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 COSMIC_Codon COSMIC_Gene Transcript_Id Exon ChromChange AAChange Genome_Plus_Minus_10_Bp Drug_Target TTotCov TVarCov NTotCov NVarCov dbSNPPopFreq Trna_tot Trna_ref Trna_var Trna_alt1 Trna_alt2 ARID1A 8289 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 1 27107195 27107195 + Nonsense_Mutation SNP C C A novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . ARID1A-584 NM_006015 exon20 c.C6806A p.S2269X TGAACTCATTGGT . 118 47 198 0 . 27 11 16 0 0 C1orf194 127003 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 1 109649721 109649721 + Silent SNP G G A novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . C1orf194-23 NM_001122961 exon3 c.C186T p.F62F TAAGCGGAAGTCC . 217 93 183 0 . 1 1 0 0 0 RFX5 5993 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 1 151314667 151314667 + Missense_Mutation SNP G G T novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . RFX5-91 NM_000449 exon11 c.C1846A p.P616T ATCATGGGGGTGT . 94 47 129 0 . 44 20 24 0 0 ASH1L 55870 broad.mit.edu 37 1 155324299 155324299 + Missense_Mutation SNP T T C novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 T T . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . ASH1L-234 NM_018489 exon16 c.A7178G p.N2393S ATCCCATTCCAAC . 269 7 280 0 . 8 7 1 0 0 CENPL 91687 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca 37 1 173772191 173772191 + Missense_Mutation SNP G G T novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . CENPL-90 NM_001127181 exon6 c.C1011A p.F337L TCTATGGAAATGT . 84 8 79 1 . 1 1 0 0 0 PRG4 10216 bcgsc.ca 37 1 186276075 186276075 + Silent SNP T T C novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 T T - - - - Unknown Untested Somatic Phase_1 WXS none Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . PRG4-91 NM_005807 exon7 c.T1224C p.T408T CACCACTCCCAAG . 222 28 161 11 . 0 0 0 0 0 PIK3C2B 5287 bcgsc.ca 37 1 204412626 204412626 + Missense_Mutation SNP C C A novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 C C - - - - Unknown Untested Somatic Phase_1 WXS none Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . PIK3C2B-1310 NM_002646 exon20 c.G2967T p.E989D GTTAAACTCTTCT . 190 57 262 1 . 2 2 0 0 0 USH2A 7399 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 1 216017693 216017693 + Missense_Mutation SNP A A T novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . USH2A-115 NM_206933 exon46 c.T9201A p.N3067K AGGCACATTCATT . 77 24 75 0 . 0 0 0 0 0 SIPA1L2 57568 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 1 232650317 232650317 + Missense_Mutation SNP G G A novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . SIPA1L2-95 NM_020808 exon1 c.C769T p.R257C AGATGCGGACAAA . 115 44 126 0 . 1 1 0 0 0 UNC5B 219699 bcgsc.ca 37 10 73050759 73050759 + Missense_Mutation SNP T T G rs117156661 TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 T T - - - - Unknown Untested Somatic Phase_1 WXS none Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . UNC5B-228 NM_170744 exon9 c.T1187G p.V396G TGGGGGTGGTGGT . 333 147 675 46 T|0.999;G|0.001 0 0 0 0 0 GBF1 8729 bcgsc.ca 37 10 104120011 104120011 + Silent SNP T T C novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 T T - - - - Unknown Untested Somatic Phase_1 WXS none Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . GBF1-91 NM_001199378 exon12 c.T1251C p.N417N CACCAATCCACAC . 397 76 633 7 . 16 16 0 0 0 NAV2 89797 broad.mit.edu 37 11 19954837 19954837 + Silent SNP G G A rs143560669 TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 G G . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . NAV2-96 NM_001244963 exon8 c.G1116A p.P372P CATCCCGCAGCCC . 430 5 435 0 G|0.999;A|0.000 2 2 0 0 0 FNBP4 23360 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 11 47745663 47745663 + Missense_Mutation SNP G G T novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . FNBP4-91 NM_015308 exon14 c.C2381A p.T794K ATTTCTGTAGCTT . 79 30 89 0 . 