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 HYDIN 54768 hgsc.bcm.edu 37 16 70934989 70934989 + Frame_Shift_Del DEL A A - novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 110.0 16.0 45.0 0.0 0.145455 0 . . none . HYDIN 788 . NM_001270974 exon53 c.8967delC p.I2989fs . . PASS Atlas-Indel OR6A2 8590 hgsc.bcm.edu 37 11 6816750 6816751 + Frame_Shift_Ins INS - - A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 157.0 33.0 149.0 0.0 0.210191 0 . . none . OR6A2 68 . NM_003696 exon1 c.190_191insT p.L64fs . . PASS Atlas-Indel FAM115C 285966 hgsc.bcm.edu 37 7 143417404 143417405 + Frame_Shift_Del DEL CT CT - novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 CT CT . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 87.0 16.0 106.0 0.0 0.183908 0 . . none . FAM115C 29 . NM_173678 exon3 c.1251_1252del p.417_418del . . PASS Atlas-Indel FASTKD1 79675 hgsc.bcm.edu 37 2 170387132 170387133 + Frame_Shift_Ins INS - - T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 222.0 69.0 190.0 0.0 0.311 . . . none . FASTKD1 86 . NM_024622 exon14 c.2407_2408insA p.R803fs . . PASS Pindel,Atlas-Indel FARP2 9855 hgsc.bcm.edu 37 2 242407679 242407680 + Frame_Shift_Del DEL CT CT - novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 CT CT . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 62.0 17.0 82.0 0.0 0.274 . . . none . FARP2 92 . NM_014808 exon18 c.2017_2018del p.673_673del . . PASS Pindel,Atlas-Indel NCL 4691 hgsc.bcm.edu 37 2 232325406 232325408 + In_Frame_Del DEL TCA TCA - novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 TCA TCA . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 153.0 34.0 154.0 0.0 0.222 . . . none . NCL 80 . NM_005381 exon4 c.784_786del p.262_262del . . PASS Pindel,Atlas-Indel TET2 54790 hgsc.bcm.edu 37 4 106158509 106158510 + Frame_Shift_Ins INS - - T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 272.0 55.0 250.0 0.0 0.202 . . . none TET2,NS,haematopoietic_neoplasm,0,1 TET2 1762 1 NM_017628 exon3 c.3410_3411insT p.G1137fs . . PASS Pindel,Atlas-Indel MUC4 4585 hgsc.bcm.edu 37 3 195505765 195505766 + Frame_Shift_Ins INS - - A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 68.0 10.0 91.0 0.0 0.147059 0 . . none . MUC4 1505 . NM_018406 exon2 c.12686_12687insT p.S4229fs . . PASS Atlas-Indel ZNF660 285349 hgsc.bcm.edu 37 3 44636279 44636280 + Frame_Shift_Del DEL AT AT - novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 AT AT . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 38.0 13.0 41.0 0.0 0.342 . . . none . ZNF660 28 . NM_173658 exon3 c.593_594del p.198_198del . . PASS Pindel,Atlas-Indel LDHAL6A 160287 hgsc.bcm.edu 37 11 18487252 18487253 + Frame_Shift_Del DEL AC AC - novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 AC AC . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 179.0 56.0 152.0 0.0 0.313 . . . none . LDHAL6A 35 . NM_144972 exon3 c.312_313del p.104_105del . . PASS Pindel,Atlas-Indel SUPT20HL2 170067 hgsc.bcm.edu 37 X 24329897 24329908 + In_Frame_Del DEL AGCAGGAGCAGG AGCAGGAGCAGG - novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 AGCAGGAGCAGG AGCAGGAGCAGG . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 153.0 38.0 101.0 0.0 0.248366 0 . . none . . . . NM_001136233 exon1 c.1526_1537del p.509_513del . . PASS Atlas-Indel KRTAP4-5 85289 hgsc.bcm.edu 37 17 39305774 39305775 + In_Frame_Ins INS - - TGGCAGCAGCTGGGG novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 31.0 17.0 22.0 0.0 0.548387 0 . . none KRTAP4-5,NS,carcinoma,0,1 KRTAP4-5 34 1 NM_033188 exon1 c.246_247insCCCCAGCTGCTGCCA p.Q82delinsHPSCCQ . . PASS Atlas-Indel HYDIN 54768 hgsc.bcm.edu 37 16 70934990 70934991 + In_Frame_Ins INS - - CCC novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 108.0 16.0 47.0 0.0 0.148148 0 . . none . HYDIN 788 . NM_001270974 exon53 c.8965_8966insGGG p.I2989delinsGI . . PASS Atlas-Indel CTAGE5 4253 hgsc.bcm.edu 37 14 39784005 39784008 + Splice_Site DEL TATA TATA - rs75318507 bycluster;by1000genomes;alternate_allele TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 TATA TATA . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 131.0 79.0 116.0 0.0 0.603053 0 . . alt . CTAGE5 75 . . . . . . . PASS Atlas-Indel PCDH9 5101 hgsc.bcm.edu 37 13 67802190 67802190 + Frame_Shift_Del DEL A A - novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 154.0 12.0 103.0 0.0 0.0779221 0 . . none . PCDH9 252 . NM_020403 exon2 c.384delA p.I128fs . . PASS Atlas-Indel SUPT20HL1 100130302 hgsc.bcm.edu 37 X 24382374 24382388 + In_Frame_Del DEL TGCTGCTGCTGCTGC TGCTGCTGCTGCTGC - rs371342199 alternate_allele TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 TGCTGCTGCTGCTGC TGCTGCTGCTGCTGC . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 195.0 52.0 131.0 0.0 0.266667 0 . . alt . . . . NM_001136234 exon1 c.1496_1510del p.499_504del . . PASS Atlas-Indel MROH2B 133558 hgsc.bcm.edu 37 5 41064591 41064598 + Frame_Shift_Del DEL TTCATCCT TTCATCCT - novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 TTCATCCT TTCATCCT . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 36.0 13.0 46.0 0.0 0.361 . . . none . . . . NM_173489 exon5 c.437_444del p.146_148del . . PASS Pindel,Atlas-Indel UHRF2 115426 hgsc.bcm.edu 37 9 6413513 6413513 + Frame_Shift_Del DEL T T - novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 75.0 14.0 87.0 0.0 0.186667 0 . . none . UHRF2 50 . NM_152896 exon1 c.22delA p.I8fs . . PASS Atlas-Indel TSR1 55720 hgsc.bcm.edu 37 17 2237939 2237941 + In_Frame_Del DEL CCA CCA - novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 CCA CCA . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 87.0 29.0 110.0 0.0 0.333 . . . none . TSR1 57 . NM_018128 exon5 c.807_809del p.269_270del . . PASS Pindel,Atlas-Indel GCC2 9648 hgsc.bcm.edu 37 2 109087929 109087931 + In_Frame_Del DEL AAG AAG - novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 AAG AAG . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 83.0 24.0 109.0 0.0 0.289 . . . none . GCC2 129 . NM_181453 exon6 c.2143_2145del p.715_715del . . PASS Pindel,Atlas-Indel TET2 54790 hgsc.bcm.edu 37 4 106196525 106196525 + Frame_Shift_Del DEL G G - novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 76.0 13.0 96.0 0.0 0.171 . . . none . TET2 1762 . NM_001127208 exon11 c.4857delT p.P1619fs . . PASS Pindel,Atlas-Indel KIAA0586 9786 hgsc.bcm.edu 37 14 58899157 58899157 + Frame_Shift_Del DEL G G - novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 152.0 56.0 170.0 0.0 0.368 . . . none . KIAA0586 180 . NM_001244189 exon5 c.427delA p.R143fs . . PASS Pindel,Atlas-Indel IGLL5 100423062 hgsc.bcm.edu 37 22 23230370 23230370 + Frame_Shift_Del DEL A A - novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 45.0 10.0 144.0 0.0 0.222 . . . none . IGLL5 26 . NM_001178126 exon1 c.136delC p.Q46fs . . PASS Pindel,Atlas-Indel MUC4 4585 hgsc.bcm.edu 37 3 195505762 195505763 + Frame_Shift_Del DEL AG AG - novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 AG AG . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 68.0 10.0 88.0 0.0 0.147059 0 . . none MUC4_ENST00000463781,NS,carcinoma,-2,4 MUC4 1505 4 NM_018406 exon2 c.12689_12690del p.4230_4230del . . PASS Atlas-Indel ZNF543 125919 hgsc.bcm.edu 37 19 57839629 57839630 + In_Frame_Ins INS - - GCG novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 47.0 20.0 55.0 0.0 0.426 . . . none . ZNF543 61 . NM_213598 exon4 c.799_800insGCG p.R267delinsSG . . PASS Pindel,Atlas-Indel DDN 23109 hgsc.bcm.edu 37 12 49391394 49391395 + Frame_Shift_Ins INS - - C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 52.0 11.0 41.0 0.0 0.212 . . . none . DDN 54 . NM_015086 exon2 c.1265_1266insG p.A422fs . . PASS Pindel,Atlas-Indel ZNF623 9831 hgsc.bcm.edu 37 8 144733650 144733654 + Frame_Shift_Del DEL ATAAA ATAAA - rs202122969 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 ATAAA ATAAA . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 143.0 57.0 145.0 0.0 0.399 . ATAAA|0.993;-|0.007 0.007 strong . ZNF623 63 . NM_014789 exon1 c.1607_1611del p.536_537del . . PASS Pindel,Atlas-Indel MCCC1 56922 hgsc.bcm.edu 37 3 182755074 182755074 + Frame_Shift_Del DEL C C - novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 131.0 39.0 122.0 0.0 0.298 . . . none . MCCC1 87 . NM_020166 exon13 c.1527delC p.C509fs . . PASS Pindel,Atlas-Indel SLC23A1 9963 hgsc.bcm.edu 37 5 138715033 138715034 + Frame_Shift_Ins INS - - C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 99.0 16.0 85.0 0.0 0.162 . . . none . SLC23A1 51 . NM_152685 exon9 c.948_949insG p.G316fs . . PASS Pindel,Atlas-Indel RFC4 5984 hgsc.bcm.edu 37 3 186508121 186508122 + Frame_Shift_Del DEL CA CA - novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 CA CA . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 112.0 24.0 134.0 0.0 0.214 . . . none RFC4,NS,carcinoma,+2,2 RFC4 54 2 NM_002916 exon9 c.876_877del p.292_293del . . PASS Pindel,Atlas-Indel C16orf88 400506 hgsc.bcm.edu 37 16 19725766 19725767 + Frame_Shift_Ins INS - - C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 36.0 18.0 45.0 0.0 0.500 . . . none . C16orf88 41 . NM_001012991 exon2 c.592_593insG p.Q198fs . . PASS Pindel,Atlas-Indel B2M 567 hgsc.bcm.edu 37 15 45007888 45007891 + Frame_Shift_Del DEL TAGT TAGT - novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 TAGT TAGT . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 51.0 17.0 71.0 0.0 0.333 . . . none . B2M 99 . NM_004048 exon2 c.334_337del p.112_113del . . PASS Pindel NUDT17 200035 hgsc.bcm.edu 37 1 145586672 145586679 + Frame_Shift_Del DEL TTTTACAC TTTTACAC - rs201063949 by1000genomes;alternate_allele TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 TTTTACAC TTTTACAC . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 84.0 21.0 116.0 0.0 0.250 . -|0.017;TTTTA|0.983 0.017 alt . NUDT17 25 . NM_001012758 exon8 c.898_905del p.300_302del . . PASS Pindel C14orf23 387978 hgsc.bcm.edu 37 14 29261305 29261306 + RNA INS - - AACAAAC rs200251419 by1000genomes;alternate_allele TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 67.0 12.0 86.0 0.0 0.179 . -|0.668;AAC|0.332 . alt . C14orf23 5 . . . . . . . PASS Pindel STK17B 9262 hgsc.bcm.edu 37 2 197004468 197004575 + In_Frame_Del DEL CTCCCACAAATGGTGATGTGTGAGTTAACAACATATATGCTATTATACCAATATTCCTGAAAAACAAGGGAGGGGAACTTAAAATGTATGTTAATTTTTAAACATTTA CTCCCACAAATGGTGATGTGTGAGTTAACAACATATATGCTATTATACCAATATTCCTGAAAAACAAGGGAGGGGAACTTAAAATGTATGTTAATTTTTAAACATTTA - novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 CTCCCACAAATGGTGATGTGTGAGTTAACAACATATATGCTATTATACCAATATTCCTGAAAAACAAGGGAGGGGAACTTAAAATGTATGTTAATTTTTAAACATTTA CTCCCACAAATGGTGATGTGTGAGTTAACAACATATATGCTATTATACCAATATTCCTGAAAAACAAGGGAGGGGAACTTAAAATGTATGTTAATTTTTAAACATTTA . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 68.0 15.0 84.0 0.0 0.221 . . . none . STK17B 28 . NM_004226 exon7 c.657_713del p.219_238del . . PASS Pindel SLC12A9 56996 hgsc.bcm.edu 37 7 100464136 100464136 + Missense_Mutation SNP G G A rs374047787 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 52.0 20.0 26.0 0.0 0.384615 0 . . weak . SLC12A9 81 . NM_020246 exon14 c.G2654A p.R885H ACCCCCGCTACCT . PASS Atlas-SNP MN1 4330 hgsc.bcm.edu 37 22 28192809 28192809 + Silent SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 96.0 30.0 81.0 0.0 0.3125 0 . . none . MN1 122 . NM_002430 exon1 c.C3723T p.D1241D CTTGTCGTCGTCC . PASS Atlas-SNP CLCA2 9635 hgsc.bcm.edu 37 1 86913384 86913384 + Missense_Mutation SNP T T A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 89.0 20.0 76.0 0.0 0.224719 0 . . none . CLCA2 102 . NM_006536 exon11 c.T1907A p.L636H CCATTCTTAATGC . PASS Atlas-SNP RRP8 23378 hgsc.bcm.edu 37 11 6622218 6622218 + Missense_Mutation SNP G G A rs17834692 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 91.0 39.0 60.0 0.0 0.428571 0 G|0.986;A|0.014 0.014 strong . RRP8 40 . NM_015324 exon4 c.C985T p.P329S GCACAGGGTTCCG . PASS Atlas-SNP ALDH3A2 224 hgsc.bcm.edu 37 17 19575096 19575096 + Missense_Mutation SNP C C T rs61737992 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 104.0 50.0 102.0 0.0 0.480769 0 C|0.996;T|0.004 0.004 strong . ALDH3A2 41 . NM_001031806 exon9 c.C1270T p.P424S CAGCGTCCCTGTT . PASS Atlas-SNP GOLGA6L6 727832 hgsc.bcm.edu 37 15 20739922 20739922 + Nonsense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 87.0 47.0 61.0 0.0 0.54023 0 . . none . GOLGA6L6 37 . NM_001145004 exon8 c.C1828T p.Q610X CCTCCTGCTTCCA . PASS Atlas-SNP ND6 0 hgsc.bcm.edu 37 MT 14149 14149 + Silent SNP C C T rs28357668 bycluster;byfrequency;alternate_allele TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 19.0 19.0 12.0 0.0 1 0 A|0.995;G|0.005 . alt . . . . ENST00000361681 exon1 c.G525A p.X175X ACATAACCTATTC . PASS Atlas-SNP SFMBT2 57713 hgsc.bcm.edu 37 10 7412243 7412243 + Silent SNP G G A rs142871492 bycluster;byfrequency TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 73.0 32.0 119.0 0.0 0.438356 0 G|0.997;A|0.003 0.003 strong . SFMBT2 209 . NM_001029880 exon3 c.C195T p.H65H ACATACGTGTTTG . PASS Atlas-SNP ACP6 51205 hgsc.bcm.edu 37 1 147131611 147131611 + Missense_Mutation SNP C C T rs144959805 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 124.0 61.0 69.0 0.0 0.491935 0 C|0.999;T|0.001 0.001 strong . ACP6 36 . NM_016361 exon3 c.G379A p.V127M TGCCCACCTTGGT . PASS Atlas-SNP CEACAM1 634 hgsc.bcm.edu 37 19 43031318 43031318 + Missense_Mutation SNP G G A rs199627333 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 313.0 13.0 275.0 0.0 0.0415335 0 . . weak . CEACAM1 43 . NM_001184816 exon2 c.C299T p.T100I TATATTGTCTCTC . PASS Atlas-SNP CYP3A4 1576 hgsc.bcm.edu 37 7 99358598 99358598 + Silent SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 252.0 105.0 276.0 0.0 0.416667 0 . . none . CYP3A4 56 . NM_017460 exon12 c.C1260T p.S420S CTTCTTGCTGAAT . PASS Atlas-SNP ANKRD36 375248 hgsc.bcm.edu 37 2 97790211 97790211 + Missense_Mutation SNP A A T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 178.0 9.0 153.0 1.0 0.0505618 0.00653595 . . none ANKRD36_ENST00000420699,extremity,malignant_melanoma,0,2 ANKRD36 170 2 NM_001164315 exon5 c.A608T p.H203L TCATACATGCTGT . scavenged Atlas-SNP CDH8 1006 hgsc.bcm.edu 37 16 61935317 61935317 + Missense_Mutation SNP C C A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 98.0 20.0 87.0 0.0 0.204082 0 . . none CDH8,NS,carcinoma,0,1 CDH8 273 1 NM_001796 exon3 c.G313T p.A105S TCCCAGCTCCATC . PASS Atlas-SNP UMODL1 89766 hgsc.bcm.edu 37 21 43557637 43557637 + Silent SNP C C T rs200233807 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 205.0 127.0 131.0 0.0 0.619512 0 C|0.999;T|0.001 0.001 strong . UMODL1 186 . NM_173568 exon21 c.C4248T p.A1416A AACAGCCACCCTT . PASS Atlas-SNP CENPB 1059 hgsc.bcm.edu 37 20 3766137 3766137 + Missense_Mutation SNP G G T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 73.0 35.0 88.0 0.0 0.479452 0 . . none . CENPB 24 . NM_001810 exon1 c.C994A p.Q332K TCACCTGCTGGAC . PASS Atlas-SNP AMER1 139285 hgsc.bcm.edu 37 X 63412987 63412987 + Silent SNP A A G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 123.0 51.0 73.0 0.0 0.414634 0 . . none . . . . NM_152424 exon2 c.T180C p.F60F GCCACCAAAGAGT . PASS Atlas-SNP FCF1 51077 hgsc.bcm.edu 37 14 75190002 75190002 + Missense_Mutation SNP T T C rs41309250 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 122.0 67.0 115.0 0.0 0.54918 0 T|0.995;C|0.005 0.005 strong . FCF1 15 . NM_015962 exon5 c.T320C p.M107T GTGTAATGGCTGA . PASS Atlas-SNP UPP2 151531 hgsc.bcm.edu 37 2 158991346 158991346 + Missense_Mutation SNP C C T rs144945330 bycluster;byfrequency TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 91.0 20.0 138.0 0.0 0.21978 0 C|0.999;T|0.001 0.001 strong . UPP2 60 . NM_001135098 exon9 c.C1069T p.R357W CAGCAACGGCCTC . PASS Atlas-SNP LRP1 4035 hgsc.bcm.edu 37 12 57603636 57603636 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 49.0 18.0 47.0 0.0 0.367347 0 . . none . LRP1 428 . NM_002332 exon80 c.C12424T p.H4142Y CATCAGCACAAGC . PASS Atlas-SNP CCND3 896 hgsc.bcm.edu 37 6 41909273 41909273 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 72.0 22.0 104.0 0.0 0.305556 0 . . none . CCND3 40 . NM_001760 exon1 c.G115A p.V39I GGGGTACGTAGCG . PASS Atlas-SNP ANKRD1 27063 hgsc.bcm.edu 37 10 92679979 92679979 + Missense_Mutation SNP G G C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 147.0 71.0 144.0 0.0 0.482993 0 . . none . ANKRD1 50 . NM_014391 exon2 c.C154G p.P52A TCACAGGGTGGGC . PASS Atlas-SNP ZFAND2B 130617 hgsc.bcm.edu 37 2 220072382 220072382 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 82.0 28.0 80.0 0.0 0.341463 0 . . none ZFAND2B_ENST00000444522,NS,carcinoma,-1,2 ZFAND2B 28 2 NM_138802 exon3 c.C163T p.P55S CAGGTACCTGTGT . PASS Atlas-SNP ZNF646 9726 hgsc.bcm.edu 37 16 31090221 31090221 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 91.0 4.0 83.0 0.0 0.043956 0 . . none . ZNF646 133 . NM_014699 exon2 c.C2576T p.S859F TTGACTCTCTGCC . PASS Atlas-SNP STAB1 23166 hgsc.bcm.edu 37 3 52557136 52557136 + Missense_Mutation SNP T T G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 54.0 5.0 61.0 0.0 0.0925926 0 . . none . STAB1 178 . NM_015136 exon63 c.T7006G p.S2336A AACTTCTCCACCT . PASS Atlas-SNP FHIT 2272 hgsc.bcm.edu 37 3 60522657 60522657 + Silent SNP A A C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 59.0 13.0 42.0 0.0 0.220339 0 . . none . FHIT 44 . NM_002012 exon5 c.T39G p.S13S CACTACAGAGGGC . PASS Atlas-SNP CSMD1 64478 hgsc.bcm.edu 37 8 3019696 3019696 + Silent SNP G G A rs145598896 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 45.0 18.0 40.0 0.0 0.4 0 G|0.999;A|0.001 0.001 strong . CSMD1 1469 . NM_033225 exon38 c.C5829T p.P1943P GTACCCGGGCTCG . PASS Atlas-SNP BIRC6 57448 hgsc.bcm.edu 37 2 32774473 32774473 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 258.0 72.0 237.0 0.0 0.27907 0 . . none . BIRC6 838 . NM_016252 exon65 c.C13069T p.P4357S GCCCTTCCTTCTG . PASS Atlas-SNP CCDC54 84692 hgsc.bcm.edu 37 3 107096926 107096926 + Missense_Mutation SNP A A C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 215.0 50.0 207.0 0.0 0.232558 0 . . none . CCDC54 56 . NM_032600 exon1 c.A492C p.K164N GGGTAAAGAAATC . PASS Atlas-SNP SMTNL1 219537 hgsc.bcm.edu 37 11 57317522 57317522 + Silent SNP A A G rs117673759 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 112.0 50.0 115.0 0.0 0.446429 0 A|0.999;G|0.001 0.001 strong . SMTNL1 68 . NM_001105565 exon7 c.A1422G p.T474T CTACACATACATC . PASS Atlas-SNP CTAGE5 4253 hgsc.bcm.edu 37 14 39790149 39790149 + Missense_Mutation SNP C C G rs36060072 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 100.0 52.0 86.0 0.0 0.52 0 G|0.005;C|0.995 0.005 strong . CTAGE5 75 . NM_001247989 exon19 c.C1576G p.P526A TATGGTCCCTCAC . PASS Atlas-SNP ZBBX 79740 hgsc.bcm.edu 37 3 167023485 167023485 + Missense_Mutation SNP G G T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 169.0 37.0 202.0 0.0 0.218935 0 . . none . ZBBX 299 . NM_024687 exon17 c.C1671A p.S557R CAGATTGCTCAAT . PASS Atlas-SNP PCDHGB3 56102 hgsc.bcm.edu 37 5 140751891 140751891 