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 MST1L 0 ucsc.edu;bcgsc.ca 37 1 17084768 17084768 + Missense_Mutation SNP G G C rs2092129 bycluster;byfrequency TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 G G Unknown Untested Somatic WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . . . . . GACCCCGCGCAGA 122 13 0.11 168 4 0.0238095238 5 1 0.20 EPB41 2035 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 1 29314195 29314195 + Silent SNP A A G novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 A A Unknown Untested Somatic . WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f EPB41_ENST00000343067,NS,carcinoma,+2,1 EPB41_ENST00000343067 NM_203343 exon2 c.A246G p.L82L ACGACTATTCTCC 401 47 0.12 315 0 0 2 1 63 9 0.14 TPR 7175 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 1 186283154 186283154 + Silent SNP C C T novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 C C Unknown Untested Somatic . WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_003292 exon51 c.G7041A p.V2347V ATGGCTCACACCT 105 15 0.14 84 0 0 448 75 0.17 NMT2 9397 broad.mit.edu;mdanderson.org 37 10 15210588 15210588 + Silent SNP C C T novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 C C Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . NMT2 NM_004808 exon1 c.G24A p.A8A GCTGGCCGCAGAC 49 3 0.06 31 0 0 44 39 11 0.28 CCSER2 54462 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 10 86131820 86131820 + Missense_Mutation SNP G G A novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 G G Unknown Untested Somatic . WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_018999 exon2 c.G1012A p.G338R GTTGATGGAAATA 114 17 0.15 118 0 0 40 8 0.20 C11orf35 256329 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 11 557032 557032 + Missense_Mutation SNP C C T novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 C C Unknown Untested Somatic . WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_173573 exon8 c.G779A p.R260Q TGATGCCGCTCGG 37 6 0.16 41 0 0 4 1 0.25 DCDC5 100506627 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 11 30937241 30937241 + Missense_Mutation SNP C C A novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 C C Unknown Untested Somatic . WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_020869 exon8 c.G791T p.S264I AATTTACTATGCT 125 35 0.28 127 0 0 0 0 FAT3 120114 mdanderson.org 37 11 92257930 92257930 + Silent SNP G G T novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_001008781 exon2 c.G3423T p.V1141V AGATGTGAATGAC 56 3 0.05 130 0 0 0 0 CWF19L2 143884 broad.mit.edu;mdanderson.org 37 11 107309827 107309827 + Nonsense_Mutation SNP G G T rs141170726 alternate_allele TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f CWF19L2_ENST00000282251,NS,carcinoma,+1,2 CWF19L2 NM_152434 exon6 c.C653A p.S218X GTAATCGATGACA 40 3 0.08 80 1 0.0125 135 2 6 0 0.00 DSCAML1 57453 mdanderson.org 37 11 117651489 117651489 + Missense_Mutation SNP A A G novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 A A Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_020693 exon2 c.T263C p.V88A TCATTTACAAAGT 8 1 0.13 16 0 0 1 0 0.00 OR10S1 219873 mdanderson.org 37 11 123848041 123848041 + Missense_Mutation SNP A A T novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 A A Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_001004474 exon1 c.T358A p.F120I CCAGAAAGTGGAA 53 3 0.06 91 0 0 0 0 FKBP4 2288 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 12 2908333 2908333 + Silent SNP G G C novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 G G Unknown Untested Somatic . WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_002014 exon5 c.G594C p.L198L GAACCTGGATCTG 109 19 0.17 52 0 0 2602 473 0.18 NCOR2 9612 mdanderson.org 37 12 124887102 124887102 + Silent SNP C C T rs7488825 bycluster;alternate_allele TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 C C Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_006312 exon16 c.G1488A p.Q496Q TTGTTGCTGCTGC 56 5 0.09 55 0 0 26 0 0.00 USP12 219333 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca 37 13 27664080 27664081 + Frame_Shift_Del DEL AG AG - novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 AG AG Unknown Untested Somatic . WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . USP12 NM_182488 exon6 c.674_675del p.225_225del CTGCACAGAGTTT 225 40 0.18 263 0 0 35 34 0 0.00 . 