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 HKDC1 80201 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 10 71007297 71007297 + Missense_Mutation SNP C C T TCGA-CS-5394-01A-01D-1468-08 TCGA-CS-5394-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2e67f766-3799-4ce1-8c9c-d966d96302bf ed3dfb55-5905-4bb2-a497-276c2d8b43d2 GAAGGTGGAACGGCTCCGGAC 0.612 17 40 ACTA2 59 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 10 90708581 90708581 + Missense_Mutation SNP A A G TCGA-CS-5394-01A-01D-1468-08 TCGA-CS-5394-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2e67f766-3799-4ce1-8c9c-d966d96302bf ed3dfb55-5905-4bb2-a497-276c2d8b43d2 ACGTCCCACAATGGATGGGAA 0.502 57 58 MEN1 4221 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 11 64573758 64573758 + Missense_Mutation SNP C C T TCGA-CS-5394-01A-01D-1468-08 TCGA-CS-5394-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2e67f766-3799-4ce1-8c9c-d966d96302bf ed3dfb55-5905-4bb2-a497-276c2d8b43d2 CCGCACATTGCGGTTGCGACA 0.602 47 68 MTUS2 23281 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 13 29600879 29600879 + Missense_Mutation SNP G G A TCGA-CS-5394-01A-01D-1468-08 TCGA-CS-5394-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2e67f766-3799-4ce1-8c9c-d966d96302bf ed3dfb55-5905-4bb2-a497-276c2d8b43d2 TCCCCACGAAGAGAAGGCAGC 0.587 16 21 AKAP6 9472 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 14 33293788 33293788 + Missense_Mutation SNP G G A rs140237441 byFrequency TCGA-CS-5394-01A-01D-1468-08 TCGA-CS-5394-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2e67f766-3799-4ce1-8c9c-d966d96302bf ed3dfb55-5905-4bb2-a497-276c2d8b43d2 GGAAAGTTCCGGAAAACCAGG 0.438 27 35 JKAMP 51528 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 14 59970667 59970667 + Silent SNP G G A TCGA-CS-5394-01A-01D-1468-08 TCGA-CS-5394-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2e67f766-3799-4ce1-8c9c-d966d96302bf ed3dfb55-5905-4bb2-a497-276c2d8b43d2 TTTCCAGAGTGGATAAACTTG 0.398 25 35 RYR3 6263 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 15 33822854 33822854 + Missense_Mutation SNP C C G TCGA-CS-5394-01A-01D-1468-08 TCGA-CS-5394-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2e67f766-3799-4ce1-8c9c-d966d96302bf ed3dfb55-5905-4bb2-a497-276c2d8b43d2 CTGAGGCACTCTTTCAGCGGA 0.512 7 11 MFAP1 4236 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 15 44109449 44109449 + Missense_Mutation SNP T T C TCGA-CS-5394-01A-01D-1468-08 TCGA-CS-5394-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2e67f766-3799-4ce1-8c9c-d966d96302bf ed3dfb55-5905-4bb2-a497-276c2d8b43d2 TCTTCACTAATACGGTTCTGT 0.398 33 65 FUBP1 8880 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 1 78422352 78422352 + Nonsense_Mutation SNP C C T TCGA-CS-5394-01A-01D-1468-08 TCGA-CS-5394-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2e67f766-3799-4ce1-8c9c-d966d96302bf ed3dfb55-5905-4bb2-a497-276c2d8b43d2 ATAAGCAGCCCAAGCTGCTGA 0.458 23 6 TAGLN2 8407 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 1 159890149 159890149 + Missense_Mutation SNP T T C TCGA-CS-5394-01A-01D-1468-08 TCGA-CS-5394-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2e67f766-3799-4ce1-8c9c-d966d96302bf ed3dfb55-5905-4bb2-a497-276c2d8b43d2 TTCTGGAAGTTCTCGCGTCCA 0.587 46 5 SULF2 55959 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 20 46305256 46305256 + Silent SNP C C A TCGA-CS-5394-01A-01D-1468-08 TCGA-CS-5394-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2e67f766-3799-4ce1-8c9c-d966d96302bf ed3dfb55-5905-4bb2-a497-276c2d8b43d2 GCTGCTCACACGCCGTCTGGT 0.612 6 5 LSM14B 149986 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 20 60701373 60701373 + Missense_Mutation SNP C C G TCGA-CS-5394-01A-01D-1468-08 TCGA-CS-5394-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2e67f766-3799-4ce1-8c9c-d966d96302bf ed3dfb55-5905-4bb2-a497-276c2d8b43d2 TCCCTGGGTTCTGCCTCCGCC 0.657 17 18 HELZ2 85441 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 