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 27.0 9.0 35.0 0.0 0.333333 0 . . none . PCDHGB3 168 . NM_018924 exon1 c.G1930A p.V644I CTGCTGGTCACTG . PASS Atlas-SNP PRR22 163154 hgsc.bcm.edu 37 19 5783840 5783840 + Missense_Mutation SNP G G C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 36.0 14.0 19.0 0.0 0.388889 0 . . none . PRR22 25 . NM_001134316 exon3 c.C418G p.P140A ACTGGGGCCCCCC . PASS Atlas-SNP TANK 10010 hgsc.bcm.edu 37 2 162036195 162036195 + Nonsense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 100.0 41.0 136.0 0.0 0.41 0 . . none . TANK 35 . NM_004180 exon2 c.C22T p.Q8X GGCGAGCAACTCA . PASS Atlas-SNP LAMA2 3908 hgsc.bcm.edu 37 6 129813567 129813567 + Missense_Mutation SNP T T A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 73.0 39.0 90.0 0.0 0.534247 0 . . none . LAMA2 481 . NM_000426 exon58 c.T8183A p.V2728D AAATAGTTATCCA . PASS Atlas-SNP ENGASE 64772 hgsc.bcm.edu 37 17 77075631 77075631 + Silent SNP C C T rs3744182 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 72.0 23.0 84.0 0.0 0.319444 0 C|0.878;T|0.122 0.122 strong ENGASE,NS,carcinoma,+2,2 ENGASE 55 2 NM_001042573 exon4 c.C477T p.D159D CATCGACGTCTTT . PASS Atlas-SNP HUNK 30811 hgsc.bcm.edu 37 21 33368191 33368191 + Missense_Mutation SNP G G C rs138721520 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 180.0 106.0 162.0 0.0 0.588889 0 G|0.998;C|0.002 0.002 strong . HUNK 74 . NM_014586 exon10 c.G1416C p.M472I GCTTATGACACAG . PASS Atlas-SNP HAGHL 84264 hgsc.bcm.edu 37 16 777590 777590 + Silent SNP C C T rs143758903 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 96.0 45.0 92.0 0.0 0.46875 0 C|0.999;T|0.001 0.001 strong . HAGHL 18 . NM_032304 exon1 c.C81T p.A27A GGTGGCCGTGGAC . PASS Atlas-SNP CD48 962 hgsc.bcm.edu 37 1 160681535 160681535 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 265.0 53.0 275.0 0.0 0.2 0 . . none . CD48 31 . NM_001256030 exon1 c.G19A p.D7N ACGAATCCCAACC . PASS Atlas-SNP PAX5 5079 hgsc.bcm.edu 37 9 37033992 37033992 + Missense_Mutation SNP T T C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 89.0 41.0 61.0 0.0 0.460674 0 . . none . PAX5 250 . NM_016734 exon1 c.A37G p.S13G TCCTGCTGGTCCG . PASS Atlas-SNP RFTN2 130132 hgsc.bcm.edu 37 2 198498595 198498595 + Missense_Mutation SNP C C T rs139323535 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 170.0 85.0 173.0 0.0 0.5 0 C|0.998;T|0.002 0.002 strong RFTN2,NS,carcinoma,0,2 RFTN2 68 2 NM_144629 exon4 c.G565A p.G189S CTGAACCGTGTCT . PASS Atlas-SNP C2orf53 339779 hgsc.bcm.edu 37 2 27360773 27360773 + Missense_Mutation SNP G G A rs61741796 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 43.0 20.0 47.0 0.0 0.465116 0 G|0.993;A|0.007 0.007 strong . C2orf53 45 . NM_178553 exon3 c.C425T p.P142L TGGCAAGGTGAGT . PASS Atlas-SNP MCMDC2 157777 hgsc.bcm.edu 37 8 67786817 67786817 + Missense_Mutation SNP C C T rs116671744 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 117.0 50.0 120.0 0.0 0.42735 0 C|0.970;T|0.030 0.030 strong . MCMDC2 84 . NM_173518 exon4 c.C281T p.T94M CTGAAACGCAAGT . PASS Atlas-SNP TOX3 27324 hgsc.bcm.edu 37 16 52484278 52484278 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 113.0 33.0 97.0 0.0 0.292035 0 . . none . TOX3 121 . NM_001080430 exon4 c.C589T p.H197Y ATGTGTGAGGCAT . PASS Atlas-SNP SYMPK 8189 hgsc.bcm.edu 37 19 46320218 46320218 + Silent SNP G G A rs140350780 byfrequency TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 92.0 47.0 110.0 0.0 0.51087 0 G|0.997;A|0.003 0.003 strong . SYMPK 104 . NM_004819 exon24 c.C3096T p.P1032P CACCTTGGGGTAC . PASS Atlas-SNP KHDRBS1 10657 hgsc.bcm.edu 37 1 32479924 32479924 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 84.0 28.0 73.0 0.0 0.333333 0 . . none . KHDRBS1 34 . NM_006559 exon1 c.G328A p.E110K ATGGCCGAGAAGG . PASS Atlas-SNP ATAD3B 83858 hgsc.bcm.edu 37 1 1425644 1425644 + Missense_Mutation SNP C C G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 101.0 50.0 92.0 0.0 0.49505 0 . . none . ATAD3B 68 . NM_031921 exon14 c.C1345G p.L449V TTCATGCTGGTCC . PASS Atlas-SNP USP35 57558 hgsc.bcm.edu 37 11 77911745 77911745 + Missense_Mutation SNP C C T rs147270370 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 119.0 95.0 95.0 0.0 0.798319 0 C|0.996;T|0.004 0.004 strong USP35_ENST00000263311,rectum,carcinoma,-1,2 USP35 179 2 NM_020798 exon6 c.C1088T p.S363L AGGACTCGAACTC . PASS Atlas-SNP SAMD9L 219285 hgsc.bcm.edu 37 7 92761064 92761064 + Missense_Mutation SNP T T G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 75.0 17.0 63.0 0.0 0.226667 0 . . none . SAMD9L 227 . NM_152703 exon5 c.A4221C p.K1407N TTGTTTTTTTAGC . PASS Atlas-SNP OR10A5 144124 hgsc.bcm.edu 37 11 6867588 6867588 + Silent SNP T T C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 224.0 12.0 243.0 0.0 0.0535714 0 . . none . OR10A5 48 . NM_178168 exon1 c.T675C p.A225A TGCTGCTATCCTC . PASS Atlas-SNP KRTAP13-2 337959 hgsc.bcm.edu 37 21 31744062 31744062 + Missense_Mutation SNP C C A rs150635388 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 110.0 65.0 105.0 0.0 0.590909 0 C|0.999;A|0.001 0.001 strong KRTAP13-2,NS,carcinoma,0,1 KRTAP13-2 29 1 NM_181621 exon1 c.G470T p.C157F GACTGGCAGCTCC . PASS Atlas-SNP KIAA0196 9897 hgsc.bcm.edu 37 8 126056088 126056088 + Silent SNP C C T rs369339497 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 137.0 70.0 112.0 0.0 0.510949 0 . . weak KIAA0196,NS,carcinoma,0,1 KIAA0196 90 1 NM_014846 exon23 c.G2829A p.A943A GAGATACGCAGTC . PASS Atlas-SNP GALNT14 79623 hgsc.bcm.edu 37 2 31348076 31348076 + Missense_Mutation SNP G G A rs41280621 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 36.0 15.0 37.0 0.0 0.416667 0 G|0.994;A|0.006 0.006 strong . GALNT14 103 . NM_001253826 exon2 c.C173T p.A58V TGAGGCGCCCAAG . PASS Atlas-SNP TRAPPC12 51112 hgsc.bcm.edu 37 2 3391458 3391458 + Missense_Mutation SNP G G A rs200941005 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 46.0 34.0 43.0 0.0 0.73913 0 G|0.998;A|0.002 0.002 strong . . . . NM_016030 exon2 c.G64A p.A22T CAGCTCGCGCCTC . PASS Atlas-SNP MAMDC2 256691 hgsc.bcm.edu 37 9 72723204 72723204 + Missense_Mutation SNP G G A rs139498917 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 125.0 63.0 149.0 0.0 0.504 0 G|0.999;A|0.001 0.001 strong . MAMDC2 55 . NM_153267 exon3 c.G226A p.E76K CAGGCTGAGGAAT . PASS Atlas-SNP UBR4 23352 hgsc.bcm.edu 37 1 19500088 19500088 + Silent SNP A A G rs41273197 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 112.0 59.0 78.0 0.0 0.526786 0 A|0.995;G|0.005 0.005 strong . UBR4 415 . NM_020765 exon23 c.T3010C p.L1004L GTATCAAGAAGTA . PASS Atlas-SNP CWF19L2 143884 hgsc.bcm.edu 37 11 107309826 107309826 + Silent SNP C C T rs201136952 by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 32.0 8.0 44.0 0.0 0.25 0 C|1.000;T|0.000 0.000 strong CWF19L2_ENST00000282251,NS,carcinoma,0,2 CWF19L2 135 2 NM_152434 exon6 c.G654A p.S218S AGTAATCGATGAC . PASS Atlas-SNP UHRF1BP1 54887 hgsc.bcm.edu 37 6 34789443 34789443 + Missense_Mutation SNP C C G rs369670668 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 114.0 14.0 115.0 0.0 0.122807 0 . . weak . UHRF1BP1 102 . NM_017754 exon2 c.C58G p.L20V AAGAATCTTTCCC . PASS Atlas-SNP PVRL1 5818 hgsc.bcm.edu 37 11 119549473 119549473 + Missense_Mutation SNP C C T rs200377205 bycluster TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 40.0 9.0 34.0 0.0 0.225 0 C|0.996;T|0.005 0.005 weak . PVRL1 133 . NM_002855 exon2 c.G82A p.V28I AGTGGACGCCTGG . PASS Atlas-SNP EP400 57634 hgsc.bcm.edu 37 12 132504639 132504639 + Silent SNP C C T rs147615479 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 48.0 30.0 57.0 0.0 0.625 0 C|0.994;T|0.006 0.006 strong . EP400 370 . NM_015409 exon22 c.C4323T p.T1441T TCGCACCGTGGCT . PASS Atlas-SNP STPG2 285555 hgsc.bcm.edu 37 4 98902403 98902403 + Missense_Mutation SNP T T C rs76740552 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 92.0 56.0 134.0 0.0 0.608696 0 T|0.994;C|0.006 0.006 strong . . . . NM_174952 exon6 c.A679G p.K227E AAGACTTGAGAGC . PASS Atlas-SNP GRHL2 79977 hgsc.bcm.edu 37 8 102570830 102570830 + Silent SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 119.0 33.0 101.0 0.0 0.277311 0 . . none GRHL2,right_lower_lobe,carcinoma,0,1 GRHL2 68 1 NM_024915 exon4 c.G468A p.T156T AATCACGGTGGTG . PASS Atlas-SNP TIAM2 26230 hgsc.bcm.edu 37 6 155458562 155458562 + Silent SNP C C T rs374521659 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 86.0 33.0 89.0 0.0 0.383721 0 . . weak . TIAM2 161 . NM_012454 exon4 c.C1446T p.T482T AGAAACCGCCGAG . PASS Atlas-SNP FCRL3 115352 hgsc.bcm.edu 37 1 157670258 157670258 + Missense_Mutation SNP G G C rs201961888 by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 132.0 43.0 163.0 0.0 0.325758 0 G|1.000;C|0.000 0.000 strong . FCRL3 163 . NM_052939 exon2 c.C22G p.L8V GGATCAGCAGCAG . PASS Atlas-SNP SLC16A11 162515 hgsc.bcm.edu 37 17 6946357 6946357 + Missense_Mutation SNP C C A rs75636181 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 28.0 17.0 68.0 0.0 0.607143 0 C|0.967;A|0.033 0.033 strong SLC16A11,NS,carcinoma,0,1 SLC16A11 25 1 NM_153357 exon2 c.G310T p.A104S GGCGGGCCCCCCA . PASS Atlas-SNP EPPK1 83481 hgsc.bcm.edu 37 8 144943384 144943384 + Silent SNP G G A rs189024404 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 48.0 30.0 37.0 0.0 0.625 0 G|0.988;A|0.012 0.012 strong . EPPK1 199 . NM_031308 exon1 c.C4038T p.L1346L TGGCACGAGCCCC . PASS Atlas-SNP ZBTB20 26137 hgsc.bcm.edu 37 3 114058008 114058008 + Silent SNP G G T rs139619357 bycluster;byfrequency TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 104.0 45.0 126.0 0.0 0.432692 0 G|0.999;T|0.001 0.001 strong . ZBTB20 157 . NM_001164342 exon5 c.C2070A p.T690T AGGGGGGGTCCCA . PASS Atlas-SNP TSHZ3 57616 hgsc.bcm.edu 37 19 31770506 31770506 + Missense_Mutation SNP C C T rs111618794 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 41.0 19.0 71.0 0.0 0.463415 0 C|0.998;T|0.002 0.002 strong TSHZ3_ENST00000240587,NS,carcinoma,+2,1 TSHZ3 549 1 NM_020856 exon2 c.G193A p.A65T ACTCGGCGGCCGG . PASS Atlas-SNP USHBP1 83878 hgsc.bcm.edu 37 19 17367354 17367354 + Silent SNP G G A rs141680124 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 54.0 31.0 60.0 0.0 0.574074 0 G|0.992;A|0.008 0.008 strong . USHBP1 85 . NM_031941 exon9 c.C1396T p.L466L TCCCCAGAATGGC . PASS Atlas-SNP SPOCK1 6695 hgsc.bcm.edu 37 5 136834138 136834138 + Missense_Mutation SNP T T C rs111393448 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 41.0 20.0 44.0 0.0 0.487805 0 T|0.991;C|0.009 0.009 strong . SPOCK1 58 . NM_004598 exon2 c.A110G p.N37S AGGAAATTGCCGT . PASS Atlas-SNP USP7 7874 hgsc.bcm.edu 37 16 8989511 8989511 + Silent SNP C C T rs61731196 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 84.0 38.0 94.0 0.0 0.452381 0 C|0.994;T|0.006 0.006 strong . USP7 116 . NM_003470 exon27 c.G2907A p.T969T TCGAAACGTCCGG . PASS Atlas-SNP MTERFD2 130916 hgsc.bcm.edu 37 2 242039210 242039210 + Missense_Mutation SNP G G A rs143756138 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 93.0 42.0 79.0 0.0 0.451613 0 G|0.999;A|0.001 0.001 strong . MTERFD2 33 . NM_182501 exon2 c.C121T p.R41C GTTTGCGCAACAA . PASS Atlas-SNP DNAH10 196385 hgsc.bcm.edu 37 12 124417973 124417973 + Silent SNP C C T rs56219209 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 57.0 27.0 43.0 0.0 0.473684 0 C|0.985;T|0.015 0.015 strong . DNAH10 888 . NM_207437 exon76 c.C13038T p.N4346N GAAGAACGGCTGG . PASS Atlas-SNP VPS9D1 9605 hgsc.bcm.edu 37 16 89783205 89783205 + Silent SNP G G A rs118114589 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 52.0 29.0 60.0 0.0 0.557692 0 G|0.988;A|0.012 0.012 strong . . . . NM_004913 exon3 c.C201T p.D67D GGAGGTGTCGGGG . PASS Atlas-SNP OR51E1 143503 hgsc.bcm.edu 37 11 4674343 4674343 + Missense_Mutation SNP G G A rs139501861 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 138.0 74.0 143.0 1.0 0.536232 0.00699301 G|0.996;A|0.004 0.004 strong OR51E1,caecum,carcinoma,-1,1 OR51E1 67 1 NM_152430 exon2 c.G587A p.R196Q ATATCCGGGTCAA . scavenged Atlas-SNP NPC2 10577 hgsc.bcm.edu 37 14 74951269 74951269 + Missense_Mutation SNP T T C rs142075589 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 47.0 25.0 46.0 0.0 0.531915 0 T|1.000;C|0.000 0.000 strong . NPC2 9 . NM_006432 exon3 c.A212G p.K71R ACGGCCTTGCTGC . PASS Atlas-SNP QRICH2 84074 hgsc.bcm.edu 37 17 74303550 74303550 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 97.0 4.0 129.0 0.0 0.0412371 0 . . none . QRICH2 143 . NM_032134 exon1 c.C32T p.A11V ACCCTGGCAAAGC . PASS Atlas-SNP ZNF311 282890 hgsc.bcm.edu 37 6 28963861 28963861 + Silent SNP G G C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 107.0 79.0 91.0 0.0 0.738318 0 . . none . ZNF311 59 . NM_001010877 exon7 c.C918G p.T306T ACACTGGGTGCAA . PASS Atlas-SNP EPHA1 2041 hgsc.bcm.edu 37 7 143088584 143088584 + Missense_Mutation SNP C C T rs139482378 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 104.0 52.0 121.0 0.0 0.5 0 C|0.999;T|0.001 0.001 strong EPHA1,NS,carcinoma,-1,1 EPHA1 193 1 NM_005232 exon18 c.G2897A p.R966H AGAATGCGCTTCT . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195505746 195505746 + Silent SNP T T G rs369426870 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 70.0 21.0 90.0 0.0 0.3 0 . . weak . MUC4 1505 . NM_018406 exon2 c.A12705C p.T4235T GTGACCTGTGGAT . PASS Atlas-SNP HIST1H4I 8294 hgsc.bcm.edu 37 6 27107302 27107302 + Missense_Mutation SNP C C G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 141.0 93.0 116.0 0.0 0.659574 0 . . none . HIST1H4I 26 . NM_003495 exon1 c.C215G p.T72S CCGTGACCTACAC . PASS Atlas-SNP C5orf20 140947 hgsc.bcm.edu 37 5 134782443 134782443 + Missense_Mutation SNP T T C rs113429044 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 58.0 24.0 65.0 0.0 0.413793 0 T|0.902;C|0.098 0.098 strong . C5orf20 16 . NM_130848 exon1 c.A356G p.K119R CCTGTCTTCCTTC . PASS Atlas-SNP HNF1A 6927 hgsc.bcm.edu 37 12 121435342 121435342 + Silent SNP C C T rs2259820 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 117.0 116.0 70.0 0.0 0.991453 0 C|0.718;T|0.282 0.282 strong . HNF1A 302 . NM_000545 exon7 c.C1375T p.L459L ACCACCCTGCAGC . PASS Atlas-SNP CRISPLD2 83716 hgsc.bcm.edu 37 16 84900645 84900645 + Missense_Mutation SNP G G A rs149615348 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 54.0 24.0 79.0 0.0 0.444444 0 G|0.994;A|0.006 0.006 strong . CRISPLD2 36 . NM_031476 exon7 c.G852A p.M284I CTACATGAGTGAG . PASS Atlas-SNP ATL2 64225 hgsc.bcm.edu 37 2 38537579 38537579 + Missense_Mutation SNP T T C rs34873284 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 97.0 58.0 107.0 0.0 0.597938 0 T|0.967;C|0.033 0.033 strong . ATL2 49 . NM_001135673 exon8 c.A815G p.N272S TGTTGATTTTGTT . PASS Atlas-SNP KLHDC4 54758 hgsc.bcm.edu 37 16 87782322 87782322 + Missense_Mutation SNP G G C rs3751727 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 70.0 28.0 51.0 0.0 0.4 0 G|0.974;C|0.026 0.026 strong . KLHDC4 45 . NM_001184856 exon5 c.C463G p.L155V CCCAGAGATCCTT . PASS Atlas-SNP MYH13 8735 hgsc.bcm.edu 37 17 10222310 10222310 + Missense_Mutation SNP G G A rs200861648 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 138.0 56.0 155.0 0.0 0.405797 0 G|1.000;A|0.000 0.000 strong MYH13_ENST00000252172,right_upper_lobe,carcinoma,0,2 MYH13 533 2 NM_003802 exon27 c.C3535T p.R1179C CCCTGCGCATTTT . PASS Atlas-SNP CCDC158 339965 hgsc.bcm.edu 37 4 77255210 77255210 + Silent SNP C C T rs113022439 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 140.0 140.0 138.0 0.0 1 0 C|0.984;T|0.016 0.016 strong . CCDC158 114 . NM_001042784 exon18 c.G2775A p.K925K CTCTGTCTTGCTC . PASS Atlas-SNP HMBOX1 79618 hgsc.bcm.edu 37 8 28827928 28827928 + Missense_Mutation SNP A A T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 87.0 4.0 52.0 0.0 0.045977 0 . . none . HMBOX1 34 . NM_024567 exon4 c.A392T p.K131M ATGGAAAGATGTC . PASS Atlas-SNP TFDP3 51270 hgsc.bcm.edu 37 X 132351703 132351703 + Missense_Mutation SNP C C A rs35745873 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 84.0 28.0 71.0 0.0 0.333333 0 C|0.978;A|0.022 0.022 strong . TFDP3 92 . NM_016521 exon1 c.G585T p.Q195H ACAGTTCTGAGCC . PASS Atlas-SNP KEAP1 9817 hgsc.bcm.edu 37 19 10602344 10602344 + Missense_Mutation SNP G G A rs147613351 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 98.0 43.0 115.0 0.0 0.438776 0 G|1.000;A|0.000 0.000 strong . KEAP1 182 . NM_012289 exon3 c.C1234T p.P412S TACGGGGCACGCT . PASS Atlas-SNP PRSS3 5646 hgsc.bcm.edu 37 9 33799103 33799103 + Silent SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 210.0 9.0 176.0 0.0 0.0428571 0 . . none . PRSS3 79 . NM_007343 exon5 c.G840A p.K280K CTGGAAGAACAGG . PASS Atlas-SNP ZNF469 84627 hgsc.bcm.edu 37 16 88500957 88500957 + Missense_Mutation SNP C C T rs76389306 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 74.0 35.0 74.0 0.0 0.472973 0 C|0.998;T|0.002 0.002 strong . ZNF469 121 . NM_001127464 exon2 c.C6995T p.P2332L CAGGGCCGGACTC . PASS Atlas-SNP MSGN1 343930 hgsc.bcm.edu 37 2 17998001 17998001 + Silent SNP C C T rs201149255 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 77.0 33.0 67.0 0.0 0.428571 0 C|0.999;T|0.001 0.001 strong MSGN1,NS,carcinoma,+1,1 MSGN1 39 1 NM_001105569 exon1 c.C216T p.G72G GCACGGCGGGGCC . PASS Atlas-SNP DUSP8 1850 hgsc.bcm.edu 37 11 1580173 1580173 + Silent SNP C C A rs17854342 alternate_allele TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 119.0 34.0 119.0 0.0 0.285714 0 . . alt . DUSP8 22 . NM_004420 exon4 c.G483T p.L161L GCGGGTCAGGCCC . PASS Atlas-SNP MROH1 727957 hgsc.bcm.edu 37 8 145223239 145223239 + Missense_Mutation SNP C C T rs374952645 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 36.0 9.0 31.0 0.0 0.25 0 . . weak . . . . NM_001099280 exon4 c.C64T p.P22S AAGGACCCCCTGG . PASS Atlas-SNP CLRN3 119467 hgsc.bcm.edu 37 10 129690837 129690837 + Missense_Mutation SNP G G T rs35890579 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 79.0 38.0 50.0 0.0 0.481013 0 G|0.966;T|0.034 0.034 strong . CLRN3 27 . NM_152311 exon1 c.C212A p.P71Q TTCTTTGGTTCTG . PASS Atlas-SNP PKP3 11187 hgsc.bcm.edu 37 11 403658 403658 + Missense_Mutation SNP G G C rs147657735 bycluster;byfrequency TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 28.0 17.0 26.0 0.0 0.607143 0 G|0.999;C|0.001 0.001 strong PKP3,NS,lymphoid_neoplasm,0,1 PKP3 36 1 NM_007183 exon10 c.G1964C p.R655P AGGAGCGTATTCT . PASS Atlas-SNP AVIL 10677 hgsc.bcm.edu 37 12 58204648 58204648 + Missense_Mutation SNP A A G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 132.0 6.0 91.0 0.0 0.0454545 0 . . none . AVIL 60 . NM_006576 exon5 c.T509C p.V170A ATGATGACTTTCC . PASS Atlas-SNP POLQ 10721 hgsc.bcm.edu 37 3 121251922 121251922 + Missense_Mutation SNP A A G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 237.0 66.0 228.0 0.0 0.278481 0 . . none . POLQ 273 . NM_199420 exon6 c.T875C p.L292P TCCAAAAGCGGTA . PASS Atlas-SNP MYH9 4627 hgsc.bcm.edu 37 22 36690158 36690158 + Missense_Mutation SNP C C T rs147031322 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 49.0 20.0 48.0 0.0 0.408163 0 