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 SERPING1 710 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 11 57367766 57367766 + Missense_Mutation SNP G G A rs139035354 by1000genomes TCGA-HT-7684-01A-11D-2253-08 TCGA-HT-7684-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2a568f27-c888-41cc-8196-03e138badd58 e5c70770-2bcf-4654-8ed2-c33cd1e09326 GCTCTACCACGCCTTCTCAGC 0.542 57 72 MS4A14 84689 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 11 60183353 60183353 + Silent SNP T T C TCGA-HT-7684-01A-11D-2253-08 TCGA-HT-7684-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2a568f27-c888-41cc-8196-03e138badd58 e5c70770-2bcf-4654-8ed2-c33cd1e09326 TCCAAGTTTTTCCATCCCATT 0.423 27 31 TMTC1 83857 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 12 29659825 29659825 + Missense_Mutation SNP C C T rs35279918 TCGA-HT-7684-01A-11D-2253-08 TCGA-HT-7684-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2a568f27-c888-41cc-8196-03e138badd58 e5c70770-2bcf-4654-8ed2-c33cd1e09326 TTTTTCTAGGCGATCCAATTT 0.453 33 78 DCLK1 9201 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 13 36686247 36686247 + Missense_Mutation SNP C C T TCGA-HT-7684-01A-11D-2253-08 TCGA-HT-7684-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2a568f27-c888-41cc-8196-03e138badd58 e5c70770-2bcf-4654-8ed2-c33cd1e09326 AGACACTGCCCGAGAAGCCGA 0.522 13 43 DIS3 22894 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 13 73346337 73346337 + Missense_Mutation SNP T T C TCGA-HT-7684-01A-11D-2253-08 TCGA-HT-7684-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2a568f27-c888-41cc-8196-03e138badd58 e5c70770-2bcf-4654-8ed2-c33cd1e09326 ATGTAGAGCATCGTCTATATC 0.363 17 28 FOXG1 2290 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 14 29237034 29237034 + Silent SNP G G A TCGA-HT-7684-01A-11D-2253-08 TCGA-HT-7684-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2a568f27-c888-41cc-8196-03e138badd58 e5c70770-2bcf-4654-8ed2-c33cd1e09326 AGAAGCCGCCGTTCAGCTACA 0.637 12 22 ISM2 145501 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 14 77942239 77942239 + Missense_Mutation SNP G G A TCGA-HT-7684-01A-11D-2253-08 TCGA-HT-7684-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2a568f27-c888-41cc-8196-03e138badd58 e5c70770-2bcf-4654-8ed2-c33cd1e09326 GCAGAAGCGCGCCGTGGGCTG 0.677 8 25 TTYH2 94015 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 17 72249349 72249349 + Silent SNP G G A TCGA-HT-7684-01A-11D-2253-08 TCGA-HT-7684-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2a568f27-c888-41cc-8196-03e138badd58 e5c70770-2bcf-4654-8ed2-c33cd1e09326 TGGGAAGTCAGACCAGCCTGC 0.647 20 66 EVPL 2125 hgsc.bcm.edu;broad.mit.edu 37 17 74003681 74003681 + Missense_Mutation SNP C C T TCGA-HT-7684-01A-11D-2253-08 TCGA-HT-7684-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2a568f27-c888-41cc-8196-03e138badd58 e5c70770-2bcf-4654-8ed2-c33cd1e09326 AGCAGGTCCACGATGCCCCCT 0.617 5 55 C3 718 hgsc.bcm.edu;broad.mit.edu 37 19 6712560 6712560 + Missense_Mutation SNP T T C TCGA-HT-7684-01A-11D-2253-08 TCGA-HT-7684-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2a568f27-c888-41cc-8196-03e138badd58 e5c70770-2bcf-4654-8ed2-c33cd1e09326 TACTTGGGTGTCTTGGTGAAG 0.622 15 206 ALG6 29929 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 1 63876858 63876858 + Missense_Mutation SNP T T C TCGA-HT-7684-01A-11D-2253-08 TCGA-HT-7684-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2a568f27-c888-41cc-8196-03e138badd58 e5c70770-2bcf-4654-8ed2-c33cd1e09326 TGGGGTGTTCTTGGAATATCT 0.363 56 152 DLGAP4 22839 