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 TTotCov TVarCov NTotCov NVarCov TVarRat NVarRat dbSNP_AF dbSNP_PopFreq dbSNP_Strength COSMIC_Codon COSMIC_Gene COSMIC_Gene_Freq COSMIC_Site_Freq Transcript_Id Exon ChromChange AAChange Genome_Plus_Minus_10_Bp Drug_Target Confidence Algorithm MLL2 8085 hgsc.bcm.edu 37 12 49426385 49426388 + Frame_Shift_Del DEL AAGA AAGA - novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 AAGA AAGA . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 71.0 34.0 153.0 0.0 0.479 . . . none . MLL2 1173 . NM_003482 exon39 c.12101_12104del p.4034_4035del . . PASS Pindel,Atlas-Indel HLA-B 3106 hgsc.bcm.edu 37 6 31323097 31323098 + Frame_Shift_Ins INS - - T novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 56.0 20.0 65.0 0.0 0.357143 0 . . none . HLA-B 54 . NM_005514 exon4 c.892_893insA p.W298fs . . PASS Atlas-Indel MUC2 4583 hgsc.bcm.edu 37 11 1092688 1092689 + In_Frame_Ins INS - - CAA novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 119.0 13.0 122.0 0.0 0.109244 0 . . none . MUC2 614 . NM_002457 exon30 c.4507_4508insCAA p.P1503delinsPT . . PASS Atlas-Indel DMD 1756 hgsc.bcm.edu 37 X 32407663 32407664 + Frame_Shift_Ins INS - - T novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 204.0 44.0 251.0 0.0 0.216 . . . none . DMD 2127 . NM_004006 exon32 c.4473_4474insA p.K1491fs . . PASS Pindel,Atlas-Indel UBASH3A 53347 hgsc.bcm.edu 37 21 43826425 43826436 + In_Frame_Del DEL CGTTGGCAGCCA CGTTGGCAGCCA - novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 CGTTGGCAGCCA CGTTGGCAGCCA . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 66.0 14.0 77.0 0.0 0.212 . . . none . UBASH3A 72 . NM_018961 exon2 c.121_132del p.41_44del . . PASS Pindel,Atlas-Indel MRPL14 64928 hgsc.bcm.edu 37 6 44081581 44081584 + Frame_Shift_Del DEL CACA CACA - novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 CACA CACA . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 62.0 20.0 48.0 0.0 0.323 . . . none . MRPL14 15 . NM_032111 exon3 c.435_438del p.145_146del . . PASS Pindel,Atlas-Indel BFAR 51283 hgsc.bcm.edu 37 16 14738262 14738262 + Missense_Mutation SNP T T C novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 107.0 33.0 106.0 0.0 0.308411 0 . . none . BFAR 38 . NM_016561 exon2 c.T59C p.L20P AACCTCTCAAAAG . PASS Atlas-SNP PIM1 5292 hgsc.bcm.edu 37 6 37138372 37138372 + Silent SNP C C T novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 54.0 20.0 70.0 0.0 0.37037 0 . . none . PIM1 71 . NM_001243186 exon1 c.C294T p.N98N AATCAACTCGCTT . PASS Atlas-SNP PDE3A 5139 hgsc.bcm.edu 37 12 20787928 20787928 + Nonsense_Mutation SNP A A T novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 63.0 21.0 71.0 0.0 0.333333 0 . . none . PDE3A 184 . NM_000921 exon8 c.A1939T p.R647X TGCCTGAGAGAGC . PASS Atlas-SNP PTPRZ1 5803 hgsc.bcm.edu 37 7 121684560 121684560 + Missense_Mutation SNP T T C novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 107.0 34.0 123.0 0.0 0.317757 0 . . none . PTPRZ1 605 . NM_002851 exon23 c.T6022C p.Y2008H CATGCCTATGTTA . PASS Atlas-SNP FAT4 79633 hgsc.bcm.edu 37 4 126370300 126370300 + Missense_Mutation SNP G G A novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 81.0 25.0 97.0 0.0 0.308642 0 . . none . FAT4 1752 . NM_024582 exon9 c.G8129A p.G2710D TTAATGGCAACAT . PASS Atlas-SNP