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_SOL TVarCov_SOL TVaf_SOL NTotCov_SOL NVarCov_SOL NVaf_SOL dbSNPPopFreq COSMIC_Gene_Freq COSMIC_Site_Freq Ttot_rna Tvar_rna Tvaf_rna note germline-maf-frequency IGV DPYD 1806 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 1 97839132 97839132 + Silent SNP G G T novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 G G Unknown Untested Somatic . WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_000110 exon16 c.C2043A p.G681G GGCCAGGCCCATT 202 32 0.16 262 0 0 2 0 0.00 CELF3 11189 mdanderson.org 37 1 151679994 151679994 + Missense_Mutation SNP G G T novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_007185 exon7 c.C761A p.T254N GATGGGGTGATGG 19 2 0.11 28 0 0 0 0 SLAMF1 6504 broad.mit.edu 37 1 160604502 160604502 + Missense_Mutation SNP G G T novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . SLAMF1 NM_003037 exon3 c.C601A p.Q201K CATGCTGGGGGCC 159 4 0.03 193 0 0 74 17 0 0.00 RNU5F-1 26828 hgsc.bcm.edu 37 1 220156424 220156424 + RNA SNP T T C novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 T T Unknown Untested Somatic . WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . . . . . ACTTTTTAATAAA 76 16 0.21 109 0 0 0 0 EFCAB2 84288 mdanderson.org 37 1 245245457 245245457 + Nonsense_Mutation SNP G G T novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_032328 exon5 c.G256T p.E86X CTACTAGAAAGAA 25 3 0.12 34 0 0 7 0 0.00 OR2T34 127068 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 1 248737452 248737452 + Missense_Mutation SNP G G C novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 G G Unknown Untested Somatic . WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_001001821 exon1 c.C607G p.L203V ACGTGAGCATCTT 356 59 0.17 391 0 0 0 0 ITIH5 80760 mdanderson.org 37 10 7618461 7618461 + Missense_Mutation SNP G G T novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_001001851 exon10 c.C1933A p.P645T GTTCGGGTCCCAT 33 3 0.09 51 0 0 8 0 0.00 GATA3 2625 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 10 8115773 8115773 + Missense_Mutation SNP A A C novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 A A Unknown Untested Somatic . WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_001002295 exon6 c.A1122C p.K374N ATCCAAAAAGTGC 129 27 0.21 114 0 0 11 0 0.00 . 0 bcgsc.ca 37 10 42681152 42681152 + RNA SNP C C T rs111787724 TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 C C Unknown Untested Somatic Phase_1 WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . . . . . GTGGATCTGGGAC 168 24 0.14 229 19 0.0829694323 12 1 0.08 RRP12 23223 mdanderson.org 37 10 99126540 99126540 + Silent SNP C C T novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 C C Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_015179 exon27 c.G3174A p.E1058E CTCCTCCTCTTCT 61 4 0.07 91 0 0 144 1 0.01 CNNM1 26507 mdanderson.org 37 10 101089211 101089211 + Missense_Mutation SNP G G T novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_020348 exon1 c.G67T p.A23S CGAGGCGCTGTGC 26 2 0.08 31 0 0 1 0 0.00 RBM20 282996 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 10 112559661 112559661 + Silent SNP G G A novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 G G Unknown Untested Somatic . WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_001134363 exon7 c.G1785A p.K595K ATACAAGGAATTG 71 16 0.23 87 0 0 0 0 UBQLN3 50613 broad.mit.edu;mdanderson.org 37 11 5529527 5529527 + Missense_Mutation SNP G G T novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . UBQLN3 NM_017481 exon2 c.C1262A p.T421N TGTCCAGTACTGT 102 5 0.05 161 0 0 107 0 0 DCHS1 8642 mdanderson.org 37 11 6643167 6643167 + Nonsense_Mutation SNP G G T novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e DCHS1,pharynx,carcinoma,0,1 DCHS1 NM_003737 exon21 c.C9740A p.S3247X GCAGCTGAGGACA 40 3 0.08 74 0 0 0 1 48 0 0.00 TMEM135 65084 broad.mit.edu 37 11 87032260 87032260 + Missense_Mutation SNP G G T novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e TMEM135,colon,carcinoma,+1,1 TMEM135 NM_022918 exon15 c.G1262T p.R421L TGAACCGAAAAGT 96 3 0.03 139 0 0 40 1 20 0 0.00 ZBTB16 7704 mdanderson.org 37 11 114121101 114121101 + Missense_Mutation SNP G