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 20 35060961 35060961 + Missense_Mutation SNP G G T TCGA-HT-7684-01A-11D-2253-08 TCGA-HT-7684-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2a568f27-c888-41cc-8196-03e138badd58 e5c70770-2bcf-4654-8ed2-c33cd1e09326 CCCCAGCCTTGGGGTGGGCAC 0.632 11 8 LRP2 4036 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 2 170038748 170038748 + Silent SNP C C T TCGA-HT-7684-01A-11D-2253-08 TCGA-HT-7684-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2a568f27-c888-41cc-8196-03e138badd58 e5c70770-2bcf-4654-8ed2-c33cd1e09326 CCACACAGTGCTGGGCCAGCA 0.532 34 95 ANKAR 150709 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 2 190585366 190585366 + Missense_Mutation SNP A A C TCGA-HT-7684-01A-11D-2253-08 TCGA-HT-7684-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2a568f27-c888-41cc-8196-03e138badd58 e5c70770-2bcf-4654-8ed2-c33cd1e09326 AAGCCTGATAAATCTATTGAA 0.284 20 49 IDH1 3417 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 2 209113112 209113112 + Missense_Mutation SNP C C T rs121913500 TCGA-HT-7684-01A-11D-2253-08 TCGA-HT-7684-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2a568f27-c888-41cc-8196-03e138badd58 e5c70770-2bcf-4654-8ed2-c33cd1e09326 ATAAGCATGACGACCTATGAT 0.393 38 50 SETD2 29072 hgsc.bcm.edu;broad.mit.edu 37 3 47103767 47103767 + Nonsense_Mutation SNP G G C TCGA-HT-7684-01A-11D-2253-08 TCGA-HT-7684-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2a568f27-c888-41cc-8196-03e138badd58 e5c70770-2bcf-4654-8ed2-c33cd1e09326 TCTCTCTCTTGACCTATTAGG 0.463 8 156 CCDC54 84692 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 3 107097101 107097101 + Missense_Mutation SNP C C T TCGA-HT-7684-01A-11D-2253-08 TCGA-HT-7684-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2a568f27-c888-41cc-8196-03e138badd58 e5c70770-2bcf-4654-8ed2-c33cd1e09326 TCTGAAGAAACGTAACCATCA 0.378 27 42 SLC9C1 285335 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 3 111887770 111887770 + Missense_Mutation SNP C C T TCGA-HT-7684-01A-11D-2253-08 TCGA-HT-7684-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2a568f27-c888-41cc-8196-03e138badd58 e5c70770-2bcf-4654-8ed2-c33cd1e09326 ATAAGTTTTTCGTAACAGACA 0.323 20 58 TRPC7 57113 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 5 135561020 135561020 + Missense_Mutation SNP A A G TCGA-HT-7684-01A-11D-2253-08 TCGA-HT-7684-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2a568f27-c888-41cc-8196-03e138badd58 e5c70770-2bcf-4654-8ed2-c33cd1e09326 AGAATTCCTCATGCCAGCCTG 0.453 9 16 MEGT1 58530 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 6 31685399 31685399 + Missense_Mutation SNP G G A TCGA-HT-7684-01A-11D-2253-08 TCGA-HT-7684-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2a568f27-c888-41cc-8196-03e138badd58 e5c70770-2bcf-4654-8ed2-c33cd1e09326 CTGCGTCGCAGCCCATCATTG 0.577 97 199 DST 667 hgsc.bcm.edu;ucsc.edu 37 6 56483529 56483529 + Missense_Mutation SNP G G A TCGA-HT-7684-01A-11D-2253-08 TCGA-HT-7684-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2a568f27-c888-41cc-8196-03e138badd58 e5c70770-2bcf-4654-8ed2-c33cd1e09326 ATCATTTTCAGTGATGACTTT 0.358 21 64 EEF1A1 1915 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 6 74229668 74229668 + Missense_Mutation SNP T T C TCGA-HT-7684-01A-11D-2253-08 TCGA-HT-7684-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2a568f27-c888-41cc-8196-03e138badd58 e5c70770-2bcf-4654-8ed2-c33cd1e09326 CATTTATAGATCAGATGGCCA 0.413 15 43 CD36 948 hgsc.bcm.edu;broad.mit.edu 37 7 80286000 80286000 + Missense_Mutation SNP G G A