DLGAP3 58512 hgsc.bcm.edu 37 1 35369943 35369943 + Missense_Mutation SNP C C T novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 28.0 14.0 15.0 0.0 0.5 0 . . none . DLGAP3 107 . NM_001080418 exon1 c.G1042A p.G348R CTGGCCCGGCCCC . PASS Atlas-SNP C7orf61 402573 hgsc.bcm.edu 37 7 100061611 100061611 + Missense_Mutation SNP C C T novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 82.0 27.0 77.0 0.0 0.329268 0 . . none . C7orf61 12 . NM_001004323 exon1 c.G38A p.R13Q CAAGCCCGTCTAA . PASS Atlas-SNP ANKFN1 162282 hgsc.bcm.edu 37 17 54403699 54403699 + Silent SNP C C T novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 118.0 35.0 145.0 0.0 0.29661 0 . . none . ANKFN1 115 . NM_153228 exon3 c.C180T p.A60A TGCTGCCTCGAAC . PASS Atlas-SNP ETV6 2120 hgsc.bcm.edu 37 12 11803095 11803095 + Splice_Site SNP G G A novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 26.0 16.0 47.0 0.0 0.615385 0 . . none . ETV6 91 . NM_001987 exon1 c.33+1G>A . ATTAAGGTAAAAA . PASS Atlas-SNP PIM1 5292 hgsc.bcm.edu 37 6 37139210 37139210 + Missense_Mutation SNP C C T rs200495767 by1000genomes;alternate_allele TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 70.0 31.0 73.0 0.0 0.442857 0 C|1.000;G|0.000 . alt PIM1,NS,NS,0,1 PIM1 71 1 NM_001243186 exon4 c.C823T p.L275F CTCAAGCTCATCG . PASS Atlas-SNP COX3 5742 hgsc.bcm.edu 37 MT 9445 9445 + Missense_Mutation SNP G G A novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 26.0 12.0 43.0 0.0 0.461538 0 . . none . . . . ENST00000362079 exon1 c.G239A p.R80Q GCCTTCGATACGG . PASS Atlas-SNP ZIC3 7547 hgsc.bcm.edu 37 X 136649636 136649636 + Missense_Mutation SNP C C G novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 73.0 23.0 72.0 0.0 0.315068 0 . . none . ZIC3 93 . NM_003413 exon1 c.C786G p.S262R GCTGAGCCGGCCC . PASS Atlas-SNP PIM1 5292 hgsc.bcm.edu 37 6 37138901 37138901 + Missense_Mutation SNP C C T novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 48.0 12.0 33.0 0.0 0.25 0 . . none . PIM1 71 . NM_001243186 exon4 c.C514T p.P172S CTGCAGCCTAATG . PASS Atlas-SNP SNX8 29886 hgsc.bcm.edu 37 7 2304007 2304007 + Silent SNP G G A novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 31.0 11.0 29.0 0.0 0.354839 0 . . none SNX8,NS,carcinoma,0,2 SNX8 46 2 NM_013321 exon6 c.C708T p.R236R CCTGTCGCGAAGC . PASS Atlas-SNP PIM1 5292 hgsc.bcm.edu 37 6 37138765 37138765 + Silent SNP C C T novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 86.0 21.0 70.0 0.0 0.244186 0 . . none . PIM1 71 . NM_001243186 exon3 c.C471T p.I157I GGCCATCAAACAC . PASS Atlas-SNP PCLO 27445 hgsc.bcm.edu 37 7 82583413 82583413 + Missense_Mutation SNP C C A novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 166.0 52.0 189.0 0.0 0.313253 0 . . none . PCLO 1506 . NM_014510 exon5 c.G6856T p.A2286S TGTCAGCAACTGG . PASS Atlas-SNP ABCA13 154664 hgsc.bcm.edu 37 7 48318518 48318518 + Nonsense_Mutation SNP T T A novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 97.0 32.0 120.0 1.0 0.329897 0.00833333 . . none ABCA13_ENST00000435803,NS,carcinoma,-1,4 ABCA13 1192 4 NM_152701 exon18 c.T7727A p.L2576X CTACTTTAAAAAA . scavenged Atlas-SNP ITIH5 80760 hgsc.bcm.edu 37 10 7679231 7679231 + Silent SNP C C T novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 33.0 16.0 36.0 0.0 0.484848 0 . . none . ITIH5 343 . NM_001001851 exon5 