C|1.000;T|0.000 0.000 weak MYH9,rectum,carcinoma,0,1 MYH9 225 1 NM_002473 exon28 c.G3817A p.D1273N CCTTGTCGGCCAG . PASS Atlas-SNP ZNF285 26974 hgsc.bcm.edu 37 19 44890654 44890654 + Missense_Mutation SNP C C T rs149238831 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 100.0 15.0 108.0 0.0 0.15 0 C|0.995;T|0.005 0.005 strong . ZNF285 86 . NM_152354 exon4 c.G1753A p.E585K TCTGCTCATGTAG . PASS Atlas-SNP IVL 3713 hgsc.bcm.edu 37 1 152882648 152882648 + Missense_Mutation SNP A A C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 79.0 11.0 82.0 0.0 0.139241 0 . . none . IVL 100 . NM_005547 exon2 c.A375C p.E125D GGAAGAAGAGAAG . PASS Atlas-SNP FNDC8 54752 hgsc.bcm.edu 37 17 33454198 33454198 + Missense_Mutation SNP G G T rs147725468 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 84.0 49.0 61.0 0.0 0.583333 0 G|0.999;T|0.001 0.001 strong . FNDC8 28 . NM_017559 exon2 c.G347T p.G116V TGGAGGGGGAGCT . PASS Atlas-SNP IL10RA 3587 hgsc.bcm.edu 37 11 117869878 117869878 + Missense_Mutation SNP C C T rs2229114 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 116.0 107.0 96.0 0.0 0.922414 0 C|0.969;T|0.031 0.031 strong . IL10RA 46 . NM_001558 exon7 c.C1259T p.S420L GTGGCTCGGCCTT . PASS Atlas-SNP SPTLC3 55304 hgsc.bcm.edu 37 20 13145471 13145471 + Missense_Mutation SNP G G A rs200308499 bycluster TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 94.0 28.0 89.0 0.0 0.297872 0 . . weak . SPTLC3 78 . NM_018327 exon12 c.G1616A p.R539H CAGCACGTCCTGA . PASS Atlas-SNP RICTOR 253260 hgsc.bcm.edu 37 5 38944635 38944635 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 73.0 4.0 60.0 0.0 0.0547945 0 . . none RICTOR,colon,carcinoma,0,1 RICTOR 182 1 NM_152756 exon36 c.G4826A p.R1609H AGTATACGGCACA . PASS Atlas-SNP B3GNT5 84002 hgsc.bcm.edu 37 3 182988131 182988131 + Missense_Mutation SNP A A G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 156.0 69.0 168.0 0.0 0.442308 0 . . none . B3GNT5 26 . NM_032047 exon2 c.A545G p.Y182C ATACCTATTGTCC . PASS Atlas-SNP ERBB4 2066 hgsc.bcm.edu 37 2 212251864 212251864 + Silent SNP T T C rs3748962 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 189.0 92.0 165.0 0.0 0.486772 0 T|0.756;C|0.244 0.244 strong . ERBB4 480 . NM_005235 exon27 c.A3195G p.V1065V TCGGTATACAAAC . PASS Atlas-SNP FHOD1 29109 hgsc.bcm.edu 37 16 67281172 67281172 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 11.0 6.0 16.0 0.0 0.545455 0 . . none . FHOD1 86 . NM_013241 exon1 c.G142A p.A48T GCAGCGCCCCGTC . PASS Atlas-SNP SGK1 6446 hgsc.bcm.edu 37 6 134495200 134495200 + Missense_Mutation SNP G G C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 76.0 5.0 72.0 0.0 0.0657895 0 . . none . SGK1 387 . NM_001143676 exon5 c.C456G p.I152M CTTCAAGATGGAC . PASS Atlas-SNP SNAP25 6616 hgsc.bcm.edu 37 20 10258375 10258375 + Splice_Site SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 20.0 5.0 40.0 0.0 0.25 0 . . none . SNAP25 79 . NM_130811 exon3 c.114+1G>A . GAAGAGGTAAGAA . PASS Atlas-SNP STAT3 6774 hgsc.bcm.edu 37 17 40475330 40475330 + Missense_Mutation SNP C C A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 102.0 33.0 87.0 0.0 0.323529 0 . . none STAT3,NS,lymphoid_neoplasm,0,1 STAT3 268 1 NM_003150 exon19 c.G1696T p.D566Y TATTGTCCAGCCA . PASS Atlas-SNP MRPL45 84311 hgsc.bcm.edu 37 17 36453167 36453167 + Silent SNP T T C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 67.0 20.0 51.0 0.0 0.298507 0 . . none . MRPL45 27 . NM_032351 exon1 c.T18C p.P6P CATACCTCAAGGG . PASS Atlas-SNP HSP90AA1 3320 hgsc.bcm.edu 37 14 102552201 102552201 + Silent SNP A A G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 155.0 40.0 136.0 0.0 0.258065 0 . . none . HSP90AA1 65 . NM_001017963 exon4 c.T789C p.A263A CAAATAAGCAGAA . PASS Atlas-SNP PTPRD 5789 hgsc.bcm.edu 37 9 8449782 8449782 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 189.0 57.0 228.0 0.0 0.301587 0 . . none . PTPRD 1348 . NM_002839 exon34 c.C3931T p.P1311S GTGAAGGGATCTC . PASS Atlas-SNP TAS1R2 80834 hgsc.bcm.edu 37 1 19175944 19175944 + Nonsense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 92.0 4.0 86.0 0.0 0.0434783 0 . . none . TAS1R2 134 . NM_152232 exon4 c.G1358A p.W453X CATTGCCACTGGA . PASS Atlas-SNP OR2W5 441932 hgsc.bcm.edu 37 1 247655102 247655102 + Missense_Mutation SNP G G A rs143904230 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 94.0 60.0 76.0 0.0 0.638298 0 G|0.989;A|0.011 0.011 strong . OR2W5 97 . NM_001004698 exon1 c.G673A p.G225S AGCCGCGGTGCTG . PASS Atlas-SNP NOS1 4842 hgsc.bcm.edu 37 12 117672544 117672544 + Missense_Mutation SNP G G A rs375069851 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 68.0 26.0 72.0 0.0 0.382353 0 . . weak NOS1,caecum,carcinoma,0,2 NOS1 240 2 NM_001204218 exon22 c.C3163T p.R1055C GGAGACGCACGAA . PASS Atlas-SNP BST1 683 hgsc.bcm.edu 37 4 15720553 15720553 + Missense_Mutation SNP T T C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 79.0 38.0 82.0 0.0 0.481013 0 . . none . BST1 30 . NM_004334 exon7 c.T728C p.M243T GCAGCATGAAAGT . PASS Atlas-SNP PAIP2B 400961 hgsc.bcm.edu 37 2 71415619 71415619 + Missense_Mutation SNP T T C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 80.0 54.0 143.0 0.0 0.675 0 . . none . PAIP2B 7 . NM_020459 exon4 c.A362G p.E121G TACTTCTCTCCTG . PASS Atlas-SNP OR4K17 390436 hgsc.bcm.edu 37 14 20585769 20585769 + Silent SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 205.0 95.0 267.0 0.0 0.463415 0 . . none . OR4K17 58 . NM_001004715 exon1 c.C204T p.V68V TGTGGTCACAGTT . PASS Atlas-SNP MRGPRG 386746 hgsc.bcm.edu 37 11 3239366 3239366 + Silent SNP G G A rs145777944 by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 87.0 49.0 93.0 0.0 0.563218 0 G|1.000;A|0.000 0.000 strong . MRGPRG 6 . NM_001164377 exon1 c.C678T p.F226F CAGCAGGAAGTTC . PASS Atlas-SNP PIM1 5292 hgsc.bcm.edu 37 6 37138946 37138946 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 55.0 8.0 53.0 0.0 0.145455 0 . . none . PIM1 71 . NM_001243186 exon4 c.G559A p.V187M AAGAAGGTGAGCT . PASS Atlas-SNP HIST1H2AE 3012 hgsc.bcm.edu 37 6 26217245 26217245 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 81.0 25.0 89.0 0.0 0.308642 0 . . none . HIST1H2AE 25 . NM_021052 exon1 c.G43A p.A15T GCAAAAGCTAAAA . PASS Atlas-SNP CACNA1F 778 hgsc.bcm.edu 37 X 49081230 49081230 + Missense_Mutation SNP C C T rs141010716 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 69.0 47.0 55.0 0.0 0.681159 0 C|0.997;T|0.003 0.003 strong . CACNA1F 218 . NM_005183 exon14 c.G1903A p.V635I TGGTGACCTTAAA . PASS Atlas-SNP GRIK4 2900 hgsc.bcm.edu 37 11 120531044 120531044 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 51.0 20.0 34.0 0.0 0.392157 0 . . none GRIK4,colon,NS,0,1 GRIK4 149 1 NM_014619 exon1 c.C17T p.A6V TCTCGGCGCCTTT . PASS Atlas-SNP C1orf127 148345 hgsc.bcm.edu 37 1 11009703 11009703 + Missense_Mutation SNP C C T rs1281012 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 54.0 29.0 61.0 0.0 0.537037 0 C|0.907;T|0.093 0.093 strong . C1orf127 134 . NM_001170754 exon11 c.G1268A p.R423Q GAAGGCCGGTGCA . PASS Atlas-SNP EPS8 2059 hgsc.bcm.edu 37 12 15776095 15776095 + Silent SNP C C T rs1126786 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 129.0 63.0 119.0 0.0 0.488372 0 T|0.130;G|0.153;C|0.674;A|0.042 0.130 strong . EPS8 70 . NM_004447 exon20 c.G2352A p.L784L TACCTCCAATGCA . PASS Atlas-SNP SLFN5 162394 hgsc.bcm.edu 37 17 33592323 33592323 + Missense_Mutation SNP C C G rs113644060 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 140.0 64.0 127.0 0.0 0.457143 0 C|0.975;G|0.025 0.025 strong . SLFN5 92 . NM_144975 exon5 c.C2092G p.P698A CTCCCCCCTCCCT . PASS Atlas-SNP CD27 939 hgsc.bcm.edu 37 12 6554263 6554263 + Missense_Mutation SNP T T C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 25.0 9.0 37.0 0.0 0.36 0 . . none . CD27 17 . NM_001242 exon1 c.T2C p.M1T GGACCATGGCACG . PASS Atlas-SNP CLCNKA 1187 hgsc.bcm.edu 37 1 16355287 16355287 + Missense_Mutation SNP C C G rs45588635 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 61.0 60.0 79.0 0.0 0.983607 0 C|0.981;G|0.019 0.019 strong . CLCNKA 56 . NM_004070 exon11 c.C1000G p.L334V ACCTTGCTTCTCG . PASS Atlas-SNP COL6A5 256076 hgsc.bcm.edu 37 3 130104153 130104153 + Missense_Mutation SNP G G A rs149308947 by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 56.0 23.0 75.0 0.0 0.410714 0 G|1.000;A|0.000 0.000 strong . COL6A5 205 . NM_153264 exon5 c.G1807A p.D603N AACTTTGATGCTT . PASS Atlas-SNP GPC6 10082 hgsc.bcm.edu 37 13 94482567 94482567 + Missense_Mutation SNP G G A rs369251626 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 127.0 77.0 94.0 0.0 0.606299 0 . . weak . GPC6 102 . NM_005708 exon3 c.G480A p.M160I GGAAATGCTCAAT . PASS Atlas-SNP CSF1R 1436 hgsc.bcm.edu 37 5 149460355 149460355 + Silent SNP G G A rs41287102 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 151.0 70.0 149.0 0.0 0.463576 0 G|0.994;A|0.006 0.006 strong . CSF1R 250 . NM_005211 exon3 c.C282T p.S94S GGCGGCGCTGCCT . PASS Atlas-SNP ZNF341 84905 hgsc.bcm.edu 37 20 32376748 32376748 + Silent SNP C C T rs34260449 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 142.0 75.0 180.0 0.0 0.528169 0 C|0.985;T|0.015 0.015 strong . ZNF341 73 . NM_032819 exon13 c.C1911T p.H637H GATCCACGAGCCC . PASS Atlas-SNP CDCA4 55038 hgsc.bcm.edu 37 14 105478159 105478159 + Silent SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 80.0 33.0 57.0 0.0 0.4125 0 . . none . CDCA4 18 . NM_017955 exon2 c.G108A p.S36S CAGGAGCGACTGC . PASS Atlas-SNP PSME4 23198 hgsc.bcm.edu 37 2 54161756 54161756 + Missense_Mutation