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 HNRNPF 3185 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 10 43882166 43882166 + Silent SNP G G A TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d CCAGGCCACTGTAAGTGGCCT 0.537 121 148 PAX2 5076 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 10 102541110 102541110 + Missense_Mutation SNP A A G TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d TGAGAAGAGGAAACGTGATGA 0.587 26 192 PWWP2B 170394 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 10 134219372 134219372 + Silent SNP G G A TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d CAGCGCCCTCGGTGTCCAGAG 0.701 35 60 OR51Q1 390061 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 11 5444223 5444223 + Missense_Mutation SNP C C T TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d TATGACTCATCGCTTTGCCAA 0.517 29 50 STK38L 23012 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 12 27467498 27467498 + Silent SNP C C T TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d CACAGTTCTACATTTCAGAGA 0.383 10 49 SPG7 6687 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 16 89620236 89620236 + Silent SNP C C T rs140356355 TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d TCACCCGCATCGCCTACTCCA 0.677 37 122 CTDNEP1 23399 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 17 7150176 7150176 + Silent SNP T T C TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d GTTTGTCTATTACCACCTACA 0.512 159 174 TP53 7157 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 17 7578190 7578190 + Missense_Mutation SNP T T C rs121912666 TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d AGGCGGCTCATAGGGCACCAC 0.557 46 5 ZNF560 147741 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 19 9577986 9577986 + Missense_Mutation SNP C C T TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d ACATTTCTTACATTGATAGAG 0.398 59 81 IL12RB1 3594 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 19 18184406 18184406 + Missense_Mutation SNP T T G TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d CTGTGGGGGGTTTTCTGCAAT 0.512 7 33 KIR2DL3 3804 hgsc.bcm.edu;broad.mit.edu 37 19 55255285 55255285 + Missense_Mutation SNP C C T TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d CCGGGCCCCACGGTTCTGGCA 0.567 37 30 MEGF6 1953 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 1 3428609 3428609 + Missense_Mutation SNP C C A TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d TCATAGCCCGCGTGACACACG 0.667 76 74 CYB5RL 606495 hgsc.bcm.edu;ucsc.edu 37 1 54661191 54661191 + Nonsense_Mutation SNP G G T TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d CACAGGGTGAGCAGCCACTGC 0.612 52 69 IPO9 55705 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 1 201841994 201841994 + Missense_Mutation SNP A A G rs141172151 TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d CATGGCATCAATGCAGATGAC 0.527 22 87 OR2T12 127064 hgsc.bcm.edu;broad.mit.edu 37 1 248458438 248458438 + Missense_Mutation SNP A A G TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d TGCACCCAGGAGCCAGGACGA 0.612 68 83 C2orf53 0 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 2 27360157 27360157 + Silent SNP G G A TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d GGACTGGGTCGGCCCGGGCCT 0.637 39 110 FAM126B 285172 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 2 201876188 201876188 + Missense_Mutation SNP G G A TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d ATCTTTATCAGCGATTTCCTA 0.303 7 10 IDH1 3417 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 2 209113112 209113112 + Missense_Mutation SNP C C T rs121913500 TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d ATAAGCATGACGACCTATGAT 0.393 15 45 CCDC108 255101 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 2 219868765 219868765 + Missense_Mutation SNP A A T TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d GACTCCTGGGACTCAGGCTGT 0.577 144 153 ITPR1 3708 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 3 4699950 4699950 + Missense_Mutation SNP G G A rs6766212 TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d GGAGGTGACAGCCTTGTCCCA 0.493 8 61 GOLGA4 2803 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 3 37396655 37396655 + Nonsense_Mutation SNP G G T TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d