0 broad.mit.edu 37 14 20122481 20122482 + RNA INS - - A rs368043035 TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 - - Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . . . . . GAAGTGCAAAAAA 9 4 0.44 6 0 0 0 0 LTB4R2 56413 mdanderson.org 37 14 24780613 24780613 + Missense_Mutation SNP C C T novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 C C Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_019839 exon2 c.C743T p.A248V TGCAGGCGGTCGC 23 2 0.09 18 0 0 13 0 0.00 BCL11B 64919 mdanderson.org 37 14 99641140 99641140 + Missense_Mutation SNP C C T novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 C C Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_138576 exon4 c.G2033A p.S678N CCGGGGCTGGGCA 20 2 0.10 25 0 0 1 0 0.00 HERC2P3 0 broad.mit.edu 37 15 20613289 20613292 + RNA DEL AGAA AGAA - novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 AGAA AGAA Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . HERC2P3 . . . . ACTGTTAGAAAGA 6 2 0.33 4 0 0 53 1 0 0.00 ATP2A1 487 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 16 28914470 28914470 + Splice_Site SNP T T A novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 T T Unknown Untested Somatic . WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_173201 exon20 c.2862+2T>A . TGCCGGTGAGGTT 51 13 0.25 46 0 0 5 5 1.00 ZNF668 79759 mdanderson.org 37 16 31075770 31075770 + Missense_Mutation SNP T T C novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 T T Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_001172669 exon3 c.A80G p.E27G GCAGCCTCCACTT 25 2 0.08 32 0 0 29 0 0.00 LDHD 197257 mdanderson.org 37 16 75148547 75148547 + Missense_Mutation SNP G G A novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_194436 exon5 c.C506T p.A169V CCGGTGGCCGCCA 23 2 0.09 12 0 0 3 0 0.00 PRDM7 11105 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 16 90124710 90124710 + Missense_Mutation SNP C C G novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 C C Unknown Untested Somatic . WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f PRDM7_ENST00000449207,NS,carcinoma,0,1 PRDM7_ENST00000449207 NM_001098173 exon10 c.G1466C p.G489A TTTGGACCTTTCT 97 32 0.33 96 0 0 0 1 2 2 1.00 RABEP1 9135 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 17 5212059 5212059 + Silent SNP T T C novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 T T Unknown Untested Somatic . WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_004703 exon2 c.T105C p.L35L GCAGCTTGAACAA 382 56 0.15 430 0 0 45 12 0.27 GPS2 2874 mdanderson.org 37 17 7217005 7217005 + Silent SNP T T A novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 T T Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_004489 exon7 c.A516T p.A172A TGTCCCTGCAAAA 51 4 0.08 89 0 0 208 0 0.00 TVP23C 0 ucsc.edu 37 17 15457087 15457087 + Missense_Mutation SNP C C T novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 C C Unknown Untested Somatic RNA-Seq none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_145301 exon3 c.G152A p.C51Y AGAAGACAGACGA 207 11 0.05 257 12 0.046692607 43 15 0.35 FLJ36000 0 hgsc.bcm.edu 37 17 21904869 21904869 + RNA SNP A A G novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 A A Unknown Untested Somatic . WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . . . . . ACGGCAACAAGCC 57 8 0.14 74 0 0 7 0 0.00 SPAG5 10615 mdanderson.org 37 17 26912638 26912638 + Missense_Mutation SNP C C T rs146987463 TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 C C Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_006461 exon8 c.G1774A p.A592T GGCTGGCGTGTGC 52 3 0.06 58 0 0 0 137 0 0.00 TBC1D29 26083 hgsc.bcm.edu 37 17 28890347 28890347 + Silent SNP A A G novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 A A Unknown Untested Somatic . WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_015594 exon5 c.A357G p.Q119Q AGGACAACAAGCC 95 4 0.04 156 0 0 5 0 0.00 LRRC37BP1 0 broad.mit.edu 37 17 28960373 28960381 + RNA DEL GAACAGAAT GAACAGAAT - novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 GAACAGAAT GAACAGAAT Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . . . . . AACATGGAACAGA 179 18 0.10 210 0 0 28 0 0.00 CDK12 51755 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca 37 17 37627847 37627850 + Frame_Shift_Del DEL ACTC ACTC - novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 ACTC ACTC