SNP T T C rs146618010 bycluster TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 53.0 22.0 65.0 0.0 0.415094 0 T|1.000;C|0.000 0.000 weak . PSME4 247 . NM_014614 exon8 c.A943G p.I315V CGGTGATCCATAT . PASS Atlas-SNP PLXNB3 5365 hgsc.bcm.edu 37 X 153043896 153043896 + Silent SNP G G A rs144872102 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 76.0 47.0 62.0 0.0 0.618421 0 G|0.999;A|0.001 0.001 strong . PLXNB3 208 . NM_001163257 exon35 c.G5589A p.E1863E CCAGGAGATGAAC . PASS Atlas-SNP WDR72 256764 hgsc.bcm.edu 37 15 54007512 54007512 + Missense_Mutation SNP C C A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 223.0 64.0 223.0 0.0 0.286996 0 . . none . WDR72 177 . NM_182758 exon5 c.G392T p.G131V TATTCTCCACAAC . PASS Atlas-SNP ARID4A 5926 hgsc.bcm.edu 37 14 58831258 58831258 + Silent SNP A A C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 85.0 16.0 87.0 0.0 0.188235 0 . . none . ARID4A 222 . NM_002892 exon20 c.A2451C p.A817A TGAAGCAGGAAGT . PASS Atlas-SNP CHML 1122 hgsc.bcm.edu 37 1 241797585 241797585 + Missense_Mutation SNP C C G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 90.0 47.0 86.0 0.0 0.522222 0 . . none . CHML 82 . NM_001821 exon1 c.G1484C p.C495S GAAGAACATAATT . PASS Atlas-SNP ATRNL1 26033 hgsc.bcm.edu 37 10 117061434 117061434 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 107.0 24.0 97.0 0.0 0.224299 0 . . none . ATRNL1 219 . NM_207303 exon17 c.C2699T p.T900I ACTGTACAAGCAA . PASS Atlas-SNP WHSC1 7468 hgsc.bcm.edu 37 4 1957774 1957774 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 93.0 4.0 109.0 0.0 0.0430108 0 . . none . WHSC1 180 . NM_133335 exon15 c.G2740A p.E914K AAGCACGAGATTG . PASS Atlas-SNP ZNRF3 84133 hgsc.bcm.edu 37 22 29445817 29445817 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 86.0 27.0 110.0 0.0 0.313953 0 . . none . ZNRF3 75 . NM_001206998 exon8 c.G1648A p.D550N GGCAGCGACAGCA . PASS Atlas-SNP DST 667 hgsc.bcm.edu 37 6 56505175 56505175 + Silent SNP T T A rs113432929 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 132.0 70.0 136.0 0.0 0.530303 0 T|0.997;A|0.003 0.003 strong . DST 1427 . NM_001723 exon4 c.A645T p.S215S CATCCCTGATGAC . PASS Atlas-SNP ZNF81 347344 hgsc.bcm.edu 37 X 47774599 47774599 + Missense_Mutation SNP C C T rs186251256 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 279.0 197.0 198.0 0.0 0.706093 0 C|0.992;T|0.008 0.008 strong . ZNF81 60 . NM_007137 exon5 c.C554T p.S185L TTCTTTCACAGAA . PASS Atlas-SNP RANBP6 26953 hgsc.bcm.edu 37 9 6012347 6012347 + Silent SNP T T A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 79.0 29.0 81.0 0.0 0.367089 0 . . none . RANBP6 127 . NM_012416 exon1 c.A3261T p.V1087V TTGTGATACACAT . PASS Atlas-SNP PCDHGA4 56111 hgsc.bcm.edu 37 5 140735361 140735361 + Silent SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 72.0 31.0 80.0 0.0 0.430556 0 . . none . PCDHGA4 150 . NM_018917 exon1 c.C594T p.R198R GGAACGCGCTCTA . PASS Atlas-SNP CXCL14 9547 hgsc.bcm.edu 37 5 134914455 134914455 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 23.0 7.0 52.0 0.0 0.304348 0 . . none . CXCL14 13 . NM_004887 exon1 c.C50T p.A17V GCGGCCGCCAGGA . PASS Atlas-SNP C6orf118 168090 hgsc.bcm.edu 37 6 165715405 165715405 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 29.0 9.0 28.0 0.0 0.310345 0 . . none . C6orf118 116 . NM_144980 exon2 c.G406A p.A136T GAGAGGCCTGGGG . PASS Atlas-SNP MGA 23269 hgsc.bcm.edu 37 15 41988709 41988709 + Missense_Mutation SNP A A G rs199666635 bycluster TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 40.0 28.0 63.0 0.0 0.7 0 . . weak . MGA 264 . NM_001080541 exon3 c.A1501G p.M501V TCTTCTATGTTGG . PASS Atlas-SNP CIITA 4261 hgsc.bcm.edu 37 16 11001256 11001256 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 105.0 41.0 121.0 0.0 0.390476 0 . . none . CIITA 92 . NM_000246 exon11 c.C1907T p.T636M CCTCCACGCTCAC . PASS Atlas-SNP DNAH8 1769 hgsc.bcm.edu 37 6 38690860 38690860 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 107.0 30.0 90.0 0.0 0.280374 0 . . none . DNAH8 1239 . NM_001206927 exon2 c.C275T p.P92L CGCGACCGGTTCA . PASS Atlas-SNP CAND1 55832 hgsc.bcm.edu 37 12 67699536 67699536 + Silent SNP G G A rs17781675 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 56.0 22.0 58.0 0.0 0.392857 0 G|0.959;A|0.041 0.041 strong . CAND1 100 . NM_018448 exon10 c.G2088A p.E696E AGATGAGCTCCCA . PASS Atlas-SNP FMR1 2332 hgsc.bcm.edu 37 X 146993715 146993715 + Silent SNP G G T rs111485627 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 123.0 27.0 89.0 0.0 0.219512 0 C|0.000;G|0.987;T|0.013 0.013 strong . FMR1 93 . NM_002024 exon1 c.G18T p.V6V GGTGGTGGAAGTG . PASS Atlas-SNP EP400 57634 hgsc.bcm.edu 37 12 132528724 132528724 + Silent SNP C C T rs61944617 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 74.0 43.0 70.0 0.0 0.581081 0 C|0.996;T|0.004 0.004 strong . EP400 370 . NM_015409 exon35 c.C6453T p.D2151D TCAGGACGCAGTG . PASS Atlas-SNP TCF12 6938 hgsc.bcm.edu 37 15 57565432 57565432 + Silent SNP C C T rs77034126 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 121.0 61.0 127.0 0.0 0.504132 0 C|0.996;T|0.004 0.004 strong . TCF12 242 . NM_207036 exon19 c.C1950T p.V650V GGCAGTCATCCTT . PASS Atlas-SNP SLCO1B1 10599 hgsc.bcm.edu 37 12 21358837 21358837 + Missense_Mutation SNP T T G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 94.0 22.0 91.0 0.0 0.234043 0 . . none SLCO1B1,right_lower_lobe,carcinoma,+1,1 SLCO1B1 151 1 NM_006446 exon11 c.T1367G p.L456R TACCACTTTCTTA . PASS Atlas-SNP RP1 6101 hgsc.bcm.edu 37 8 55538741 55538741 + Missense_Mutation SNP A A G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 44.0 17.0 53.0 0.0 0.386364 0 . . none . RP1 429 . NM_006269 exon4 c.A2299G p.N767D ACTCAAAATTCCA . PASS Atlas-SNP ESRRB 2103 hgsc.bcm.edu 37 14 76966275 76966275 + Missense_Mutation SNP T T C rs188462546 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 91.0 50.0 97.0 0.0 0.549451 0 T|0.994;C|0.006 0.006 strong . ESRRB 114 . NM_004452 exon10 c.T1366C p.F456L TGCCCCTTCCAAT . PASS Atlas-SNP TIGD1 200765 hgsc.bcm.edu 37 2 233413842 233413842 + Missense_Mutation SNP T T C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 20.0 9.0 17.0 0.0 0.45 0 . . none . TIGD1 17 . NM_145702 exon1 c.A751G p.T251A ATTTAGTATAATT . PASS Atlas-SNP ALAD 210 hgsc.bcm.edu 37 9 116152915 116152915 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 29.0 16.0 40.0 0.0 0.551724 0 . . none . ALAD 36 . NM_000031 exon6 c.C439T p.R147C GCTGGCGGCTCTC . PASS Atlas-SNP COL1A1 1277 hgsc.bcm.edu 37 17 48269167 48269167 + Silent SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 38.0 3.0 29.0 0.0 0.0789474 0 . . none COL1A1,NS,carcinoma,-2,2 COL1A1 158 2 NM_000088 exon31 c.C2109T p.P703P GTTGCCGGGAGCA . scavenged Atlas-SNP DYNC1H1 1778 hgsc.bcm.edu 37 14 102482399 102482399 + Silent SNP C C T rs17541158 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 47.0 23.0 36.0 0.0 0.489362 0 C|0.972;T|0.028 0.028 strong . DYNC1H1 395 . NM_001376 exon36 c.C7449T p.I2483I GCAGATCGAGCAG . PASS Atlas-SNP GNB2 2783 hgsc.bcm.edu 37 7 100273936 100273936 + Silent SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 98.0 10.0 109.0 0.0 0.102041 0 . . none . GNB2 29 . NM_005273 exon2 c.C48T p.N16N CCGGAACCAGATC . PASS Atlas-SNP FAM65B 9750 hgsc.bcm.edu 37 6 24843183 24843183 + Silent SNP A A G rs145837095 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 87.0 68.0 72.0 0.0 0.781609 0 A|0.998;G|0.002 0.002 strong FAM65B_ENST00000259698,NS,carcinoma,-1,2 FAM65B 134 2 NM_014722 exon14 c.T1827C p.N609N AAGCCCATTAAAA . PASS Atlas-SNP GEMIN2 8487 hgsc.bcm.edu 37 14 39587220 39587220 + Silent SNP C C A rs150986614 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 51.0 21.0 40.0 0.0 0.411765 0 C|0.997;A|0.003 0.003 strong . . . . NM_003616 exon3 c.C273A p.P91P CCAACCCGCCCCT . PASS Atlas-SNP LARGE 9215 hgsc.bcm.edu 37 22 34000460 34000460 + Silent SNP G G A rs36002910 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 104.0 67.0 86.0 0.0 0.644231 0 G|0.979;A|0.021 0.021 strong . LARGE 98 . NM_004737 exon6 c.C576T p.P192P CACAGCGGGCACC . PASS Atlas-SNP FAM129B 64855 hgsc.bcm.edu 37 9 130270782 130270782 + Silent SNP G G A rs11545937 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 41.0 17.0 47.0 0.0 0.414634 0 G|0.957;C|0.000;A|0.043 0.043 strong . FAM129B 84 . NM_022833 exon11 c.C1353T p.L451L GTGCAGGAGGGTC . PASS Atlas-SNP LMOD3 56203 hgsc.bcm.edu 37 3 69168747 69168747 + Silent SNP A A G rs115972674 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 57.0 31.0 72.0 0.0 0.54386 0 A|0.979;G|0.021 0.021 strong . LMOD3 92 . NM_198271 exon2 c.T759C p.P253P CATGTCAGGATCA . PASS Atlas-SNP OR2T27 403239 hgsc.bcm.edu 37 1 248813470 248813470 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 91.0 27.0 84.0 0.0 0.296703 0 . . none . OR2T27 52 . NM_001001824 exon1 c.C716T p.A239V CAGGTGGCCACAG . PASS Atlas-SNP OR4E2 26686 hgsc.bcm.edu 37 14 22133692 22133692 + Nonsense_Mutation SNP C C A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 196.0 95.0 210.0 0.0 0.484694 0 . . none . OR4E2 44 . NM_001001912 exon1 c.C396A p.Y132X CCACTACCCCAAT . PASS Atlas-SNP CCDC85A 114800 hgsc.bcm.edu 37 2 56603044 56603044 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 189.0 45.0 177.0 0.0 0.238095 0 . . none . CCDC85A 70 . NM_001080433 exon5 c.C1546T p.P516S CAGCAGCCTGAAC . PASS Atlas-SNP ECSIT 51295 hgsc.bcm.edu 37 19 11617020 11617020 + Silent SNP T T G rs34645543 bycluster;byfrequency TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 