13 13 0 0 0 FNBP4 23360 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 11 47745665 47745665 + Silent SNP A A G novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . FNBP4-91 NM_015308 exon14 c.T2379C p.A793A TTCTGTAGCTTTC . 75 29 90 0 . 11 11 0 0 0 PTPRJ 5795 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 11 48142761 48142761 + Missense_Mutation SNP A A G novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . PTPRJ-541 NM_001098503 exon4 c.A559G p.T187A TCCATCACTCCAG . 69 20 102 0 . 15 9 6 0 0 GAB2 9846 bcgsc.ca 37 11 77937657 77937657 + Missense_Mutation SNP C C G novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 C C - - - - Unknown Untested Somatic Phase_1 WXS none Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . GAB2-663 NM_080491 exon4 c.G1061C p.R354P GGGGGGCGGGGTG . 99 46 144 1 . 2 2 0 0 0 NCAM1 4684 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 11 113103986 113103986 + Missense_Mutation SNP G G T novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . NCAM1-23 NM_001242607 exon15 c.G1718T p.W573L CTGAGTGGAGAGC . 42 16 45 0 . 0 0 0 0 0 CADM1 23705 bcgsc.ca 37 11 115049423 115049423 + Missense_Mutation SNP A A C novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 A A - - - - Unknown Untested Somatic Phase_1 WXS none Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . CADM1-92 NM_014333 exon9 c.T1151G p.V384G AACACCACCACCG . 114 38 264 8 . 36 35 0 1 0 CEP164 22897 bcgsc.ca 37 11 117280516 117280516 + Missense_Mutation SNP A A C novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 A A - - - - Unknown Untested Somatic Phase_1 WXS none Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . CEP164-69 NM_014956 exon30 c.A3931C p.T1311P ACCCCCACCCCCA . 231 44 408 7 . 8 8 0 0 0 LAG3 3902 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 12 6886460 6886460 + Missense_Mutation SNP C C G novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . LAG3-90 NM_002286 exon6 c.C1088G p.S363C CTGGATCCCTGGG . 158 67 136 0 . 0 0 0 0 0 PRB4 5545 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 12 11461501 11461501 + Missense_Mutation SNP C C A novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . PRB4-91 NM_002723 exon3 c.G416T p.G139V GGCTTTCCTGGAG . 566 232 531 0 . 0 0 0 0 0 TMTC2 160335 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 12 83290130 83290130 + Silent SNP G G A novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . TMTC2-92 NM_152588 exon3 c.G1188A p.L396L TGTTCTGTCTTTA . 208 96 214 0 . 32 18 14 0 0 BTG1 694 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 12 92537939 92537939 + Missense_Mutation SNP T T C novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . BTG1-683 NM_001731 exon2 c.A433G p.S145G TTCGGCTGTCTAC . 116 56 117 0 . 174 90 84 0 0 TMCC3 57458 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 12 94976205 94976205 + Missense_Mutation SNP T T A novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . TMCC3-92 NM_020698 exon2 c.A188T p.K63M TTGACCTTGTGGA . 146 62 166 0 . 11 6 5 0 0 DENND4A 10260 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 15 66031104 66031104 + Silent SNP A A G novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . DENND4A-229 NM_001144823 exon6 c.T741C p.N247N TTTGCTATTTGAT . 122 49 88 0 . 3 1 2 0 0 C15orf59 388135 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca 37 15 74032301 74032301 + Missense_Mutation SNP A A T novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . C15orf59-91 NM_001039614 exon2 c.T839A p.L280Q TAGGGCAGAACCG . 163 72 250 0 . 18 10 8 0 0 ACSM1 116285 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 16 20682868 20682868 + Missense_Mutation SNP G G T novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . ACSM1-91 NM_052956 exon4 c.C737A p.P246H AAGGAGGGTTGTA . 111 36 61 0 . 45 37 8 0 0 APOBR 55911 hgsc.bcm.edu 37 16 28507273 28507273 + Missense_Mutation SNP T T C novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . APOBR-90 NM_018690 exon2 c.T911C p.I304T GGACAATCTCAGG . 