c.G612A p.P204P GTGAAGCGGCAGC . PASS Atlas-SNP BCOR 54880 hgsc.bcm.edu 37 X 39933243 39933243 + Silent SNP A A G novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 97.0 39.0 86.0 0.0 0.402062 0 . . none . BCOR 351 . NM_001123385 exon4 c.T1356C p.A452A TTTGGAAGCATCT . PASS Atlas-SNP EGR1 1958 hgsc.bcm.edu 37 5 137801553 137801553 + Silent SNP C C T novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 113.0 48.0 140.0 0.0 0.424779 0 . . none . EGR1 52 . NM_001964 exon1 c.C103T p.L35L CCTAAGCTGGAGG . PASS Atlas-SNP NEURL 9148 hgsc.bcm.edu 37 10 105331517 105331517 + Missense_Mutation SNP C C T novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 80.0 30.0 83.0 0.0 0.375 0 . . none NEURL,NS,lymphoid_neoplasm,0,1 NEURL 38 1 NM_004210 exon3 c.C587T p.T196M TCCGCACGGCCGA . PASS Atlas-SNP TACC2 10579 hgsc.bcm.edu 37 10 123843062 123843062 + Silent SNP C C T novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 52.0 14.0 48.0 0.0 0.269231 0 . . none . TACC2 271 . NM_206862 exon4 c.C1047T p.G349G CTGGGGCTTGCCA . PASS Atlas-SNP NEB 4703 hgsc.bcm.edu 37 2 152432838 152432838 + Missense_Mutation SNP G G A novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 163.0 63.0 169.0 0.0 0.386503 0 . . none NEB_ENST00000427231,NS,carcinoma,+1,3 NEB 1697 3 NM_001271208 exon106 c.C16735T p.R5579C TGCCACGCAACCA . PASS Atlas-SNP KRIT1 889 hgsc.bcm.edu 37 7 91855062 91855062 + Missense_Mutation SNP T T G novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 252.0 85.0 262.0 0.0 0.337302 0 . . none KRIT1,NS,carcinoma,-1,1 KRIT1 66 1 NM_194456 exon13 c.A1226C p.K409T AACAATTTTGCAG . PASS Atlas-SNP EMC6 83460 hgsc.bcm.edu 37 17 3572623 3572623 + Silent SNP G G A novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 116.0 39.0 120.0 0.0 0.336207 0 . . none . . . . NM_001014764 exon2 c.G183A p.L61L CGTCCTGCTCTCC . PASS Atlas-SNP SYNDIG1L 646658 hgsc.bcm.edu 37 14 74874557 74874557 + Missense_Mutation SNP G G T novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 82.0 28.0 78.0 0.0 0.341463 0 . . none . SYNDIG1L 24 . NM_001105579 exon3 c.C553A p.Q185K CCCCCTGGGAGAA . PASS Atlas-SNP FAM124A 220108 hgsc.bcm.edu 37 13 51855115 51855115 + Missense_Mutation SNP C C A novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 55.0 22.0 48.0 0.0 0.4 0 . . none . FAM124A 61 . NM_145019 exon5 c.C1472A p.A491E ACTGGGCAGCTCA . PASS Atlas-SNP GABRP 2568 hgsc.bcm.edu 37 5 170222292 170222292 + Silent SNP G G T rs41315922 bycluster;by1000genomes;alternate_allele TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 67.0 23.0 89.0 0.0 0.343284 0 G|1.000;C|0.000 . alt . GABRP 65 . NM_014211 exon5 c.G321T p.L107L CACTCTGGATGCC . PASS Atlas-SNP MYD88 4615 hgsc.bcm.edu 37 3 38182641 38182641 + Missense_Mutation SNP T T C novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 37.0 29.0 47.0 0.0 0.783784 0 . . none MYD88,NS,lymphoid_neoplasm,0,828 MYD88 900 828 NM_001172569 exon4 c.T613C p.X205R AGCGACTGATCCC . PASS Atlas-SNP PDE3A 5139 hgsc.bcm.edu 37 12 20522715 20522715 + Missense_Mutation SNP C C T novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 104.0 35.0 102.0 0.0 0.336538 0 . . none . PDE3A 184 . NM_000921 exon1 c.C497T p.A166V TGGCCGCCTGCTG . PASS Atlas-SNP NKD2 85409 hgsc.bcm.edu 37 5 1036421 1036421 + Missense_Mutation SNP G G A rs376557535 TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 37.0 15.0 50.0 0.0 0.405405 0 . . weak . NKD2 39 . NM_001271082 exon9 c.G709A p.V237M TACTGCGTGGACG . PASS Atlas-SNP CACNG7 59284 hgsc.bcm.edu 37 19 54445378 54445378 + Missense_Mutation SNP G G A novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 153.0 41.0 103.0 0.0 0.267974 0 . . none . CACNG7 58 . NM_031896 exon5 c.G659A p.R220H GCCCGCGTCTCAG . PASS Atlas-SNP ASXL3 80816 hgsc.bcm.edu 37 18 31324989 31324989 + Missense_Mutation SNP C C A rs369543627 alternate_allele TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 61.0 15.0 57.0 0.0 0.245902 0 . . alt . ASXL3 405 . NM_030632 exon12 c.C5177A p.A1726D CCGATGCCCTGAA . PASS Atlas-SNP SYNE1 23345 hgsc.bcm.edu 37 6 152763351 152763351 + Missense_Mutation SNP C C A novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 90.0 29.0 108.0 0.0 0.322222 0 . . none . SYNE1 3227 . NM_033071 exon31 c.G3888T p.K1296N ATCTCTCTTCTTT . PASS Atlas-SNP MUC16 94025 hgsc.bcm.edu 37 19 8962366 8962366 + Missense_Mutation SNP T T G novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 133.0 41.0 103.0 0.0 0.308271 0 . . none . MUC16 4315 . NM_024690 exon82 c.A43333C p.T14445P TCCCAGTTAAGGG . PASS Atlas-SNP TRIM29 23650 hgsc.bcm.edu 37 11 120008144 120008144 + Missense_Mutation SNP A A G novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 26.0 14.0 23.0 0.0 0.538462 0 . . none . TRIM29 78 . NM_012101 exon1 c.T596C p.L199P GGCTTGAGATGCA . PASS Atlas-SNP AGAP6 414189 hgsc.bcm.edu 37 10 51769455 51769455 + Missense_Mutation SNP T T C novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 39.0 11.0 38.0 0.0 0.282051 0 . . none . AGAP6 53 . NM_001077665 exon8 c.T1570C p.W524R GATGACTGGCCAG . PASS Atlas-SNP ITGA6 3655 hgsc.bcm.edu 37 2 173368882 173368882 + Missense_Mutation SNP C C T rs370676535 TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 181.0 76.0 217.0 0.0 0.41989 0 . . weak . ITGA6 171 . NM_001079818 exon25 c.C3178T p.R1060W AGGATCCGGAAAG . PASS Atlas-SNP TACC2 10579 hgsc.bcm.edu 37 10 123987498 123987498 + Missense_Mutation SNP G G A rs114249776 bycluster;byfrequency;by1000genomes TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 52.0 20.0 48.0 0.0 0.384615 0 G|0.999;A|0.001 0.001 strong . TACC2 271 . NM_206862 exon14 c.G7871A p.G2624D GCTTGGGCACCCC . PASS Atlas-SNP AAGAB 79719 hgsc.bcm.edu 37 15 67528329 67528329 + Missense_Mutation SNP G G A novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 143.0 42.0 138.0 0.0 0.293706 0 . . none . AAGAB 24 . NM_024666 exon4 c.C439T p.P147S CCTCAGGCAACTC . PASS Atlas-SNP LRRK2 120892 hgsc.bcm.edu 37 12 40704416 40704416 + Missense_Mutation SNP C C T novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 101.0 5.0 90.0 0.0 0.049505 0 . . none LRRK2_ENST00000298910,NS,carcinoma,0,3 LRRK2 763 3 NM_198578 exon31 c.C4501T p.R1501W AAACTTCGGAAAA . PASS Atlas-SNP SLC44A2 57153 hgsc.bcm.edu 37 19 10738451 10738451 + Missense_Mutation SNP A A C novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 86.0 26.0 73.0 0.0 0.302326 0 . . none . SLC44A2 56 . NM_020428 exon3 c.A140C p.Y47S TGGGCTACGTGGC . PASS Atlas-SNP GRHL3 57822 hgsc.bcm.edu 37 1 24690825 24690825 + Silent SNP C C T novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 57.0 25.0 76.0 0.0 0.438596 0 . . none . GRHL3 69 . NM_198174 exon16 