GAAAATTTTGGAAAGAGAAGA 0.383 28 55 DNASE1L3 1776 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 3 58190566 58190566 + Missense_Mutation SNP G G C TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d CATCCTGATAGTCATGGTAGT 0.493 13 64 TP63 8626 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 3 189604292 189604292 + Missense_Mutation SNP C C T TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d CCCTCAGCAGCGCAACGCCCT 0.502 27 63 TMPRSS11F 389208 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 4 68935722 68935722 + Missense_Mutation SNP A A C TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d TTTGCTGTCAATAGCTGGAAT 0.313 34 93 MMAA 166785 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 4 146560298 146560298 + Missense_Mutation SNP A A G TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d GAATATGCCCATGCTGCTACC 0.423 71 110 CDH12 1010 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 5 21752319 21752319 + Nonsense_Mutation SNP G G A TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d TTCTGCCTTCGCAGTGCTACA 0.398 39 11 FAT2 2196 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 5 150947117 150947117 + Missense_Mutation SNP T T C TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d GGAAGACCTGTTGAAGAGGGG 0.537 56 101 LRRC16A 55604 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 6 25517626 25517626 + Missense_Mutation SNP A A G TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d TTCAGGATATAGCTGTTGCTA 0.313 27 47 FAM188B 84182 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 7 30898919 30898919 + Missense_Mutation SNP T T C TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d CTTTCTGCCATCCTGTCCAGG 0.567 17 70 TG 7038 hgsc.bcm.edu;ucsc.edu 37 8 134145830 134145830 + Missense_Mutation SNP C C G TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d GAGCTGCTCCCCAATCGACAG 0.537 12 53 TG 7038 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 8 134145854 134145854 + Missense_Mutation SNP C C G TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d CTGAAGAAAGCCGACTGCTCC 0.547 11 43 ST3GAL1 6482 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 8 134488257 134488257 + Missense_Mutation SNP A A G TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d CCTCTTCCGCAGGGTCACCAT 0.552 35 76 TTF1 7270 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 9 135275446 135275446 + Missense_Mutation SNP G G A TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d TCCTTAAACCGTTCCAAGTCG 0.468 26 123 CUL4B 8450 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 X 119694140 119694140 + Missense_Mutation SNP C C G TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d aggaggaTTCCTCAGCCATCT 0.488 10 35 MRPS27 23107 broad.mit.edu;ucsc.edu 37 5 71593520 71593520 + Missense_Mutation SNP G G C TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d CATTAAAGATGCAAGATCAGC 0.294 5 14 ZAN 7455 broad.mit.edu;ucsc.edu 37 7 100363082 100363082 + RNA SNP G G T TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d GTGCGTGGAGGCCTGTGAATG 0.612 13 37 GBA2 57704 broad.mit.edu;ucsc.edu 37 9 35741041 35741041 + Silent SNP T T C TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d ACACAAAGACTCCTACAGGCA 0.567 20 68 TMEM132B 114795 broad.mit.edu;ucsc.edu 37 12 126135302 126135302 + Missense_Mutation SNP G G A TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d GTACCAGCACGCCACAGTGCG 0.587 8 67 FLRT1 23769 broad.mit.edu;ucsc.edu 37 11 63884997 63884997 + Missense_Mutation SNP C C T TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d GCCAGGGCTGCGCCTCCCCGA 0.652 5 26 STK32A 202374 broad.mit.edu;ucsc.edu 37 5 146657719 146657719 + Missense_Mutation SNP A A G TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d TTTGCGAGCCATTGGGAAAGG 0.358 5 12 ELP2 55250 broad.mit.edu;ucsc.edu 37 18 33738840 33738840 + Nonsense_Mutation SNP G G T TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d CCCTGCATTGGGATTATCAAA 0.333 26 21 GSPT1 2935 broad.mit.edu;hgsc.bcm.edu 37 16 11981588 11981589 + Frame_Shift_Ins INS - - T TCGA-HT-A61B-01A-11D-A29Q-08 TCGA-HT-A61B-10A-01D-A29Q-08 Untested Somatic Phase_I WXS none Illumina GAIIx 97a07589-3dd1-4724-8458-343a8b54d8db b32d8211-d6fb-4fbd-9727-536b1e77a69d TGATTTGTGTCTAAGGCCCAAG 0.356 33 100