03e7205291 CAGCACCACACAGAAACACGG 0.522 21 76 ETAA1 54465 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 2 67631847 67631847 + Missense_Mutation SNP A A G TCGA-E1-5304-01A-01D-1468-08 TCGA-E1-5304-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx e6b925bf-a091-4254-ad24-d1581fa66cb1 81f4e278-bb3d-4621-886b-5e03e7205291 GGAGCCAAAAACATGTTTGCT 0.363 90 113 NAT8 9027 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 2 73868641 73868641 + Missense_Mutation SNP G G C TCGA-E1-5304-01A-01D-1468-08 TCGA-E1-5304-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx e6b925bf-a091-4254-ad24-d1581fa66cb1 81f4e278-bb3d-4621-886b-5e03e7205291 GTTCGAGGCAGCTTCAGCAAT 0.622 67 237 IDH1 3417 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 2 209113112 209113112 + Missense_Mutation SNP C C T rs121913500 TCGA-E1-5304-01A-01D-1468-08 TCGA-E1-5304-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx e6b925bf-a091-4254-ad24-d1581fa66cb1 81f4e278-bb3d-4621-886b-5e03e7205291 ATAAGCATGACGACCTATGAT 0.393 115 89 KCNJ13 3769 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 2 233633140 233633140 + Missense_Mutation SNP A A G TCGA-E1-5304-01A-01D-1468-08 TCGA-E1-5304-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx e6b925bf-a091-4254-ad24-d1581fa66cb1 81f4e278-bb3d-4621-886b-5e03e7205291 CTCCTTTGGCATATTTCTCCA 0.433 148 135 FYCO1 79443 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 3 46014621 46014621 + Silent SNP C C T rs149291592 byFrequency TCGA-E1-5304-01A-01D-1468-08 TCGA-E1-5304-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx e6b925bf-a091-4254-ad24-d1581fa66cb1 81f4e278-bb3d-4621-886b-5e03e7205291 CAAAGCCCCTCGACGCCAGGT 0.483 26 82 EPHA3 2042 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 3 89448615 89448615 + Nonsense_Mutation SNP G G T TCGA-E1-5304-01A-01D-1468-08 TCGA-E1-5304-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx e6b925bf-a091-4254-ad24-d1581fa66cb1 81f4e278-bb3d-4621-886b-5e03e7205291 GTTTGAGTTTGAAACTAGTCC 0.448 37 123 KIAA1407 57577 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 3 113761686 113761686 + Silent SNP C C T TCGA-E1-5304-01A-01D-1468-08 TCGA-E1-5304-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx e6b925bf-a091-4254-ad24-d1581fa66cb1 81f4e278-bb3d-4621-886b-5e03e7205291 CATTGACCAGCTCCTGAGCTA 0.333 52 154 CNGA1 1259 hgsc.bcm.edu;broad.mit.edu 37 4 47938995 47938995 + Missense_Mutation SNP T T A TCGA-E1-5304-01A-01D-1468-08 TCGA-E1-5304-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx e6b925bf-a091-4254-ad24-d1581fa66cb1 81f4e278-bb3d-4621-886b-5e03e7205291 TTCTTGCAAATATAATCTCCA 0.438 17 290 COL25A1 84570 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 4 109765700 109765700 + Missense_Mutation SNP C C T TCGA-E1-5304-01A-01D-1468-08 TCGA-E1-5304-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx e6b925bf-a091-4254-ad24-d1581fa66cb1 81f4e278-bb3d-4621-886b-5e03e7205291 gccatggggacctggtgggcc 0.433 60 122 PKHD1 5314 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 6 51513908 51513908 + Missense_Mutation SNP G G T TCGA-E1-5304-01A-01D-1468-08 TCGA-E1-5304-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx e6b925bf-a091-4254-ad24-d1581fa66cb1 