Unknown Untested Somatic . WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . CDK12 NM_016507 exon2 c.1761_1764del p.587_588del CCTTCTACTCACT 273 85 0.31 242 0 0 161 44 0 0.00 KRT19 3880 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 17 39680453 39680453 + Missense_Mutation SNP G G A novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 G G Unknown Untested Somatic . WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_002276 exon5 c.C890T p.T297I AGGTCAGTAACCT 113 30 0.27 140 0 0 9 4 0.44 KRT9 3857 broad.mit.edu 37 17 39728194 39728194 + Silent SNP A A C novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 A A Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . KRT9 NM_000226 exon1 c.T51G p.G17G CCCGCCACCCCCG 42 17 0.40 40 13 0.325 78 0 0 NAGLU 4669 mdanderson.org 37 17 40696174 40696174 + Missense_Mutation SNP G G T novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_000263 exon6 c.G2150T p.S717I ACCCCAGCCAGCC 49 3 0.06 38 0 0 73 0 0.00 ERN1 2081 mdanderson.org 37 17 62144207 62144207 + Nonsense_Mutation SNP G G T novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_001433 exon8 c.C666A p.Y222X GGAGGCGTAGTTT 132 5 0.04 122 0 0 4 0 0.00 AMZ2P1 0 broad.mit.edu 37 17 62968690 62968690 + RNA SNP A A G novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 A A Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . . . . . TTCCACAAGTCTC 104 3 0.03 93 0 0 44 0 0.00 SLC26A11 284129 mdanderson.org 37 17 78195433 78195433 + Missense_Mutation SNP G G T novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_173626 exon3 c.G74T p.C25F GCTGCTGCTCCCC 29 4 0.14 24 0 0 37 0 0.00 TXNDC2 84203 mdanderson.org 37 18 9887407 9887407 + Missense_Mutation SNP G G A rs148775952 TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_001098529 exon2 c.G931A p.E311K CCCAAGGAGGGTG 113 6 0.05 99 1 0.0101010101 0 0 MUM1 84939 mdanderson.org 37 19 1360218 1360218 + Nonsense_Mutation SNP G G T novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_032853 exon5 c.G301T p.E101X CTGAGCGAGGGCT 104 5 0.05 78 0 0 176 0 0.00 APBA3 9546 mdanderson.org 37 19 3751225 3751225 + Missense_Mutation SNP C C T novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 C C Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_004886 exon10 c.G1618A p.A540T TGCGGGCGTGTGG 41 3 0.07 25 0 0 60 0 0.00 DNM2 1785 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 19 10940946 10940946 + Missense_Mutation SNP G G T novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 G G Unknown Untested Somatic . WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_001005361 exon20 c.G2435T p.R812L CATCCCGGCCTGG 177 20 0.11 96 0 0 319 52 0.16 ZNF85 7639 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 19 21132152 21132152 + Missense_Mutation SNP A A T novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 A A Unknown Untested Somatic . WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_001256171 exon5 c.A922T p.I308L CATAAGATAATTC 99 14 0.14 69 0 0 40 21 0.53 RHPN2 85415 mdanderson.org 37 19 33535186 33535186 + Missense_Mutation SNP G G A novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_033103 exon2 c.C154T p.R52W TCATCCGCACGGC 146 5 0.03 106 0 0 23 0 0.00 FFAR1 2864 mdanderson.org 37 19 35843316 35843316 + Missense_Mutation SNP G G T novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_005303 exon1 c.G862T p.V288L AAGACAGTGTGTG 36 3 0.08 31 0 0 0 0 SIRT2 22933 broad.mit.edu 37 19 39369886 39369886 + Missense_Mutation SNP A A C novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 A A Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . SIRT2 NM_012237 exon16 c.T1079G p.V360G TTGGGGACCCCCG 69 11 0.16 42 4 0.0952380952 29 56 1 0.02 KLK11 11012 broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 19 51526395 51526395 + Missense_Mutation SNP T T C novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 T T Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . KLK11 NM_144947 exon5 c.A649G p.T217A CCATGGTGTCTGT 147 14 0.10 83 1 0.0120481928 28 0 0 EML6 400954 broad.mit.edu 37 2 55106753 55106753 + Missense_Mutation SNP A A G novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 A A Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . EML6 NM_001039753 exon16 c.A2414G p.K805R GGAAAAAGGGAGA 222 4 0.02 226 0 0 85 0 0 GPR39 2863 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 2 133174783 