TCGA-HT-7684-01A-11D-2253-08 TCGA-HT-7684-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2a568f27-c888-41cc-8196-03e138badd58 e5c70770-2bcf-4654-8ed2-c33cd1e09326 TAAGCAAAGAGGTCCTTATAC 0.398 4 83 TBC1D2 55357 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 9 100991314 100991314 + Missense_Mutation SNP G G A TCGA-HT-7684-01A-11D-2253-08 TCGA-HT-7684-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2a568f27-c888-41cc-8196-03e138badd58 e5c70770-2bcf-4654-8ed2-c33cd1e09326 GTTCGGTTCCGTGTGATTCCT 0.522 13 43 OR13D1 286365 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 9 107456818 107456818 + Missense_Mutation SNP C C G TCGA-HT-7684-01A-11D-2253-08 TCGA-HT-7684-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2a568f27-c888-41cc-8196-03e138badd58 e5c70770-2bcf-4654-8ed2-c33cd1e09326 AGAAATTACTCTGCCATGACT 0.423 7 27 MUSK 4593 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 9 113562782 113562782 + Missense_Mutation SNP G G C TCGA-HT-7684-01A-11D-2253-08 TCGA-HT-7684-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2a568f27-c888-41cc-8196-03e138badd58 e5c70770-2bcf-4654-8ed2-c33cd1e09326 TTGCCAGGCAGGTGGCAGCTG 0.567 32 121 PTGS1 5742 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 9 125154668 125154668 + Missense_Mutation SNP T T G TCGA-HT-7684-01A-11D-2253-08 TCGA-HT-7684-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2a568f27-c888-41cc-8196-03e138badd58 e5c70770-2bcf-4654-8ed2-c33cd1e09326 GCCGAGCACATTTGGCGGCGA 0.537 26 67 HCCS 3052 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 X 11135492 11135492 + Missense_Mutation SNP T T C TCGA-HT-7684-01A-11D-2253-08 TCGA-HT-7684-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2a568f27-c888-41cc-8196-03e138badd58 e5c70770-2bcf-4654-8ed2-c33cd1e09326 AAAGTGGGTTTACCCTTCTGA 0.383 43 34 NOL8 55035 broad.mit.edu;ucsc.edu 37 9 95077012 95077012 + Missense_Mutation SNP T T C TCGA-HT-7684-01A-11D-2253-08 TCGA-HT-7684-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2a568f27-c888-41cc-8196-03e138badd58 e5c70770-2bcf-4654-8ed2-c33cd1e09326 CTTCTTTGCATGTTGGCATGG 0.453 6 11 EFTUD2 9343 broad.mit.edu;ucsc.edu 37 17 42931994 42931994 + Missense_Mutation SNP C C T TCGA-HT-7684-01A-11D-2253-08 TCGA-HT-7684-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2a568f27-c888-41cc-8196-03e138badd58 e5c70770-2bcf-4654-8ed2-c33cd1e09326 CCAGATGGAACGGGCAGCCAG 0.567 18 31 SSPO 23145 broad.mit.edu;ucsc.edu 37 7 149482723 149482723 + RNA SNP C C G TCGA-HT-7684-01A-11D-2253-08 TCGA-HT-7684-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2a568f27-c888-41cc-8196-03e138badd58 e5c70770-2bcf-4654-8ed2-c33cd1e09326 GGCCAGTGGCCTATTCACAGT 0.627 5 7 IQGAP1 8826 broad.mit.edu;ucsc.edu 37 15 91034589 91034589 + Nonsense_Mutation SNP C C T TCGA-HT-7684-01A-11D-2253-08 TCGA-HT-7684-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2a568f27-c888-41cc-8196-03e138badd58 e5c70770-2bcf-4654-8ed2-c33cd1e09326 GAGAGCCATGCAGAGACGTGC 0.398 4 27 SYNE2 23224 broad.mit.edu;ucsc.edu 37 14 64676802 64676802 + Missense_Mutation SNP A A G TCGA-HT-7684-01A-11D-2253-08 TCGA-HT-7684-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2a568f27-c888-41cc-8196-03e138badd58 e5c70770-2bcf-4654-8ed2-c33cd1e09326 CGCTGGGACAACCTTCAGAGG 0.622 8 19 KLHL28 54813 broad.mit.edu;hgsc.bcm.edu 37 14 45415078 45415078 + Frame_Shift_Del DEL A A - TCGA-HT-7684-01A-11D-2253-08 TCGA-HT-7684-10A-01D-2253-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2a568f27-c888-41cc-8196-03e138badd58 e5c70770-2bcf-4654-8ed2-c33cd1e09326 GAAGTTGTTCAGAATGCAAGT 0.403 21 59