c.C1845T p.T615T CACCACCGTCAAC . PASS Atlas-SNP ZFP92 139735 hgsc.bcm.edu 37 X 152686543 152686543 + Silent SNP C C T novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 101.0 33.0 90.0 0.0 0.326733 0 . . none . ZFP92 26 . NM_001136273 exon4 c.C708T p.F236F GCCCTTCGCCTGC . PASS Atlas-SNP SHISA7 729956 hgsc.bcm.edu 37 19 55954006 55954006 + Silent SNP C C T novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 25.0 8.0 39.0 0.0 0.32 0 . . none . SHISA7 14 . NM_001145176 exon1 c.G225A p.A75A AGGGGGCGCCCGG . PASS Atlas-SNP VWF 7450 hgsc.bcm.edu 37 12 6076733 6076733 + Silent SNP G G T novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 31.0 18.0 44.0 0.0 0.580645 0 . . none . VWF 338 . NM_000552 exon47 c.C7806A p.T2602T GCGGCAGGTCGTG . PASS Atlas-SNP PAQR7 164091 hgsc.bcm.edu 37 1 26189430 26189430 + Missense_Mutation SNP G G A novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 110.0 47.0 143.0 0.0 0.427273 0 . . none . PAQR7 23 . NM_178422 exon2 c.C901T p.R301W TGGGCCGTCGGGC . PASS Atlas-SNP KRT6A 3853 hgsc.bcm.edu 37 12 52886934 52886934 + Missense_Mutation SNP G G T novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 136.0 31.0 102.0 0.0 0.227941 0 . . none . KRT6A 89 . NM_005554 exon1 c.C39A p.S13R GCGGCTGCTGCTG . PASS Atlas-SNP PIM1 5292 hgsc.bcm.edu 37 6 37138309 37138309 + Silent SNP C C T novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 48.0 14.0 37.0 0.0 0.291667 0 . . none . PIM1 71 . NM_001243186 exon1 c.C231T p.S77S CGGCAGCTCCTCT . PASS Atlas-SNP YTHDF2 51441 hgsc.bcm.edu 37 1 29070284 29070284 + Missense_Mutation SNP T T C novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 155.0 64.0 129.0 0.0 0.412903 0 . . none . YTHDF2 47 . NM_016258 exon4 c.T1502C p.F501S GGATTTTTGTGAA . PASS Atlas-SNP ELAVL2 1993 hgsc.bcm.edu 37 9 23762079 23762079 + Nonsense_Mutation SNP G G A novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 233.0 63.0 227.0 0.0 0.270386 0 . . none ELAVL2,colon,carcinoma,+1,1 ELAVL2 80 1 NM_001171195 exon2 c.C154T p.Q52X CCTCCTGTGTCAT . PASS Atlas-SNP NOP2 4839 hgsc.bcm.edu 37 12 6672843 6672843 + Missense_Mutation SNP C C T novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 68.0 27.0 71.0 0.0 0.397059 0 . . none . NOP2 44 . NM_001258309 exon8 c.G724A p.G242S GCAGGCCCCCATC . PASS Atlas-SNP FGF3 2248 hgsc.bcm.edu 37 11 69625283 69625283 + Silent SNP G G A novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 99.0 7.0 144.0 0.0 0.0707071 0 . . none FGF3,NS,carcinoma,0,1 FGF3 27 1 NM_005247 exon3 c.C510T p.R170R TGTGCGGCGGGTC . PASS Atlas-SNP PIM1 5292 hgsc.bcm.edu 37 6 37139042 37139042 + Missense_Mutation SNP G G A novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 86.0 38.0 78.0 0.0 0.44186 0 . . none . PIM1 71 . NM_001243186 exon4 c.G655A p.D219N GTGCAAGATCTCT . PASS Atlas-SNP TENM4 26011 hgsc.bcm.edu 37 11 78516504 78516504 + Missense_Mutation SNP C C A novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 24.0 11.0 23.0 0.0 0.458333 0 . . none . . . . NM_001098816 exon15 c.G2012T p.G671V CAGACACCCCGGC . PASS Atlas-SNP MTMR8 55613 hgsc.bcm.edu 37 X 63568661 63568661 + Missense_Mutation SNP C C T rs201816063 bycluster TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 90.0 31.0 77.0 0.0 0.344444 0 . . weak . MTMR8 178 . NM_017677 exon6 c.G611A p.R204H CTACAGCGGCAAA . PASS Atlas-SNP DHX38 9785 hgsc.bcm.edu 37 16 72137944 72137944 + Missense_Mutation SNP G G A novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 66.0 23.0 96.0 0.0 0.348485 0 . . none DHX38,NS,carcinoma,0,1 DHX38 91 1 NM_014003 exon14 c.G1924A p.D642N GAAGCCGACCTGG . PASS Atlas-SNP KRT3 3850 hgsc.bcm.edu 37 12 53185490 53185490 + Silent SNP C C T rs369576134 TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 178.0 99.0 154.0 0.0 0.55618 0 . . weak . KRT3 65 . NM_057088 exon6 c.G1299A p.E433E GACACCCTCGATC . PASS Atlas-SNP KLHL17 339451 hgsc.bcm.edu 37 1 898557 898557 + Missense_Mutation SNP G G A rs201246933 bycluster;by1000genomes TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 48.0 23.0 57.0 0.0 0.479167 0 G|0.999;A|0.001 0.001 strong . KLHL17 31 . NM_198317 exon7 c.G1111A p.V371M TGGCACGTGGTGG . PASS Atlas-SNP OR4K5 79317 hgsc.bcm.edu 37 14 20388876 20388876 + Silent SNP C C A novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 177.0 56.0 182.0 0.0 0.316384 0 . . none OR4K5,NS,carcinoma,0,1 OR4K5 111 1 NM_001005483 exon1 c.C111A p.V37V TACAGTCATTGTG . PASS Atlas-SNP ZDHHC14 79683 hgsc.bcm.edu 37 6 158074641 158074641 + Silent SNP G G A rs35358008 bycluster;byfrequency;by1000genomes;alternate_allele TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 33.0 13.0 22.0 0.0 0.393939 0 G|0.959;T|0.041 . alt . ZDHHC14 39 . NM_024630 exon8 c.G1050A p.T350T GGCCACGCAGTCA . PASS Atlas-SNP SERPINH1 871 hgsc.bcm.edu 37 11 75277917 75277917 + Missense_Mutation SNP G G A novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 58.0 22.0 39.0 0.0 0.37931 0 . . none . SERPINH1 33 . NM_001235 exon2 c.G523A p.E175K ATCAACGAGTGGG . PASS Atlas-SNP ZFPM2 23414 hgsc.bcm.edu 37 8 106815063 106815063 + Missense_Mutation SNP A A C novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 62.0 21.0 61.0 0.0 0.33871 0 . . none ZFPM2,colon,carcinoma,0,1 ZFPM2 219 1 NM_012082 exon8 c.A2753C p.K918T GTGAGAAAAATGG . PASS Atlas-SNP FCRL5 83416 hgsc.bcm.edu 37 1 157516959 157516959 + Silent SNP G G A novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 121.0 48.0 113.0 0.0 0.396694 0 . . none FCRL5,mouth,carcinoma,-1,1 FCRL5 177 1 NM_031281 exon3 c.C81T p.L27L AGGCTGGAGGAAA . PASS Atlas-SNP ZFP112 7771 hgsc.bcm.edu 37 19 44832834 44832834 + Silent SNP T T A novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 138.0 46.0 142.0 0.0 0.333333 0 . . none . ZFP112 219 . NM_001083335 exon5 c.A1494T p.P498P CTTACGTGGTTTC . PASS Atlas-SNP ALDH1B1 219 hgsc.bcm.edu 37 9 38397089 38397089 + Silent SNP G G A novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 65.0 22.0 68.0 0.0 0.338462 0 . . none . ALDH1B1 50 . NM_000692 exon2 c.G1344A p.V448V GGCTGTGTTCACC . PASS Atlas-SNP LCN8 138307 hgsc.bcm.edu 37 9 139651501 139651501 + Silent SNP A A C novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 50.0 19.0 53.0 0.0 0.38 0 . . none . LCN8 14 . NM_178469 exon2 c.T144G p.V48V ATATGCAACCTTC . PASS Atlas-SNP ETV6 2120 hgsc.bcm.edu 37 12 11803094 11803094 + Missense_Mutation SNP G G C novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 25.0 16.0 47.0 0.0 0.64 0 . . none . ETV6 91 . NM_001987 exon1 c.G33C p.K11N CATTAAGGTAAAA . PASS Atlas-SNP PIM1 5292 hgsc.bcm.edu 37 6 37138951 37138951 + Silent SNP C C T novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 