44.0 26.0 32.0 0.0 0.590909 0 T|0.999;G|0.001 0.001 strong . ECSIT 32 . NM_016581 exon8 c.A1275C p.R425R CTGCTGTCGCTGC . PASS Atlas-SNP TMOD1 7111 hgsc.bcm.edu 37 9 100331188 100331188 + Missense_Mutation SNP A A T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 97.0 50.0 102.0 0.0 0.515464 0 . . none . TMOD1 29 . NM_001166116 exon8 c.A739T p.M247L GCTGAGATGCTCA . PASS Atlas-SNP ZNF597 146434 hgsc.bcm.edu 37 16 3486738 3486738 + Missense_Mutation SNP C C A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 38.0 9.0 43.0 0.0 0.236842 0 . . none . ZNF597 41 . NM_152457 exon4 c.G961T p.D321Y CAGAGTCCTCGTC . PASS Atlas-SNP SPATA31D4 389761 hgsc.bcm.edu 37 9 84547771 84547771 + Missense_Mutation SNP A A C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 109.0 45.0 119.0 0.0 0.412844 0 . . none . . . . NM_001145197 exon4 c.A2695C p.M899L CAAAAGATGTTGG . PASS Atlas-SNP PTPRZ1 5803 hgsc.bcm.edu 37 7 121659234 121659234 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 173.0 9.0 172.0 0.0 0.0520231 0 . . none . PTPRZ1 605 . NM_002851 exon13 c.G4900A p.E1634K GAATCCGAGAAGA . PASS Atlas-SNP WFIKKN1 117166 hgsc.bcm.edu 37 16 683547 683547 + Silent SNP G G A rs148648187 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 7.0 5.0 13.0 0.0 0.714286 0 G|0.994;A|0.006 0.006 strong . WFIKKN1 30 . NM_053284 exon2 c.G1137A p.P379P CAGCCCGCTGCTG . PASS Atlas-SNP OR2J3 442186 hgsc.bcm.edu 37 6 29080267 29080267 + Silent SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 295.0 17.0 318.0 0.0 0.0576271 0 . . none . OR2J3 53 . NM_001005216 exon1 c.G600A p.L200L TGAGCTGACCCTC . PASS Atlas-SNP OR9G9 504191 hgsc.bcm.edu 37 11 56468431 56468431 + Missense_Mutation SNP G G A rs141836537 bycluster TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 143.0 22.0 167.0 0.0 0.153846 0 G|1.000;A|0.000 0.000 weak . . . . NM_001013358 exon1 c.G568A p.E190K TGTGGCGAGAAGG . PASS Atlas-SNP GPRC5C 55890 hgsc.bcm.edu 37 17 72436078 72436078 + Missense_Mutation SNP G G A rs148895616 bycluster;byfrequency TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 29.0 15.0 40.0 0.0 0.517241 0 G|0.999;A|0.001 0.001 strong . GPRC5C 92 . NM_022036 exon2 c.G298A p.A100T CTGGAGGCCGTGG . PASS Atlas-SNP HCFC1 3054 hgsc.bcm.edu 37 X 153227753 153227753 + Silent SNP G G C rs372516617 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 48.0 10.0 26.0 0.0 0.208333 0 . . weak . HCFC1 284 . NM_005334 exon5 c.C717G p.T239T CGTCAGGGTGTCT . PASS Atlas-SNP TRERF1 55809 hgsc.bcm.edu 37 6 42236973 42236973 + Missense_Mutation SNP C C T rs61756353 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 90.0 19.0 59.0 0.0 0.211111 0 C|0.997;T|0.003 0.003 strong . TRERF1 124 . NM_033502 exon5 c.G356A p.G119D TGGTAGCCATCAG . PASS Atlas-SNP FAM102A 399665 hgsc.bcm.edu 37 9 130742413 130742413 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 66.0 15.0 65.0 0.0 0.227273 0 . . none . FAM102A 32 . NM_001035254 exon1 c.G4A p.A2T AGAAAGCCATGAG . PASS Atlas-SNP CNGB1 1258 hgsc.bcm.edu 37 16 58001086 58001086 + Silent SNP C C T rs61997250 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 46.0 20.0 56.0 0.0 0.434783 0 C|0.981;T|0.019 0.019 strong . CNGB1 105 . NM_001297 exon2 c.G105A p.A35A CACCTCCGCCTCC . PASS Atlas-SNP S100A7 6278 hgsc.bcm.edu 37 1 153431435 153431435 + Missense_Mutation SNP T T G rs72708760 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 160.0 77.0 177.0 0.0 0.48125 0 T|0.997;G|0.003 0.003 strong . S100A7 23 . NM_002963 exon2 c.A55C p.K19Q TGTATTTGTGAAA . PASS Atlas-SNP C1orf101 257044 hgsc.bcm.edu 37 1 244715882 244715882 + Silent SNP A A G rs34510134 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 194.0 86.0 227.0 0.0 0.443299 0 A|0.933;G|0.067 0.067 strong . C1orf101 158 . NM_173807 exon9 c.A795G p.S265S TGATTCATTCAAA . PASS Atlas-SNP NEK5 341676 hgsc.bcm.edu 37 13 52661569 52661569 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 126.0 65.0 82.0 0.0 0.515873 0 . . none . NEK5 189 . NM_199289 exon15 c.G1297A p.E433K TTGGCTCGGCAGA . PASS Atlas-SNP SFSWAP 6433 hgsc.bcm.edu 37 12 132239988 132239988 + Silent SNP G G A rs139034136 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 28.0 10.0 33.0 0.0 0.357143 0 G|0.999;A|0.001 0.001 strong . SFSWAP 69 . NM_001261411 exon10 c.G1512A p.Q504Q GAAGCAGTTCTTC . PASS Atlas-SNP ALS2CR8 79800 hgsc.bcm.edu 37 2 203847044 203847044 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 170.0 52.0 139.0 0.0 0.305882 0 . . none . ALS2CR8 56 . NM_024744 exon16 c.G1939A p.E647K ATGGACGAGCTGG . PASS Atlas-SNP ENPP2 5168 hgsc.bcm.edu 37 8 120569870 120569870 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 106.0 5.0 108.0 0.0 0.0471698 0 . . none . ENPP2 254 . NM_006209 exon26 c.G2639A p.R880H ATGTCACGCACCC . PASS Atlas-SNP ZNF652 22834 hgsc.bcm.edu 37 17 47394825 47394825 + Missense_Mutation SNP G G C rs181916483 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 211.0 108.0 226.0 1.0 0.511848 0.00442478 G|0.998;C|0.002 0.002 strong ZNF652,NS,haematopoietic_neoplasm,0,3 ZNF652 54 3 NM_001145365 exon2 c.C263G p.S88C ACGTCAGACACTG . PASS Atlas-SNP INTS6 26512 hgsc.bcm.edu 37 13 51950198 51950198 + Missense_Mutation SNP T T C rs144918317 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 87.0 26.0 67.0 0.0 0.298851 0 T|0.999;C|0.001 0.001 strong . INTS6 72 . NM_012141 exon13 c.A1715G p.K572R TGTCCTTTCAGAA . PASS Atlas-SNP ABCA7 10347 hgsc.bcm.edu 37 19 1056183 1056183 + Missense_Mutation SNP C C T rs144562001 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 39.0 20.0 36.0 0.0 0.512821 0 C|0.999;G|0.000;T|0.000 0.000 strong . ABCA7 174 . NM_019112 exon32 c.C4357T p.R1453C CTCGACCGTGTCC . PASS Atlas-SNP RIN2 54453 hgsc.bcm.edu 37 20 19955473 19955473 + Silent SNP C C T rs41306763 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 105.0 53.0 61.0 0.0 0.504762 0 C|0.990;T|0.010 0.010 strong . RIN2 126 . NM_001242581 exon8 c.C951T p.A317A CGGGGCCCTGTGC . PASS Atlas-SNP GALNT8 26290 hgsc.bcm.edu 37 12 4835923 4835923 + Missense_Mutation SNP A A C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 52.0 14.0 53.0 0.0 0.269231 0 . . none . GALNT8 89 . NM_017417 exon2 c.A437C p.K146T TCCGGAAGTTTGG . PASS Atlas-SNP SCAF11 9169 hgsc.bcm.edu 37 12 46320944 46320944 + Missense_Mutation SNP C C T rs28930670 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 147.0 72.0 155.0 0.0 0.489796 0 C|0.978;T|0.022 0.022 strong . SCAF11 145 . NM_004719 exon11 c.G2540A p.R847H TGAGAACGGGATT . PASS Atlas-SNP SLC9A8 23315 hgsc.bcm.edu 37 20 48503306 48503306 + Silent SNP G G A rs73125686 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 105.0 55.0 64.0 0.0 0.52381 0 G|0.996;A|0.004 0.004 strong . SLC9A8 63 . NM_001260491 exon15 c.G1557A p.S519S GGAGTCGGAGCAC . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195512439 195512439 + Silent SNP G G A rs112365404 bycluster;byfrequency TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 148.0 34.0 125.0 0.0 0.22973 0 G|0.990;A|0.010 0.010 strong . MUC4 1505 . NM_018406 exon2 c.C6012T p.T2004T AGTGTCGGTGACC . PASS Atlas-SNP HIRA 7290 hgsc.bcm.edu 37 22 19385570 19385570 + Silent SNP T T C rs373432911 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 86.0 49.0 77.0 0.0 0.569767 0 . . weak . HIRA 100 . NM_003325 exon6 c.A438G p.L146L TGAGGCTAGCCAG . PASS Atlas-SNP PCDH10 57575 hgsc.bcm.edu 37 4 134072185 134072185 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 39.0 9.0 48.0 0.0 0.230769 0 . . none . PCDH10 290 . NM_032961 exon1 c.C890T p.A297V CCCGGGCGCGGGA . PASS Atlas-SNP SPATA31D1 389763 hgsc.bcm.edu 37 9 84605777 84605777 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 170.0 84.0 152.0 0.0 0.494118 0 . . none . . . . NM_001001670 exon4 c.G392A p.R131Q TCTGTCGGGTGTG . PASS Atlas-SNP CCDC178 374864 hgsc.bcm.edu 37 18 30825388 30825388 + Missense_Mutation SNP G G A rs146565345 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 54.0 22.0 52.0 0.0 0.407407 0 G|0.998;A|0.002 0.002 strong C18orf34_ENST00000383096,NS,carcinoma,0,2 . . 2 NM_001105528 exon14 c.C1414T p.R472W TTTTCCGTATGCT . PASS Atlas-SNP CCAR1 55749 hgsc.bcm.edu 37 10 70513614 70513614 + Missense_Mutation SNP G G T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 109.0 55.0 122.0 0.0 0.504587 0 . . none . CCAR1 118 . NM_018237 exon11 c.G1124T p.S375I GTCCCAGTTGTGA . PASS Atlas-SNP LRRIQ3 127255 hgsc.bcm.edu 37 1 74648375 74648375 + Silent SNP A A G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 83.0 26.0 68.0 0.0 0.313253 0 . . none . LRRIQ3 146 . NM_001105659 exon3 c.T420C p.Y140Y ATGTCTATATCCT . PASS Atlas-SNP ABHD5 51099 hgsc.bcm.edu 37 3 43743773 43743773 + Missense_Mutation SNP A A C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 63.0 20.0 81.0 0.0 0.31746 0 . . none ABHD5,NS,carcinoma,-1,1 ABHD5 33 1 NM_016006 exon3 c.A200C p.K67T CACTGAAGTTCTC . PASS Atlas-SNP URB1 9875 hgsc.bcm.edu 37 21 33726303 33726303 + Silent SNP C C T rs200555493 bycluster TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 141.0 63.0 95.0 0.0 0.446809 0 C|0.998;T|0.002 0.002 weak . URB1 176 . NM_014825 exon18 c.G2355A p.A785A GACTACCGCACTG . PASS Atlas-SNP ALDH7A1 501 hgsc.bcm.edu 37 5 125928395 125928395 + Silent SNP A A G rs60720055 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 96.0 51.0 106.0 0.0 0.53125 0 A|0.941;G|0.059 0.059 strong . ALDH7A1 57 . NM_001202404 exon3 c.T354C p.T118T CTTTACAGTTTCT . PASS Atlas-SNP ZPLD1 131368 hgsc.bcm.edu 37 3 102171858 102171858 + Missense_Mutation SNP C C