68 5 53 1 . 0 0 0 0 0 WDR81 124997 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 17 1633711 1633711 + Silent SNP G G A novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . WDR81-91 NM_001163809 exon2 c.G3705A p.K1235K TGCCAAGCTCGGC . 69 15 67 0 . 11 9 2 0 0 MYBBP1A 10514 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 17 4445915 4445915 + Missense_Mutation SNP T T C novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . MYBBP1A-92 NM_014520 exon21 c.A3014G p.H1005R ACCGGGTGCCGGG . 189 115 137 0 . 0 0 0 0 0 ALOX15B 247 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 17 7948982 7948982 + Missense_Mutation SNP C C T novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . ALOX15B-227 NM_001141 exon8 c.C1178T p.P393L AGCTGCCCCACTG . 78 38 45 0 . 2 2 0 0 0 MYH2 4620 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 17 10433386 10433386 + Silent SNP G G A novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . MYH2-194 NM_017534 exon23 c.C2703T p.A901A GCCTTCGGCTTCC . 254 82 152 0 . 0 0 0 0 0 TVP23C 201158 ucsc.edu 37 17 15457087 15457087 + Missense_Mutation SNP C C T novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 C C . . . . Unknown Untested Somatic WXS none Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . . NM_145301 exon3 c.G152A p.C51Y AGAAGACAGACGA . 471 79 301 46 . 50 7 43 0 0 ACE 1636 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 17 61561775 61561775 + Silent SNP G G C rs137910205 alternate_allele TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . ACE-94 NM_000789 exon12 c.G1794C p.P598P CCAGCCGCTGCTC . 57 27 50 1 G|1.000;A|0.000 36 10 26 0 0 EPB41L3 23136 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 18 5406855 5406855 + Missense_Mutation SNP T T C novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . EPB41L3-95 NM_012307 exon16 c.A2270G p.K757R AGCCTCTTCTCCC . 116 49 162 0 . 43 21 22 0 0 DSC2 1824 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 18 28660278 28660278 + Missense_Mutation SNP A A C novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . DSC2-517 NM_024422 exon10 c.T1304G p.I435S ACACCAATTTGCA . 70 30 68 0 . 19 9 10 0 0 ICAM5 7087 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 19 10403449 10403449 + Missense_Mutation SNP A A G novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . ICAM5-153 NM_003259 exon5 c.A1123G p.N375D ACCGAGAACGACG . 56 8 99 0 . 0 0 0 0 0 ZSWIM4 65249 ucsc.edu 37 19 13919690 13919690 + Silent SNP C C A novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 C C . . . . Unknown Untested Somatic WXS none Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . ZSWIM4-90 NM_023072 exon4 c.C753A p.A251A GGACGCCAACTGC . 35 4 30 0 . 2 2 0 0 0 PEG3 5178 broad.mit.edu 37 19 57326548 57326548 + Missense_Mutation SNP C C A novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 C C . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . PEG3-164 NM_001146184 exon9 c.G3262T p.V1088F GAATGACAGGGTC . 102 4 146 0 . 0 0 0 0 0 PELI1 57162 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 2 64323347 64323347 + Missense_Mutation SNP G G A novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . PELI1-91 NM_020651 exon6 c.C602T p.S201F GGCTTGGAGTCTT . 124 45 121 0 . 10 6 4 0 0 NCK2 8440 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 2 106498221 106498221 + Missense_Mutation SNP A A G novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . NCK2-415 NM_001004720 exon3 c.A664G p.M222V GAGACCATGGAGG . 178 71 198 1 . 104 60 44 0 0 RGPD3 653489 broad.mit.edu 37 2 107049631 107049631 + Silent SNP C C T rs2912696 TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 C C . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . RGPD3-23 NM_001144013 exon16 c.G2316A p.A772A TGAATCCGCATTT . 383 6 292 0 . 