133174783 + Silent SNP G G A novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 G G Unknown Untested Somatic . WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_001508 exon1 c.G168A p.Q56Q CACCCAGGTGCTG 186 21 0.11 154 0 0 57 7 0.12 RAPGEF4-AS1 91149 hgsc.bcm.edu 37 2 173600785 173600785 + RNA SNP C C G novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 C C Unknown Untested Somatic . WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . . . . . AGCTCGCCGGGGG 28 5 0.18 37 0 0 1 0 0.00 BMPR2 659 ucsc.edu 37 2 203420129 203420129 + Missense_Mutation SNP G G A novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 G G Unknown Untested Somatic RNA-Seq none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . BMPR2 NM_001204 exon12 c.G1741A p.E581K ATAGGGGAAAAAA 163 3 0.02 142 1 0.0070422535 142 55 7 0.13 rescued with RNA-seq TTLL4 9654 broad.mit.edu 37 2 219612368 219612368 + Silent SNP G G T novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . TTLL4 NM_014640 exon11 c.G2298T p.R766R CCTGCGGATCTAT 253 5 0.02 209 0 0 96 156 0 0.00 SNPH 9751 mdanderson.org 37 20 1285979 1285979 + Missense_Mutation SNP G G T novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_014723 exon6 c.G766T p.D256Y CGGACGGACGCGC 38 3 0.08 40 0 0 27 0 0.00 NCOA6 23054 hgsc.bcm.edu 37 20 33345720 33345721 + In_Frame_Ins INS - - TGC novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 - - Unknown Untested Somatic . WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . NCOA6 NM_014071 exon7 c.831_832insGCA p.Q277delinsQQ CTGTTGTTGCTGC 99 11 0.11 58 0 0 219 23 0 0.00 ARVCF 421 broad.mit.edu 37 22 19964943 19964943 + Missense_Mutation SNP G G T novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . ARVCF NM_001670 exon9 c.C1865A p.A622D CCTTTGGCCTTCT 237 5 0.02 167 0 0 54 45 0 0.00 SEZ6L 23544 broad.mit.edu 37 22 26688869 26688869 + Missense_Mutation SNP G G T novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . SEZ6L NM_001184777 exon2 c.G592T p.A198S ACACCCGCACCCC 210 4 0.02 178 0 0 174 3 0 0.00 APOBEC3A 200315 hgsc.bcm.edu 37 22 39357586 39357586 + Silent SNP T T C rs202076860 bycluster TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 T T Unknown Untested Somatic . WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f APOBEC3A,caecum,carcinoma,+1,1 APOBEC3A NM_145699 exon3 c.T369C p.R123R ACTGCGTATCTTC 54 6 0.11 78 1 0.0128205128 0.001 1 1 2 0 0.00 DCP1A 55802 mdanderson.org 37 3 53376192 53376192 + Missense_Mutation SNP G G T novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f DCP1A,NS,carcinoma,0,1 DCP1A NM_018403 exon3 c.C283A p.L95I ACAGAAGAAATGG 59 3 0.05 65 0 0 0 1 16 0 0.00 PARP14 54625 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 3 122420415 122420415 + Missense_Mutation SNP A A G novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 A A Unknown Untested Somatic . WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_017554 exon6 c.A3014G p.K1005R GGGAAAAAGGAAG 137 23 0.17 119 0 0 6 0 0.00 FAM43A 131583 mdanderson.org 37 3 194407933 194407933 + Silent SNP C C A novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 C C Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_153690 exon1 c.C378A p.R126R GGAGCGCGCGCTG 26 2 0.08 22 0 0 11 0 0.00 PITX1 5307 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org 37 5 134364535 134364535 + Silent SNP C C G rs61751190 bycluster;alternate_allele TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 C C Unknown Untested Somatic . WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_002653 exon3 c.G879C p.S293S AAACGACGAGTGC 62 18 0.29 72 0 0 0 0 PPP2R2B 5521 mdanderson.org 37 5 146070770 146070770 + Missense_Mutation SNP C C T rs374783257 TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 C C Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f PPP2R2B_ENST00000508545,NS,carcinoma,0,8 PPP2R2B_ENST00000508545 NM_181675 exon5 c.G686A p.R229H TTATCACGCTCGC 44 3 0.07 63 0 0 0 8 0 0 BTN2A3P 54718 mdanderson.org 37 6 26422353 26422353 + RNA SNP C C T novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 C C Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f BTN2A3,NS,carcinoma,0,9 BTN2A3 . . . . ATGGAACCAGCTG 101 5 0.05 123 0 0 0 9 3 0 0.00 DST 667 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 6 56368856 56368856 + Missense_Mutation SNP G G A novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 