20 62200696 62200696 + Missense_Mutation SNP T T C TCGA-CS-5394-01A-01D-1468-08 TCGA-CS-5394-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2e67f766-3799-4ce1-8c9c-d966d96302bf ed3dfb55-5905-4bb2-a497-276c2d8b43d2 CACGTGGCGGTTGCCAGTGTG 0.697 6 8 TAF1B 9014 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 2 10016065 10016065 + Missense_Mutation SNP A A G TCGA-CS-5394-01A-01D-1468-08 TCGA-CS-5394-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2e67f766-3799-4ce1-8c9c-d966d96302bf ed3dfb55-5905-4bb2-a497-276c2d8b43d2 AATCGTGAAGATGACCATGCC 0.413 54 70 IDH1 3417 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 2 209113112 209113112 + Missense_Mutation SNP C C T rs121913500 TCGA-CS-5394-01A-01D-1468-08 TCGA-CS-5394-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2e67f766-3799-4ce1-8c9c-d966d96302bf ed3dfb55-5905-4bb2-a497-276c2d8b43d2 ATAAGCATGACGACCTATGAT 0.393 19 39 PBRM1 55193 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 3 52621372 52621372 + Silent SNP G G C TCGA-CS-5394-01A-01D-1468-08 TCGA-CS-5394-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2e67f766-3799-4ce1-8c9c-d966d96302bf ed3dfb55-5905-4bb2-a497-276c2d8b43d2 TTCTTACCTTGACAAACATGA 0.318 30 41 FSTL5 56884 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 4 162841556 162841556 + Splice_Site SNP C C T TCGA-CS-5394-01A-01D-1468-08 TCGA-CS-5394-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2e67f766-3799-4ce1-8c9c-d966d96302bf ed3dfb55-5905-4bb2-a497-276c2d8b43d2 CTTCATTTACCTTTAAAGAAG 0.378 20 33 HSPA5 3309 hgsc.bcm.edu;broad.mit.edu 37 9 128001229 128001229 + Silent SNP C C T TCGA-CS-5394-01A-01D-1468-08 TCGA-CS-5394-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2e67f766-3799-4ce1-8c9c-d966d96302bf ed3dfb55-5905-4bb2-a497-276c2d8b43d2 CCATGTTGAGCTCTTCAAATT 0.418 4 66 ANGPTL2 23452 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 9 129853996 129853996 + Missense_Mutation SNP T T C TCGA-CS-5394-01A-01D-1468-08 TCGA-CS-5394-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2e67f766-3799-4ce1-8c9c-d966d96302bf ed3dfb55-5905-4bb2-a497-276c2d8b43d2 CTGCTTGCCGTTGTGCCATGT 0.537 114 132 MED14 9282 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 X 40572233 40572233 + Silent SNP T T C TCGA-CS-5394-01A-01D-1468-08 TCGA-CS-5394-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2e67f766-3799-4ce1-8c9c-d966d96302bf ed3dfb55-5905-4bb2-a497-276c2d8b43d2 CAGGGTCATCTCCCATCACAG 0.383 15 6 PAX4 5078 broad.mit.edu;ucsc.edu 37 7 127255106 127255106 + Missense_Mutation SNP C C T TCGA-CS-5394-01A-01D-1468-08 TCGA-CS-5394-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2e67f766-3799-4ce1-8c9c-d966d96302bf ed3dfb55-5905-4bb2-a497-276c2d8b43d2 GACACCTGTGCGGTAGTAACG 0.572 44 44 JKAMP 51528 broad.mit.edu;ucsc.edu 37 14 59970666 59970666 + Missense_Mutation SNP T T A TCGA-CS-5394-01A-01D-1468-08 TCGA-CS-5394-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2e67f766-3799-4ce1-8c9c-d966d96302bf ed3dfb55-5905-4bb2-a497-276c2d8b43d2 ATTTCCAGAGTGGATAAACTT 0.398 24 33 PCDH10 57575 broad.mit.edu;hgsc.bcm.edu 37 4 134071550 134071553 + Frame_Shift_Del DEL CAAA CAAA - TCGA-CS-5394-01A-01D-1468-08 TCGA-CS-5394-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2e67f766-3799-4ce1-8c9c-d966d96302bf ed3dfb55-5905-4bb2-a497-276c2d8b43d2 AACAAATCTGCAAACAGAGCCCCT 0.549 30 71 PIK3R1 5295 broad.mit.edu;hgsc.bcm.edu 37 5 67589586 67589591 + In_Frame_Del DEL ATGAAT ATGAAT - rs17852841 TCGA-CS-5394-01A-01D-1468-08 TCGA-CS-5394-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2e67f766-3799-4ce1-8c9c-d966d96302bf ed3dfb55-5905-4bb2-a497-276c2d8b43d2 AAAAAATTACATGAATATAACACTCA 0.277 21 27 CIC 23152 broad.mit.edu;hgsc.bcm.edu 37 19 42798786 42798787 + Frame_Shift_Ins INS - - A TCGA-CS-5394-01A-01D-1468-08 TCGA-CS-5394-10A-01D-1468-08 Untested Somatic Phase_I WXS none Illumina GAIIx 2e67f766-3799-4ce1-8c9c-d966d96302bf ed3dfb55-5905-4bb2-a497-276c2d8b43d2 CTTGGGGAGCTAGAGTATGACA 0.644 25 14