17 0 17 0 0 ZC3H6 376940 ucsc.edu 37 2 113069433 113069433 + Silent SNP G G A novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 G G . . . . Unknown Untested Somatic WXS none Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . ZC3H6-93 NM_198581 exon5 c.G666A p.P222P CTTGCCGAAGAAA . 37 4 28 0 . 6 6 0 0 0 CCDC108 255101 bcgsc.ca 37 2 219886565 219886565 + Missense_Mutation SNP T T G novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 T T - - - - Unknown Untested Somatic Phase_1 WXS none Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . CCDC108-94 NM_194302 exon18 c.A3067C p.T1023P AGAGGGTGCAGTT . 232 72 308 3 . 0 0 0 0 0 COL4A4 1286 broad.mit.edu;ucsc.edu;bcgsc.ca 37 2 227872789 227872789 + Missense_Mutation SNP A A G novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 A A . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . COL4A4-142 NM_000092 exon47 c.T4754C p.I1585T GGGGGGATGGACT . 50 17 80 2 . 7 2 5 0 0 FRG1B 284802 broad.mit.edu 37 20 29628236 29628236 + RNA SNP G G C novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 G G . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . FRG1B-22 . . . . AAAATGGCTTTGT . 218 5 238 2 . 0 0 0 0 0 CPNE1 8904 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 20 34215310 34215310 + Nonsense_Mutation SNP G G T novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . CPNE1-91 NM_003915 exon14 c.C1143A p.Y381X TTGGCGGTAGGCA . 110 49 112 1 . 55 48 7 0 0 ROMO1 140823 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 20 34288799 34288799 + Missense_Mutation SNP A A G novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . ROMO1-90 NM_080748 exon3 c.A211G p.M71V ACATTCATGGCCA . 127 49 105 0 . 215 105 110 0 0 TAF4 6874 hgsc.bcm.edu 37 20 60639811 60639811 + Missense_Mutation SNP C C A novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . TAF4-93 NM_003185 exon1 c.G1056T p.Q352H CGCCGCCTGCACC . 9 6 1 1 . 0 0 0 0 0 SON 6651 hgsc.bcm.edu 37 21 34948684 34948684 + Missense_Mutation SNP G G A novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . SON-97 NM_138927 exon12 c.G7235A p.G2412E GAAATGGAGCCCT . 58 10 32 2 . 0 0 0 0 0 IQSEC1 9922 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 3 12957106 12957106 + Silent SNP C C T novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . IQSEC1-91 NM_014869 exon7 c.G2190A p.V730V TTTCCCCACAATG . 94 22 134 0 . 0 0 0 0 0 GOLGA4 2803 broad.mit.edu;bcgsc.ca 37 3 37369907 37369907 + Silent SNP A A G novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 A A . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . GOLGA4-93 NM_001172713 exon16 c.A6006G p.K2002K ACTCAGACAGGAG . 180 8 157 0 . 0 0 0 0 0 PLXNB1 5364 bcgsc.ca 37 3 48451952 48451952 + Missense_Mutation SNP A A C novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 A A - - - - Unknown Untested Somatic Phase_1 WXS none Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . PLXNB1-293 NM_001130082 exon30 c.T5432G p.V1811G CCGGCCACCCCAG . 43 19 85 2 . 89 88 1 0 0 MASP1 5648 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 3 187009418 187009418 + Missense_Mutation SNP C C G novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . MASP1-94 NM_139125 exon1 c.G3C p.M1I GTACCTCATTTTC . 211 46 178 0 . 0 0 0 0 0 UGDH 7358 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 4 39515753 39515753 + Missense_Mutation SNP A A G novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . UGDH-156 NM_003359 exon3 c.T214C p.S72P TGGTAGAAAAAAA . 98 40 81 0 . 25 11 14 0 0 NAF1 92345 broad.mit.edu 37 4 164050124 164050124 + Silent SNP T T G novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 T T . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . NAF1-70 NM_138386 exon8 c.A1410C p.P470P AGGGGGTGGGGGT . 20 9 24 0 . 3 3 0 0 0 CCDC110 256309 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 4 186380257 186380257 + Missense_Mutation SNP C C A novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . CCDC110-90 NM_152775 exon6 c.G1484T p.S495I GTTTTACTTAACT . 31 12 20 0 . 