G T novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_006006 exon7 c.G1846T p.A616S TACTCGGCCATGA 38 3 0.08 62 0 0 2 0 0.00 ETV6 2120 mdanderson.org 37 12 12022716 12022716 + Missense_Mutation SNP G G T novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_001987 exon5 c.G822T p.M274I CATCATGCACCCT 50 3 0.06 31 0 0 13 0 0.00 ASB2 51676 broad.mit.edu 37 14 94405527 94405527 + Missense_Mutation SNP T T G rs199833352 TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 T T Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . ASB2 NM_001202429 exon8 c.A1544C p.H515P GGCGGGTGCGGGC 65 20 0.31 61 16 0.262295082 71 28 3 0.11 CEP170B 283638 broad.mit.edu;mdanderson.org 37 14 105353593 105353593 + Missense_Mutation SNP A A G novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 A A Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_001112726 exon12 c.A3017G p.Q1006R GTGAGCAGTCCTC 38 7 0.18 41 0 0 42 5 0.12 TYRO3 7301 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 15 41854893 41854893 + Missense_Mutation SNP C C T novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 C C Unknown Untested Somatic . WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_006293 exon4 c.C557T p.S186F CTCCCTCTCCATC 76 11 0.14 77 0 0 127 20 0.16 KBTBD13 390594 mdanderson.org 37 15 65369189 65369189 + Missense_Mutation SNP G G T novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_001101362 exon1 c.G36T p.W12C GGTGTGGGTGGGC 26 3 0.12 13 0 0 3 0 0.00 ARNT2 9915 broad.mit.edu 37 15 80883970 80883970 + Nonsense_Mutation SNP G G A novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . ARNT2 NM_014862 exon18 c.G1980A p.W660X GCAGTGGCAAAGC 198 4 0.02 207 1 0.0048309179 88 2 0 0.00 . 0 broad.mit.edu 37 15 84957480 84957499 + RNA DEL GGCCCCACATCCATTGAGAA GGCCCCACATCCATTGAGAA - novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 GGCCCCACATCCATTGAGAA GGCCCCACATCCATTGAGAA Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . . . . . TGCACTGGCCCCA 15 7 0.47 7 0 0 0 0 C16orf11 146325 broad.mit.edu;bcgsc.ca;mdanderson.org 37 16 614076 614076 + Missense_Mutation SNP C C T novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 C C Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . C16orf11 NM_145270 exon2 c.C782T p.A261V CCCCGGCCCCCCG 17 4 0.24 26 0 0 27 0 0 EME2 197342 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 16 1825969 1825969 + Silent SNP C C A rs143964421 bycluster;byfrequency;by1000genomes TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 C C Unknown Untested Somatic . WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_001257370 exon7 c.C951A p.S317S CCCCTCCCCCCGC 35 8 0.23 40 0 0 0 1 0 0.00 LOC653786 0 broad.mit.edu 37 16 22579566 22579569 + RNA DEL ATTC ATTC - novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 ATTC ATTC Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . . . . . GGGTTAATTCATC 85 13 0.15 90 2 0.0222222222 0 0 FAM65A 79567 mdanderson.org 37 16 67575907 67575907 + Missense_Mutation SNP G G T novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_001193523 exon13 c.G1278T p.Q426H GCAGCAGCCCGAG 25 3 0.12 48 0 0 32 0 0.00 CENPT 80152 hgsc.bcm.edu 37 16 67864336 67864336 + Silent SNP G G A novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 G G Unknown Untested Somatic . WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_025082 exon11 c.C819T p.A273A GCGACCGGCAGCC 100 4 0.04 111 0 0 179 0 0.00 ZBTB4 57659 broad.mit.edu;mdanderson.org 37 17 7366300 7366300 + Nonsense_Mutation SNP G G T novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . ZBTB4 NM_001128833 exon4 c.C2001A p.Y667X GGAGTAGTAGGGC 41 3 0.07 43 0 0 163 23 0 0.00 KRTAP4-8 728224 mdanderson.org 37 17 39254149 39254149 + Missense_Mutation SNP G G C rs201246375 TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_031960 exon1 c.C188G p.T63S CAGCAGGTGGGCT 16 3 0.19 23 0 0 0 0 CDH19 28513 mdanderson.org 37 18 64211262 64211262 + Nonsense_Mutation SNP G G T novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_001271028 exon7 c.C1160A p.S387X ACAAATGATCCCT 81 4 0.05 129 0 0 1 0 0.00 DOT1L 84444 mdanderson.org 37 19 2226425 2226425 + Missense_Mutation SNP G G T novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_032482 