81f4e278-bb3d-4621-886b-5e03e7205291 TACCAATTGTGGCTGCACTGG 0.413 91 194 PHF3 23469 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 6 64356551 64356551 + Missense_Mutation SNP A A G TCGA-E1-5304-01A-01D-1468-08 TCGA-E1-5304-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx e6b925bf-a091-4254-ad24-d1581fa66cb1 81f4e278-bb3d-4621-886b-5e03e7205291 GAAGTCTGTGAGGATTTTAGT 0.393 49 151 RINT1 60561 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 7 105189063 105189063 + Missense_Mutation SNP C C A TCGA-E1-5304-01A-01D-1468-08 TCGA-E1-5304-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx e6b925bf-a091-4254-ad24-d1581fa66cb1 81f4e278-bb3d-4621-886b-5e03e7205291 GCCTCCCCTTCTGTCATCCTG 0.443 103 389 STK3 6788 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 8 99779474 99779474 + Missense_Mutation SNP T T C TCGA-E1-5304-01A-01D-1468-08 TCGA-E1-5304-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx e6b925bf-a091-4254-ad24-d1581fa66cb1 81f4e278-bb3d-4621-886b-5e03e7205291 TTCATACCTGTCACATTGCTG 0.313 63 69 PLEC 5339 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 8 145007212 145007212 + Missense_Mutation SNP C C T TCGA-E1-5304-01A-01D-1468-08 TCGA-E1-5304-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx e6b925bf-a091-4254-ad24-d1581fa66cb1 81f4e278-bb3d-4621-886b-5e03e7205291 GGGGCCGCCACGCCTGCCTTC 0.662 10 5 AKNA 80709 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 9 117139492 117139492 + Missense_Mutation SNP T T C TCGA-E1-5304-01A-01D-1468-08 TCGA-E1-5304-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx e6b925bf-a091-4254-ad24-d1581fa66cb1 81f4e278-bb3d-4621-886b-5e03e7205291 CTCCAGGACCTTGCCGGGCTG 0.612 95 71 ATRX 546 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 X 76814313 76814313 + Nonsense_Mutation SNP G G A TCGA-E1-5304-01A-01D-1468-08 TCGA-E1-5304-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx e6b925bf-a091-4254-ad24-d1581fa66cb1 81f4e278-bb3d-4621-886b-5e03e7205291 ATAAATAATCGTCCTCTGAAA 0.274 69 1 ALMS1 7840 broad.mit.edu;ucsc.edu 37 2 73718168 73718168 + Missense_Mutation SNP T T G TCGA-E1-5304-01A-01D-1468-08 TCGA-E1-5304-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx e6b925bf-a091-4254-ad24-d1581fa66cb1 81f4e278-bb3d-4621-886b-5e03e7205291 CCCAAATCACTGTACATTAGC 0.378 67 204 PCSK5 5125 broad.mit.edu;ucsc.edu 37 9 78965754 78965754 + Silent SNP G G A TCGA-E1-5304-01A-01D-1468-08 TCGA-E1-5304-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx e6b925bf-a091-4254-ad24-d1581fa66cb1 81f4e278-bb3d-4621-886b-5e03e7205291 GAAAAGGAGCGTTGAATTGTT 0.448 132 134 CSMD3 114788 broad.mit.edu;ucsc.edu 37 8 113988170 113988170 + Missense_Mutation SNP T T C TCGA-E1-5304-01A-01D-1468-08 TCGA-E1-5304-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx e6b925bf-a091-4254-ad24-d1581fa66cb1 81f4e278-bb3d-4621-886b-5e03e7205291 AGAGAGCCCGTCCTTGGACGT 0.478 72 269 DYNLL1 8655 broad.mit.edu;hgsc.bcm.edu 37 12 120935907 120935908 + Frame_Shift_Ins INS - - TT rs142458935 by1000genomes TCGA-E1-5304-01A-01D-1468-08 TCGA-E1-5304-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx e6b925bf-a091-4254-ad24-d1581fa66cb1 81f4e278-bb3d-4621-886b-5e03e7205291 CCCACCTGGCATTGCATCGTGG 0.426 35 57