5 5 0 0 0 SORBS2 8470 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 4 186545386 186545386 + Missense_Mutation SNP G G T novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . SORBS2-91 NM_001270771 exon16 c.C1485A p.F495L GTCCGGGAAGCTA . 70 30 96 0 . 0 0 0 0 0 MTRR 4552 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca 37 5 7886796 7886796 + Missense_Mutation SNP A A G novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . MTRR-91 NM_024010 exon8 c.A1207G p.I403V CTTGAAATCCGAG . 79 5 91 0 . 28 27 1 0 0 P4HA2 8974 broad.mit.edu 37 5 131546092 131546092 + Silent SNP G G T rs147510145 TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 G G . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . P4HA2-68 NM_001017974 exon6 c.C594A p.A198A CTCCCCGGCATCA . 264 5 245 0 A|0.000;G|1.000 53 53 0 0 0 FAM46A 55603 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 6 82461655 82461655 + Missense_Mutation SNP C C A novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . FAM46A-90 NM_017633 exon2 c.G204T p.W68C TTGCTCCCAGTTC . 124 61 197 0 . 3 1 2 0 0 MDN1 23195 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 6 90411386 90411386 + Missense_Mutation SNP T T A novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . MDN1-100 NM_014611 exon55 c.A8318T p.E2773V TGAACTTCTTTGT . 52 26 52 0 . 0 0 0 0 0 ECHDC1 55862 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 6 127611395 127611395 + Silent SNP T T C novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . ECHDC1-90 NM_001139510 exon6 c.A543G p.R181R GACGAATCTGATC . 93 37 80 0 . 46 28 18 0 0 RSPH3 83861 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 6 159401839 159401839 + Missense_Mutation SNP C C T novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . RSPH3-92 NM_031924 exon6 c.G1252A p.D418N CACTATCCCTGAG . 44 18 60 0 . 27 11 16 0 0 C7orf26 79034 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 7 6639468 6639468 + Missense_Mutation SNP A A T novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . C7orf26-91 NM_024067 exon4 c.A589T p.I197F GACCTCATTCCAC . 218 126 193 0 . 0 0 0 0 0 HDAC9 9734 broad.mit.edu;bcgsc.ca 37 7 18625059 18625059 + Nonsense_Mutation SNP C C T novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 C C . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . HDAC9-227 NM_001204144 exon5 c.C304T p.Q102X CAAATCCAGAAGC . 100 6 76 0 . 10 9 1 0 0 HERPUD2 64224 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 7 35707133 35707133 + Silent SNP A A G novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . HERPUD2-93 NM_022373 exon5 c.T405C p.G135G GGAAGAACCCACA . 179 111 133 0 . 38 9 29 0 0 ZAN 7455 bcgsc.ca 37 7 100350046 100350046 + Missense_Mutation SNP T T C novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 T T - - - - Unknown Untested Somatic Phase_1 WXS none Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . ZAN-142 . . . . AAAAACTCACCAT . 227 22 136 6 . 0 0 0 0 0 MUC17 140453 broad.mit.edu 37 7 100681919 100681919 + Missense_Mutation SNP C C T novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 C C . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . MUC17-95 NM_001040105 exon3 c.C7222T p.P2408S ACCATGCCGGTGG . 841 6 585 0 . 0 0 0 0 0 PCMTD1 115294 broad.mit.edu 37 8 52733204 52733204 + Missense_Mutation SNP C C G novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 C C . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . PCMTD1-68 NM_052937 exon6 c.G781C p.D261H TCTCATCATTTAT . 197 9 177 0 . 29 29 0 0 0 NSMAF 8439 broad.mit.edu 37 8 59498243 59498243 + Missense_Mutation SNP G G T novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 G G . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . NSMAF-91 NM_001144772 exon30 c.C2720A p.A907E ATTTTTGCTCCAA . 125 5 95 0 . 15 15 0 0 0 WWP1 11059 ucsc.edu 37 8 87392964 87392964 + Missense_Mutation SNP C C A novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 C C . . . . Unknown Untested Somatic WXS none Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . WWP1-659 NM_007013 exon4 c.C80A p.A27D CTAGTGCCAAACT . 