exon27 c.G3905T p.G1302V TGTCGGGGGCTGA 20 2 0.10 22 1 0.0454545455 79 0 0.00 OR7C2 26658 broad.mit.edu 37 19 15052604 15052604 + Frame_Shift_Del DEL T T - novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 T T Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . OR7C2 NM_012377 exon1 c.304delT p.F102fs CAGATATTTTTTT 191 8 0.04 166 0 0 50 0 0 ZNF676 163223 ucsc.edu 37 19 22363172 22363172 + Silent SNP G G A novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 G G Unknown Untested Somatic RNA-Seq none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . ZNF676 NM_001001411 exon3 c.C1347T p.Y449Y ACATTTGTAGGGT 75 3 0.04 74 3 0.0405405405 146 56 15 0.27 ZNF540 163255 hgsc.bcm.edu 37 19 38103206 38103206 + Missense_Mutation SNP T T C novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 T T Unknown Untested Somatic . WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_152606 exon5 c.T1025C p.L342P GACAACTTACCCG 77 4 0.05 99 0 0 17 0 0.00 TOMM40 10452 broad.mit.edu 37 19 45404037 45404037 + Missense_Mutation SNP G G T novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . TOMM40 NM_001128917 exon6 c.G694T p.G232C GCCCTGGGTGGAG 127 4 0.03 159 0 0 13 478 0 0.00 ZNF524 147807 mdanderson.org 37 19 56113901 56113901 + Silent SNP G G A novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_153219 exon2 c.G423A p.P141P GAAGCCGCACCAG 25 3 0.12 26 0 0 34 0 0.00 . 0 bcgsc.ca 37 2 6636132 6636132 + RNA SNP G G T rs112561968 bycluster;byfrequency TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 G G Unknown Untested Somatic Phase_1 WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . . . . . TGCTTCGTTAAAC 40 7 0.18 48 0 0 0 0 ANKRD36BP2 0 broad.mit.edu 37 2 89104503 89104504 + RNA INS - - C rs149625899 bycluster;by1000genomes TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 - - Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . . . . . ATTTTTTTCAGAT 20 11 0.55 16 6 0.375 0 0 FAM178B 51252 mdanderson.org 37 2 97633354 97633354 + Missense_Mutation SNP G G T novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_001122646 exon5 c.C637A p.L213M GCTCCAGGGCCTG 23 2 0.09 28 0 0 5 0 0.00 CCDC74B-AS1 0 broad.mit.edu 37 2 130894105 130894106 + RNA INS - - CATATACA rs111582269 bycluster;by1000genomes TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 - - Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . . . . . CTGTCTTCTGGGC 6 3 0.50 8 0 0 0 0 ANKRD30BL 554226 mdanderson.org 37 2 132919099 132919099 + RNA SNP C C T rs199974298 bycluster TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 C C Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . . . . . TGTCGTCTTCTTC 73 7 0.10 85 2 0.0235294118 0.009 1 0 0.00 ACVR2A 92 broad.mit.edu 37 2 148676128 148676128 + Missense_Mutation SNP T T A novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 T T Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . ACVR2A NM_001616 exon7 c.T929A p.L310Q CTGGCCTAAAAGA 107 15 0.14 137 9 0.0656934307 125 11 0 0.00 STRADB 55437 hgsc.bcm.edu 37 2 202344886 202344886 + Silent SNP C C T rs146098224 TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 C C Unknown Untested Somatic . WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_018571 exon12 c.C1245T p.Y415Y CTCATACTGGGAA 146 10 0.07 142 0 0 155 0 0.00 CPS1 1373 mdanderson.org 37 2 211444493 211444493 + Missense_Mutation SNP A A T novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 A A Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_001122633 exon6 c.A545T p.K182M GGGATAAGGTATA 41 3 0.07 55 0 0 7 0 0.00 UGT1A10 54575 mdanderson.org 37 2 234545847 234545847 + Missense_Mutation SNP G G T novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_019075 exon1 c.G679T p.A227S AGAAATGCCCTAG 133 5 0.04 193 1 0.0051813472 0 0 PASK 23178 broad.mit.edu 37 2 242063441 242063441 + Missense_Mutation SNP T T G novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 T T Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . PASK NM_015148 exon11 c.A2827C p.T943P GGCGGGTCCTGGC 57 14 0.25 66 12 0.1818181818 230 110 8 0.07 SIGLEC1 6614 mdanderson.org 37 20 3673769 3673769 + Missense_Mutation SNP C C T novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 