50.0 28.0 48.0 0.0 0.56 0 . . none PIM1,NS,lymphoid_neoplasm,+1,5 PIM1 71 5 NM_001243186 exon4 c.C564T p.S188S GGTGAGCTCGGGT . PASS Atlas-SNP PPEF1 5475 hgsc.bcm.edu 37 X 18824536 18824536 + Missense_Mutation SNP T T C novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 152.0 54.0 185.0 0.0 0.355263 0 . . none . PPEF1 89 . NM_006240 exon15 c.T1267C p.S423P ATATTTTCTGCTT . PASS Atlas-SNP NXF3 56000 hgsc.bcm.edu 37 X 102338561 102338561 + Silent SNP G G A novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 226.0 75.0 235.0 0.0 0.331858 0 . . none . NXF3 81 . NM_022052 exon4 c.C411T p.C137C TACACTGCATTCA . PASS Atlas-SNP PIM1 5292 hgsc.bcm.edu 37 6 37140894 37140894 + Missense_Mutation SNP C C T novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 133.0 44.0 112.0 0.0 0.330827 0 . . none . PIM1 71 . NM_001243186 exon5 c.C1003T p.H335Y TTCGAGCATGACG . PASS Atlas-SNP PIM1 5292 hgsc.bcm.edu 37 6 37138549 37138549 + Missense_Mutation SNP G G A rs377274719 TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 47.0 24.0 65.0 0.0 0.510638 0 . . weak PIM1,NS,lymphoid_neoplasm,0,3 PIM1 71 3 NM_001243186 exon2 c.G356A p.G119D TCCTAGGCAAGGA . PASS Atlas-SNP GPR50 9248 hgsc.bcm.edu 37 X 150348670 150348670 + Silent SNP T T A novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 25.0 10.0 27.0 0.0 0.4 0 . . none . GPR50 195 . NM_004224 exon2 c.T615A p.G205G CGTGGGTTTCTGC . PASS Atlas-SNP HLA-C 3107 hgsc.bcm.edu 37 6 31239047 31239047 + Missense_Mutation SNP G G A rs281860470 TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 56.0 22.0 114.0 0.0 0.392857 0 . . weak . HLA-C 92 . NM_002117 exon3 c.C422T p.A141V TCGTAGGCGGACT . PASS Atlas-SNP TNS4 84951 hgsc.bcm.edu 37 17 38645133 38645133 + Silent SNP G G A novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 77.0 34.0 70.0 0.0 0.441558 0 . . none . TNS4 72 . NM_032865 exon3 c.C528T p.F176F GGAGCCGAAGGGC . PASS Atlas-SNP PIM1 5292 hgsc.bcm.edu 37 6 37139203 37139203 + Missense_Mutation SNP G G C novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 67.0 31.0 75.0 1.0 0.462687 0.0133333 . . none PIM1,NS,lymphoid_neoplasm,0,1 PIM1 71 1 NM_001243186 exon4 c.G816C p.E272D CGGCGAGCTCAAG . scavenged Atlas-SNP HIST1H4H 8365 hgsc.bcm.edu 37 6 26285531 26285531 + Missense_Mutation SNP A A T novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 72.0 29.0 102.0 0.0 0.402778 0 . . none . HIST1H4H 16 . NM_003543 exon1 c.T197A p.V66E CGAATCACGTTCT . PASS Atlas-SNP ZNF814 730051 hgsc.bcm.edu 37 19 58385790 58385790 + Missense_Mutation SNP G G T rs111727691 bycluster TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 253.0 23.0 168.0 0.0 0.0909091 0 G|0.500;T|0.500 0.500 weak . ZNF814 93 . NM_001144989 exon3 c.C968A p.P323H TCATAAGGTCTTT . PASS Atlas-SNP ZNF630 57232 hgsc.bcm.edu 37 X 47919314 47919314 + Missense_Mutation SNP G G T novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 140.0 46.0 145.0 0.0 0.328571 0 . . none . ZNF630 71 . NM_001037735 exon5 c.C517A p.Q173K ATTTTTGACTTAA . PASS Atlas-SNP CYTB 0 hgsc.bcm.edu 37 MT 15785 15785 + Missense_Mutation SNP T T C rs28357375 bycluster;byfrequency TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 17.0 12.0 44.0 0.0 0.705882 0 T|0.936;C|0.064 0.064 strong . . . . ENST00000361789 exon1 c.T1039C p.F347L TACCCTTTTACCA . PASS Atlas-SNP ALLC 55821 hgsc.bcm.edu 37 2 3745027 3745027 + Missense_Mutation SNP T T G novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 100.0 42.0 102.0 0.0 0.42 0 . . none ALLC,rectum,carcinoma,0,1 ALLC 61 1 NM_018436 exon10 c.T831G p.I277M TGAAATTGACACA . PASS Atlas-SNP HCN4 10021 hgsc.bcm.edu 37 15 73617312 73617312 + Silent SNP G G A novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 46.0 17.0 43.0 0.0 0.369565 0 . . none . HCN4 150 . NM_005477 exon6 c.C1962T p.D654D GGAGCCGTCGGCC . PASS Atlas-SNP DAPK1 1612 hgsc.bcm.edu 37 9 90219907 90219907 + Missense_Mutation SNP G G T novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 80.0 24.0 78.0 0.0 0.3 0 . . none DAPK1_ENST00000408954,NS,carcinoma,-1,1 DAPK1 329 1 NM_004938 exon3 c.G101T p.S34I AGAAAAGCACCGG . PASS Atlas-SNP MUC5B 727897 hgsc.bcm.edu 37 11 1260239 1260239 + Silent SNP C C A rs374136981 TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 77.0 26.0 94.0 0.0 0.337662 0 . . weak . MUC5B 473 . NM_002458 exon26 c.C3436A p.R1146R TCCTGGCGGACTC . PASS Atlas-SNP ANKK1 255239 hgsc.bcm.edu 37 11 113264381 113264381 + Missense_Mutation SNP C C T rs370146394 TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 81.0 27.0 76.0 0.0 0.333333 0 . . weak ANKK1,NS,carcinoma,0,1 ANKK1 83 1 NM_178510 exon2 c.C364T p.R122C AGGTTCCGCATCA . PASS Atlas-SNP ZFP37 7539 hgsc.bcm.edu 37 9 115818843 115818843 + Silent SNP G G A novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 69.0 24.0 65.0 0.0 0.347826 0 . . none . ZFP37 93 . NM_003408 exon1 c.C126T p.S42S CGCGGCGCTGGCC . PASS Atlas-SNP HLA-C 3107 hgsc.bcm.edu 37 6 31239416 31239416 + Silent SNP G G A rs281860412 bycluster TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 74.0 50.0 88.0 0.0 0.675676 0 . . weak . HLA-C 92 . NM_002117 exon2 c.C303T p.S101S CCGCAGGCTCACT . PASS Atlas-SNP RP1L1 94137 hgsc.bcm.edu 37 8 10467580 10467580 + Missense_Mutation SNP T T G novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 206.0 21.0 207.0 0.0 0.101942 0 . . none . RP1L1 453 . NM_178857 exon4 c.A4028C p.E1343A TCTGTTTCTTTAG . PASS Atlas-SNP KIAA1731 85459 hgsc.bcm.edu 37 11 93462694 93462694 + Missense_Mutation SNP C C T novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 86.0 26.0 83.0 0.0 0.302326 0 . . none . KIAA1731 173 . NM_033395 exon26 c.C7397T p.T2466I CATCTACAGGTAA . PASS Atlas-SNP SECISBP2L 9728 hgsc.bcm.edu 37 15 49338480 49338480 + Missense_Mutation SNP G G A novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 134.0 42.0 146.0 0.0 0.313433 0 . . none . SECISBP2L 118 . NM_001193489 exon1 c.C17T p.T6M TGCTCCGTGGGGG . PASS Atlas-SNP ERBB4 2066 hgsc.bcm.edu 37 2 212522545 212522545 + Missense_Mutation SNP C C G novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 73.0 39.0 78.0 0.0 0.534247 0 . . none ERBB4,NS,malignant_melanoma,0,1 ERBB4 480 1 NM_001042599 exon16 c.G1880C p.G627A GTGGGACCGTTAC . PASS Atlas-SNP PIM1 5292 hgsc.bcm.edu 37 6 37138577 37138577 + Silent SNP G G A novel TCGA-FA-A7DS-01A-11D-A382-10 TCGA-FA-A7DS-10A-01D-A385-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq d742814c-f5f3-4231-a2e0-6014e315d672 8e110330-8f35-4680-b920-cca0e6156105 52.0 28.0 79.0 0.0 0.538462 0 . . none PIM1,NS,lymphoid_neoplasm,0,2 PIM1 71 2 NM_001243186 exon2 c.G384A p.Q128Q GTCGCAGTACCAG . PASS Atlas-SNP