40 4 25 0 . 0 0 0 0 0 TAF1L 138474 bcgsc.ca 37 9 32635283 32635283 + Missense_Mutation SNP A A C novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 A A - - - - Unknown Untested Somatic Phase_1 WXS none Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . TAF1L-870 NM_153809 exon1 c.T295G p.W99G TAATCCACCCTTC . 229 62 312 3 . 0 0 0 0 0 RUSC2 9853 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 9 35560975 35560975 + Silent SNP G G A novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . RUSC2-91 NM_014806 exon11 c.G4230A p.L1410L CTGGCTGAGCCTG . 52 24 76 0 . 32 18 14 0 0 GAPVD1 26130 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 9 128117063 128117063 + Missense_Mutation SNP G G A novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . GAPVD1-93 NM_015635 exon23 c.G3781A p.V1261I ACCACTGTCTGTG . 177 70 159 0 . 20 11 9 0 0 ARRDC1 92714 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 9 140508526 140508526 + Missense_Mutation SNP C C A novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . ARRDC1-90 NM_152285 exon5 c.C478A p.L160M TACAAGCTGGTGA . 183 61 225 0 . 82 44 38 0 0 SUPT20HL1 100130302 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca 37 X 24381817 24381817 + Missense_Mutation SNP G G T novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . . NM_001136234 exon1 c.G940T p.G314W GCTAAAGGGTATC . 181 119 185 0 . 0 0 0 0 0 ZXDB 158586 hgsc.bcm.edu 37 X 57618845 57618845 + Missense_Mutation SNP G G A rs199513692 TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . ZXDB-130 NM_007157 exon1 c.G364A p.E122K GAGGCCGAGGAGG . 18 6 9 2 . 0 0 0 0 0 GLUD2 2747 ucsc.edu 37 X 120182120 120182120 + Silent SNP C C T novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 C C . . . . Unknown Untested Somatic WXS none Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . GLUD2-131 NM_012084 exon1 c.C582T p.T194T CTATACCGAAAAT . 92 2 112 0 . 2 2 0 0 0 CDHR5 53841 broad.mit.edu 37 11 618807 618807 + Frame_Shift_Del DEL G G - novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 G G . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . CDHR5-90 NM_021924 exon13 c.1752delC p.P584fs CATACTGGGGGGC . 254 7 289 0 . 0 0 0 0 0 PUS3 83480 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca 37 11 125765906 125765922 + Frame_Shift_Del DEL TCTCTTCAATGGTATTA TCTCTTCAATGGTATTA - novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 TCTCTTCAATGGTATTA TCTCTTCAATGGTATTA . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . PUS3-91 NM_031307 exon2 c.258_274del p.86_92del . . 194 60 236 0 . 0 0 0 0 0 KRR1 11103 hgsc.bcm.edu 37 12 75900389 75900560 + Frame_Shift_Del DEL CCTTTTGCAAAAAAAAAAAAAAAAAGAAGACATTATCAACATTTTTTACAATTACATTCATTTTCCAGGCCCACGCTATTGTTACCTAAGCACAAATATGAAAACTTGATGGTGGGATGTTATAGGTTAACACTGATGCAAACAAAGCAAAGTCTCTGTAATTCTAGATTTA CCTTTTGCAAAAAAAAAAAAAAAAAGAAGACATTATCAACATTTTTTACAATTACATTCATTTTCCAGGCCCACGCTATTGTTACCTAAGCACAAATATGAAAACTTGATGGTGGGATGTTATAGGTTAACACTGATGCAAACAAAGCAAAGTCTCTGTAATTCTAGATTTA - novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 CCTTTTGCAAAAAAAAAAAAAAAAAGAAGACATTATCAACATTTTTTACAATTACATTCATTTTCCAGGCCCACGCTATTGTTACCTAAGCACAAATATGAAAACTTGATGGTGGGATGTTATAGGTTAACACTGATGCAAACAAAGCAAAGTCTCTGTAATTCTAGATTTA CCTTTTGCAAAAAAAAAAAAAAAAAGAAGACATTATCAACATTTTTTACAATTACATTCATTTTCCAGGCCCACGCTATTGTTACCTAAGCACAAATATGAAAACTTGATGGTGGGATGTTATAGGTTAACACTGATGCAAACAAAGCAAAGTCTCTGTAATTCTAGATTTA . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . KRR1-92 NM_007043 exon4 c.394_394del p.132_132del . . 117 20 83 0 . 0 0 0 0 0 SENP8 123228 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca 37 15 72432229 72432229 + Frame_Shift_Del DEL G G - novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . SENP8-660 NM_001166340 exon2 c.265delG p.A89fs . . 114 53 122 0 . 0 0 0 0 0 ZZEF1 23140 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca 37 17 3924472 3924472 + Frame_Shift_Del DEL T T - novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . ZZEF1-93 NM_015113 exon45 c.7355delA p.K2452fs . . 