G G Unknown Untested Somatic . WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_015548 exon59 c.C11636T p.A3879V ATTGAAGCTAATT 124 14 0.11 129 0 0 72 10 0.14 ZNF853 54753 mdanderson.org 37 7 6661823 6661823 + Nonsense_Mutation SNP C C T novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 C C Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_017560 exon3 c.C1201T p.Q401X GAGGTGCAGCTGG 19 2 0.11 13 0 0 16 0 0.00 ETV1 2115 broad.mit.edu 37 7 13949310 13949310 + Missense_Mutation SNP T T C novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 T T Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f ETV1_ENST00000403527,NS,carcinoma,0,2 ETV1 NM_004956 exon11 c.A887G p.K296R GGGCCCTTTTCAA 151 4 0.03 129 0 0 138 2 47 0 0.00 COBL 23242 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 7 51096836 51096836 + Missense_Mutation SNP C C A novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 C C Unknown Untested Somatic . WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_015198 exon10 c.G1957T p.G653C CACAGCCATACAC 270 87 0.32 176 0 0 43 12 0.28 . 0 broad.mit.edu 37 7 65889152 65889152 + RNA DEL T T - novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 T T Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . . . . . AGCTAATTTTTTT 6 2 0.33 7 0 0 8 0 0.00 FAM185A 222234 broad.mit.edu 37 7 102401776 102401776 + Silent SNP T T G rs2537454 TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 T T Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . FAM185A NM_001145268 exon4 c.T711G p.G237G AGATGGTTTGCTG 610 5 0.01 465 2 0.0043010753 10 4 0 0.00 ZNF277 11179 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 7 111980956 111980956 + Missense_Mutation SNP G G A novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 G G Unknown Untested Somatic . WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_021994 exon11 c.G1039A p.V347I AAACTGGTCAATT 233 54 0.23 228 0 0 61 21 0.34 NOS3 4846 broad.mit.edu;mdanderson.org 37 7 150698654 150698654 + Missense_Mutation SNP C C T novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 C C Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . NOS3 NM_001160111 exon11 c.C1451T p.A484V GGAGTGCCGCCAA 121 6 0.05 86 0 0 131 4 0 0.00 ERICH1 157697 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org 37 8 642586 642586 + Nonsense_Mutation SNP G G A rs150434775 bycluster TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 G G Unknown Untested Somatic . WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_207332 exon3 c.C196T p.R66X GCCGTCGGGCAGT 451 93 0.21 333 0 0 0 44 2 0.05 FOXD4 2298 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org 37 9 116901 116901 + Missense_Mutation SNP G G C novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 G G Unknown Untested Somatic . WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_207305 exon1 c.C1219G p.L407V ATGTCAGCCCAGA 181 14 0.08 180 0 0 0 0 ABCA2 20 mdanderson.org 37 9 139917217 139917217 + Missense_Mutation SNP G G T novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_212533 exon5 c.C466A p.Q156K GATGCTGGCGTAG 36 3 0.08 29 0 0 4 0 0.00 tRNA-Tyr 0 hgsc.bcm.edu;broad.mit.edu 37 MT 5881 5881 + RNA SNP G G A novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 G G Unknown Untested Somatic . WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . . . . . CACTCAGCCATTT 115 11 0.10 108 0 0 0 0 CHRDL1 91851 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 X 109924730 109924730 + Missense_Mutation SNP T T C novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 T T Unknown Untested Somatic . WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_001143981 exon10 c.A1136G p.H379R CAAACGTGGACCT 164 79 0.48 154 0 0 11 6 0.55 ARHGAP36 158763 mdanderson.org 37 X 130219013 130219013 + Silent SNP G G T novel TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 G G Unknown Untested Somatic Phase_I WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . NM_144967 exon7 c.G930T p.L310L TGATCTGTACATG 56 3 0.05 56 1 0.0178571429 6 0 0.00 . 100130277 bcgsc.ca 37 Y 10029174 10029174 + RNA SNP G G T rs77341040 TCGA-YU-A90W-01A-11D-A435-10 TCGA-YU-A90W-10A-01D-A438-10 G G Unknown Untested Somatic Phase_1 WXS none Illumina HiSeq 88e283c8-569b-4e2a-81ec-1d38873ec4f8 1374f899-bff2-4251-a5f5-309ce22bb20f . . . . . . CAGTGGGACAGTA 31 8 0.26 41 3 0.0731707317 6 0 0.00