C C Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_023068 exon14 c.G3518A p.R1173H AGGTTGCGGGGCG 19 2 0.11 24 0 0 10 0 0.00 PREX1 57580 broad.mit.edu;mdanderson.org 37 20 47273634 47273634 + Missense_Mutation SNP G G T novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e PREX1_ENST00000396220,NS,carcinoma,0,2 PREX1 NM_020820 exon18 c.C2067A p.N689K GGACTGGTTGAGG 49 3 0.06 50 0 0 441 2 122 0 0.00 BAGE2 85319 broad.mit.edu 37 21 11043637 11043638 + RNA INS - - A rs113014139 bycluster TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 - - Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . . . . . AAAAAAGAAAAAA 6 4 0.67 6 0 0 0 0 MX1 4599 bcgsc.ca 37 21 42823120 42823120 + Missense_Mutation SNP G G T novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 G G Unknown Untested Somatic Phase_1 WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . MX1 NM_001144925 exon17 c.G1459T p.V487F ACAGATGTTTCGA 137 6 0.04 104 0 0 58 433 0 0.00 ITIH1 3697 broad.mit.edu 37 3 52825612 52825612 + Missense_Mutation SNP G G T novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . ITIH1 NM_002215 exon21 c.G2574T p.M858I CACGATGGTGGTG 54 3 0.06 59 1 0.0169491525 108 0 0 TMCC1 23023 broad.mit.edu 37 3 129370614 129370614 + Missense_Mutation SNP G G T novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . TMCC1 NM_001017395 exon6 c.C1672A p.R558S AGATGCGCGTCTG 78 4 0.05 79 0 0 105 36 0 0.00 DGKQ 1609 mdanderson.org 37 4 961354 961354 + Missense_Mutation SNP C C T novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 C C Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_001347 exon8 c.G970A p.G324S CGGCACCGGCCAG 52 3 0.06 92 0 0 10 0 0.00 KIAA1239 57495 mdanderson.org 37 4 37447775 37447775 + Missense_Mutation SNP G G T novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_001144990 exon7 c.G4165T p.G1389C AGCAGTGGTGAAA 51 3 0.06 76 1 0.0131578947 0 0 ATP10D 57205 mdanderson.org 37 4 47563065 47563065 + Missense_Mutation SNP A A G novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 A A Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_020453 exon14 c.A2641G p.R881G GCCATGAGGTTGG 61 3 0.05 96 0 0 6 0 0.00 KIT 3815 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 4 55593667 55593667 + Missense_Mutation SNP A A G novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 A A Unknown Untested Somatic . WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_000222 exon11 c.A1733G p.Y578C TTCCTTATGATCA 89 25 0.28 137 0 0 223 143 0.64 KIT 3815 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 4 55599348 55599348 + Missense_Mutation SNP T T A rs121913524 alternate_allele TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 T T Unknown Untested Somatic . WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e KIT,NS,lymphoid_neoplasm,0,31 KIT NM_000222 exon17 c.T2474A p.V825D ATGTGGTTAAAGG 51 17 0.33 90 0 0 0 31 338 172 0.51 EIF4E 1977 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 4 99812429 99812429 + Silent SNP C C T novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 C C Unknown Untested Somatic . WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_001130678 exon3 c.G240A p.L80L CAGCCGCAGGTTT 230 43 0.19 333 0 0 164 67 0.41 PALLD 23022 broad.mit.edu 37 4 169632923 169632923 + Missense_Mutation SNP G G T novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e PALLD_ENST00000335742,NS,carcinoma,-1,2 PALLD NM_001166108 exon10 c.G1813T p.A605S TTCAATGCTGCTG 145 5 0.03 162 1 0.0061728395 179 2 5 0 0.00 GPR98 84059 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca 37 5 89949379 89949379 + Frame_Shift_Del DEL T T - novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 T T Unknown Untested Somatic . WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . GPR98 NM_032119 exon20 c.3987delC p.Y1329fs TTGTACTTTACCG 154 26 0.17 158 0 0 605 2 0 0.00 PWWP2A 114825 mdanderson.org 37 5 159546149 159546149 + Nonsense_Mutation SNP C C A novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 C C Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_052927 exon1 c.G247T p.E83X CCGCCTCTGGGCT 12 3 0.25 8 0 0 8 0 0.00 CPLX2 10814 broad.mit.edu 37 5 175306867 175306869 + In_Frame_Del DEL AGG AGG - novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 AGG AGG Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . CPLX2 NM_006650 exon5 c.224_226del p.75_76del AGAAGAAGGAGGA 129 9 0.07 144 0 0 42 0 0 BTN2A3P 54718 hgsc.bcm.edu;broad.mit.edu 37 6 26422353 26422353 + RNA SNP C C T novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 C C Unknown Untested Somatic . WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e BTN2A3,NS,carcinoma,0,9 BTN2A3 . . . . ATGGAACCAGCTG 78 6 0.08 94 1 0.0106382979 0 9 2 0 0.00 CLIC1 1192 mdanderson.org 37 6 31702039 31702039 + Missense_Mutation SNP G G A novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_001288 exon2 c.C41T p.A14V CTGCCAGCCTGAA 45 3 0.07 75 0 0 493 0 0.00 ANKS1A 23294 hgsc.bcm.edu 37 6 34857324 34857324 + Missense_Mutation SNP G G A novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 G G Unknown Untested Somatic . WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e ANKS1A,NS,carcinoma,0,1 ANKS1A NM_015245 exon1 c.G145A p.G49S AGCGGCGGCGGCG 6 3 0.50 6 1 0.1666666667 0 1 3 0 0.00 FOXK1 221937 mdanderson.org 37 7 4799057 4799057 + Silent SNP G G T novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_001037165 exon7 c.G1527T p.A509A GCCCGCGGGCCAC 19 2 0.11 30 0 0 16 0 0.00 RAC1 5879 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 7 6426908 6426908 + Missense_Mutation SNP C C G novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 C C Unknown Untested Somatic . WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_006908 exon2 c.C101G p.P34R ATATCCCTACTGT 142 18 0.13 127 0 0 59 10 0.17 LRCH4 4034 broad.mit.edu 37 7 100183685 100183685 + Silent SNP A A C novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 A A Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . LRCH4 NM_002319 exon1 c.T39G p.G13G CTCCTCACCCCCG 102 31 0.30 77 24 0.3116883117 53 94 6 0.06 MLL3 58508 bcgsc.ca 37 7 151945089 151945089 + Silent SNP G G A novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 G G Unknown Untested Somatic Phase_1 WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . MLL3 NM_170606 exon14 c.C2430T p.N810N CATGATGTTTCCA 489 19 0.04 400 7 0.0175 1564 15 1 0.07 rescued with RNA-seq UNC5D 137970 mdanderson.org 37 8 35453077 35453077 + Missense_Mutation SNP C C T novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 C C Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_080872 exon4 c.C472T p.R158W GATTTACGGAAAA 50 3 0.06 54 0 0 0 0 ADAMTSL1 92949 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 9 18892551 18892551 + Missense_Mutation SNP A A G novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 A A Unknown Untested Somatic . WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_001040272 exon26 c.A4808G p.N1603S CCTGTAACCAGCA 61 11 0.18 67 0 0 1 0 0.00 BICD2 23299 mdanderson.org 37 9 95481138 95481138 + Silent SNP G G T novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_001003800 exon5 c.C1789A p.R597R CTGCTCGGCCCGC 50 3 0.06 48 0 0 25 0 0.00 C9orf91 203197 broad.mit.edu 37 9 117379536 117379536 + Missense_Mutation SNP G G T novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . C9orf91 NM_153045 exon2 c.G61T p.G21C TCCCCTGGCTGGA 305 5 0.02 292 1 0.0034246575 32 12 0 0.00 PPP1R26 9858 ucsc.edu 37 9 138376590 138376590 + Nonsense_Mutation SNP C C A novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 C C Unknown Untested Somatic WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_014811 exon4 c.C234A p.C78X GGGATGCCACGAC 29 4 0.14 34 0 0 36 0 0.00 SUPT20HL1 0 bcgsc.ca 37 X 24382372 24382372 + RNA SNP A A G rs2695489 bycluster TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 A A Unknown Untested Somatic Phase_1 WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_001136234 exon1 c.A1495G p.I499V GCTGCTATTGCTG 211 27 0.13 209 5 0.023923445 0 0 NAP1L3 4675 mdanderson.org 37 X 92927835 92927835 + Missense_Mutation SNP G G T novel TCGA-XE-AANV-01A-11D-A435-10 TCGA-XE-AANV-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq d27a570c-2115-4885-9939-4aa5955bf4cd b5dc854d-44a1-4ef2-87fe-c65fc39f7d2e . . NM_004538 exon1 c.C469A p.P157T CTGTAGGCTCGTA 79 4 0.05 101 0 0 33 0 0.00