375 106 235 0 . 0 0 0 0 0 TRIM37 4591 broad.mit.edu;bcgsc.ca 37 17 57078973 57078974 + Frame_Shift_Del DEL TG TG - novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 TG TG . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . TRIM37-660 NM_015294 exon23 c.2797_2798del p.933_933del GGGGGCTGTGTCA . 188 20 120 0 . 0 0 0 0 0 SMCHD1 23347 broad.mit.edu 37 18 2666935 2666935 + Frame_Shift_Del DEL C C - novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 C C . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . SMCHD1-46 NM_015295 exon3 c.329delC p.A110fs TGACAGCTACGAA . 21 8 24 0 . 0 0 0 0 0 CABLES1 91768 broad.mit.edu 37 18 20716015 20716023 + In_Frame_Del DEL GGCGCCGGC GGCGCCGGC - novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 GGCGCCGGC GGCGCCGGC . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . CABLES1-522 NM_001100619 exon1 c.289_297del p.97_99del AAGCCGGGCGCCG . 9 7 2 0 . 0 0 0 0 0 HLA-B 3106 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca 37 6 31323288 31323288 + Frame_Shift_Del DEL G G - novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . HLA-B-90 NM_005514 exon4 c.701delC p.P234fs . . 162 72 225 0 . 0 0 0 0 0 EPHB4 2050 broad.mit.edu;bcgsc.ca 37 7 100404084 100404104 + In_Frame_Del DEL CATCACCTCCCACATCACAAT CATCACCTCCCACATCACAAT - novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 CATCACCTCCCACATCACAAT CATCACCTCCCACATCACAAT . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . EPHB4-1446 NM_004444 exon14 c.2422_2442del p.808_814del AAATGACATCACC . 159 14 137 0 . 0 0 0 0 0 TRIM14 9830 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca 37 9 100862406 100862406 + Frame_Shift_Del DEL A A - novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . TRIM14-226 NM_033219 exon3 c.344delT p.F115fs . . 111 52 106 0 . 0 0 0 0 0 AMY1C 278 hgsc.bcm.edu 37 1 104231690 104231691 + Frame_Shift_Ins INS - - A novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . . NM_001008219 exon10 c.1236_1237insT p.F412fs . . 357 54 315 0 . 0 0 0 0 0 TMCO3 55002 bcgsc.ca 37 13 114188424 114188425 + In_Frame_Ins INS - - TTTTTTTTTTTT rs141899812 bycluster;by1000genomes;alternate_allele TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 - - - - - - Unknown Untested Somatic Phase_1 WXS none Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . TMCO3-90 NM_017905 exon9 c.1408_1409insTTTTTTTTTTTT p.V470delinsVFFFF GCGGCGGTTTTTC . 123 9 117 0 . 0 0 0 0 0 AP1G1 164 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca 37 16 71768532 71768533 + Nonsense_Mutation INS - - A novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . AP1G1-92 NM_001030007 exon23 c.2356_2357insT p.K786_V787delinsX . . 657 369 376 0 . 0 0 0 0 0 C2orf71 388939 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca 37 2 29297095 29297096 + Frame_Shift_Ins INS - - A novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . C2orf71-91 NM_001029883 exon1 c.33_34insT p.V11fs . . 93 48 119 0 . 0 0 0 0 0 RAD18 56852 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca 37 3 8955405 8955406 + Splice_Site INS - - TG novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . RAD18-663 NM_020165 exon9 c.890-1->CA . . . 23 13 21 0 . 0 0 0 0 0 TMEM184A 202915 broad.mit.edu 37 7 1586662 1586663 + In_Frame_Ins INS - - GCC novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 - - . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . TMEM184A-90 NM_001097620 exon9 c.1168_1169insGGC p.S390delinsGS CGCCGCTGGGGTG . 85 11 57 0 . 0 0 0 0 0 ABCC4 10257 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 13 95886864 95886865 + Missense_Mutation DNP CT CT AG novel TCGA-A4-8515-01A-11D-2396-08 TCGA-A4-8515-10A-01D-2396-08 CT CT . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq 0d3ff544-d2cb-4e64-8f22-6ff73447d5d8 af2ca6b1-94ef-4660-8a55-522a8022d5b2 . ABCC4 exon4 c.A530C p.K177T CTTACCTTCCGAT . 47.0 20.0 74.0 0.0 . 0 0 0 0 0