A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 118.0 44.0 143.0 0.0 0.372881 0 . . none . ZPLD1 82 . NM_175056 exon3 c.C250A p.L84M ACAGATCTGGCAC . PASS Atlas-SNP FOXA2 3170 hgsc.bcm.edu 37 20 22563684 22563684 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 68.0 27.0 83.0 0.0 0.397059 0 . . none . FOXA2 48 . NM_021784 exon2 c.G196A p.A66T AGCCCGCGCTCAT . PASS Atlas-SNP CALHM3 119395 hgsc.bcm.edu 37 10 105233301 105233301 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 54.0 28.0 88.0 0.0 0.518519 0 . . none . CALHM3 46 . NM_001129742 exon3 c.C704T p.A235V TCCCGCGCATGCT . PASS Atlas-SNP KIAA0226 9711 hgsc.bcm.edu 37 3 197427584 197427584 + Silent SNP G G A rs368476866 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 132.0 63.0 97.0 0.0 0.477273 0 . . weak . KIAA0226 136 . NM_014687 exon7 c.C1161T p.S387S GAAGCTGGACCTG . PASS Atlas-SNP ATAD3C 219293 hgsc.bcm.edu 37 1 1403848 1403848 + Missense_Mutation SNP C C G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 172.0 80.0 196.0 0.0 0.465116 0 . . none . ATAD3C 23 . NM_001039211 exon12 c.C1174G p.Q392E CACCAGCAGATGA . PASS Atlas-SNP CDK5R2 8941 hgsc.bcm.edu 37 2 219824731 219824731 + Silent SNP G G C rs78141300 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 22.0 12.0 26.0 0.0 0.545455 0 G|0.972;C|0.028 0.028 strong . CDK5R2 17 . NM_003936 exon1 c.G189C p.A63A CTCGGCGCTCACC . PASS Atlas-SNP MCM6 4175 hgsc.bcm.edu 37 2 136602196 136602196 + Silent SNP G G A rs4988270 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 54.0 10.0 48.0 0.0 0.185185 0 G|0.997;A|0.003 0.003 strong . MCM6 64 . NM_005915 exon16 c.C2268T p.I756I TGATTCGATTTCC . PASS Atlas-SNP TXNDC11 51061 hgsc.bcm.edu 37 16 11785486 11785486 + Silent SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 62.0 33.0 46.0 0.0 0.532258 0 . . none . TXNDC11 75 . NM_015914 exon8 c.C1560T p.I520I AGAGTCGATGAAG . PASS Atlas-SNP PRRT3 285368 hgsc.bcm.edu 37 3 9989028 9989028 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 17.0 5.0 6.0 0.0 0.294118 0 . . none . PRRT3 35 . NM_207351 exon4 c.C1829T p.A610V ACGGCCGCGCCCC . PASS Atlas-SNP TRAK1 22906 hgsc.bcm.edu 37 3 42251321 42251321 + Missense_Mutation SNP C C T rs375255978 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 60.0 24.0 55.0 0.0 0.4 0 . . weak . TRAK1 188 . NM_001265608 exon14 c.C1807T p.P603S CTGGACCCCCGGC . PASS Atlas-SNP ADAMTS13 11093 hgsc.bcm.edu 37 9 136320665 136320665 + Missense_Mutation SNP T T C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 35.0 19.0 47.0 0.0 0.542857 0 . . none . ADAMTS13 113 . NM_139025 exon25 c.T3508C p.S1170P CTCTTCTCCCCGG . PASS Atlas-SNP DAGLA 747 hgsc.bcm.edu 37 11 61511794 61511794 + Missense_Mutation SNP C C G rs117050893 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 50.0 21.0 54.0 0.0 0.42 0 C|0.994;G|0.006 0.006 strong . DAGLA 109 . NM_006133 exon20 c.C2962G p.L988V ATCTCACTCTCGC . PASS Atlas-SNP UBOX5 22888 hgsc.bcm.edu 37 20 3102636 3102636 + Missense_Mutation SNP G G C rs148731933 bycluster;byfrequency TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 54.0 27.0 49.0 0.0 0.5 0 G|1.000;C|0.000 0.000 strong UBOX5,NS,carcinoma,+2,1 UBOX5 47 1 NM_014948 exon3 c.C649G p.L217V GAGGCAGGTTCTC . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195506159 195506159 + Missense_Mutation SNP G G C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 26.0 19.0 80.0 0.0 0.730769 0 . . none . MUC4 1505 . NM_018406 exon2 c.C12292G p.P4098A TGAGAGGAAGAGG . PASS Atlas-SNP NLRP12 91662 hgsc.bcm.edu 37 19 54313944 54313944 + Missense_Mutation SNP A A C rs142063194 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 51.0 27.0 51.0 0.0 0.529412 0 A|0.991;C|0.009 0.009 strong . NLRP12 236 . NM_144687 exon3 c.C969G p.S323R GTTAAGAAGCAGC . PASS Atlas-SNP ZNF417 147687 hgsc.bcm.edu 37 19 58420416 58420416 + Silent SNP G G A rs150518835 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 80.0 25.0 79.0 0.0 0.3125 0 G|0.984;A|0.016 0.016 strong . ZNF417 44 . NM_152475 exon3 c.C1230T p.C410C TTCCTTGCACTCA . PASS Atlas-SNP FAM208A 23272 hgsc.bcm.edu 37 3 56667896 56667896 + Missense_Mutation SNP G G T rs200904014 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 67.0 36.0 97.0 0.0 0.537313 0 G|0.999;T|0.001 0.001 strong . FAM208A 113 . NM_001112736 exon18 c.C2923A p.Q975K GAAACTGGTAATC . PASS Atlas-SNP ZNF763 284390 hgsc.bcm.edu 37 19 12087921 12087921 + Silent SNP G G C rs376310072 alternate_allele TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 96.0 9.0 137.0 1.0 0.09375 0.00729927 . . alt ZNF763,NS,carcinoma,+1,2 ZNF763 31 2 NM_001012753 exon2 c.G81C p.S27S TATTTCGCAGAGG . scavenged Atlas-SNP KIAA0947 23379 hgsc.bcm.edu 37 5 5441314 5441314 + Missense_Mutation SNP A A G rs72646675 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 203.0 93.0 201.0 0.0 0.458128 0 A|0.999;G|0.001 0.001 strong . KIAA0947 301 . NM_015325 exon5 c.A287G p.K96R CTTTAAAAGCAGA . PASS Atlas-SNP TSC22D1 8848 hgsc.bcm.edu 37 13 45149973 45149973 + Missense_Mutation SNP G G A rs140514784 bycluster;byfrequency TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 202.0 151.0 128.0 0.0 0.747525 0 G|0.999;A|0.001 0.001 strong . TSC22D1 88 . NM_183422 exon1 c.C238T p.P80S GAGGCGGAGGCTG . PASS Atlas-SNP TET3 200424 hgsc.bcm.edu 37 2 74320089 74320089 + Nonsense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 144.0 74.0 202.0 0.0 0.513889 0 . . none . TET3 101 . NM_144993 exon6 c.C2695T p.R899X TACAAGCGACTGG . PASS Atlas-SNP AGAP6 414189 hgsc.bcm.edu 37 10 51769058 51769058 + Silent SNP G G A rs200123722 byfrequency TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 112.0 40.0 156.0 0.0 0.357143 0 G|0.985;A|0.015 0.015 strong AGAP6,NS,carcinoma,+1,1 AGAP6 53 1 NM_001077665 exon8 c.G1173A p.P391P CAACCCGCCCCCC . scavenged Atlas-SNP WNT9B 7484 hgsc.bcm.edu 37 17 44953637 44953637 + Silent SNP G G A rs62071993 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 120.0 60.0 106.0 0.0 0.5 0 G|0.997;A|0.003 0.003 strong . WNT9B 37 . NM_003396 exon4 c.G627A p.T209T GACCACGTGTAAG . PASS Atlas-SNP USP42 84132 hgsc.bcm.edu 37 7 6194379 6194379 + Missense_Mutation SNP G G C rs112550268 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 28.0 20.0 28.0 0.0 0.714286 0 G|0.992;C|0.008 0.008 strong . USP42 138 . NM_032172 exon15 c.G3194C p.R1065T ATGACAGGTACGC . PASS Atlas-SNP METTL25 84190 hgsc.bcm.edu 37 12 82780676 82780676 + Silent SNP A A G rs56337649 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 89.0 52.0 69.0 0.0 0.58427 0 A|0.969;G|0.031 0.031 strong . . . . NM_032230 exon2 c.A354G p.Q118Q TGTACAAAACTTG . PASS Atlas-SNP C1orf210 149466 hgsc.bcm.edu 37 1 43748923 43748923 + Missense_Mutation SNP T T G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 392.0 16.0 350.0 0.0 0.0408163 0 . . none . C1orf210 9 . NM_182517 exon2 c.A19C p.T7P ACTCACTTTTGTT . PASS Atlas-SNP ITGB2 3689 hgsc.bcm.edu 37 21 46330667 46330667 + Silent SNP G G A rs5030667 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 74.0 28.0 80.0 0.0 0.378378 0 G|0.975;A|0.025 0.025 strong . ITGB2 107 . NM_000211 exon2 c.C31T p.L11L CCACCAGGGCGAG . PASS Atlas-SNP PIGG 54872 hgsc.bcm.edu 37 4 509850 509850 + Silent SNP T T C rs11726338 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 80.0 27.0 86.0 0.0 0.3375 0 T|0.972;C|0.028 0.028 strong . PIGG 86 . NM_017733 exon6 c.T990C p.S330S AGACAGTGTAGGG . PASS Atlas-SNP EPPK1 83481 hgsc.bcm.edu 37 8 144945535 144945535 + Silent SNP G G A rs73715515 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 60.0 22.0 62.0 0.0 0.366667 0 G|0.977;A|0.023 0.023 strong . EPPK1 199 . NM_031308 exon1 c.C1887T p.A629A GCATCGGGCCTCA . PASS Atlas-SNP KRTAP16-1 100505753 hgsc.bcm.edu 37 17 39465449 39465449 + Silent SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 71.0 18.0 91.0 0.0 0.253521 0 . . none . KRTAP16-1 12 . NM_001146182 exon1 c.C57T p.C19C AGTGGAGCAGAGA . PASS Atlas-SNP CYP2S1 29785 hgsc.bcm.edu 37 19 41703793 41703793 + Silent SNP G G A rs57266494 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 52.0 22.0 46.0 0.0 0.423077 0 G|0.975;A|0.025 0.025 strong . CYP2S1 47 . NM_030622 exon3 c.G453A p.A151A CCAGGCGGAGGCC . PASS Atlas-SNP SGK1 6446 hgsc.bcm.edu 37 6 134495725 134495725 + Splice_Site SNP C C G rs186450029 by1000genomes;alternate_allele TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 41.0 11.0 67.0 0.0 0.268293 0 C|1.000;T|0.000 . alt SGK1_ENST00000528577,NS,lymphoid_neoplasm,0,4 SGK1 387 4 NM_005627 exon3 c.77-1G>C . TGAAAGCTGTGGA . PASS Atlas-SNP SAPCD2 89958 hgsc.bcm.edu 37 9 139959231 139959231 + Silent SNP G G A rs140919217 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 112.0 59.0 114.0 0.0 0.526786 0 G|0.995;A|0.005 0.005 strong . . . . NM_178448 exon6 c.C1065T p.T355T CTTCTCGGTCACC . PASS Atlas-SNP DMBT1 1755 hgsc.bcm.edu 37 10 124345721 124345721 + Silent SNP G G T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 93.0 49.0 76.0 0.0 0.526882 0 . . none . DMBT1 677 . NM_007329 exon16 c.G1605T p.L535L GCAGCTGGGCTGT . PASS Atlas-SNP ARRDC2 27106 hgsc.bcm.edu 37 19 18121454 18121454 + Silent SNP G G C rs147293119 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 48.0 25.0 34.0 0.0 0.520833 0 G|0.998;C|0.002 0.002 strong . ARRDC2 60 . NM_015683 exon7 c.G1086C p.P362P GCTTCCGCAGGAC . PASS Atlas-SNP TTLL3 26140 hgsc.bcm.edu 37 3 9874914 9874914 + Nonsense_Mutation SNP C C T rs115917139 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 61.0 37.0 82.0 0.0 0.606557 0 C|0.975;T|0.025 0.025 strong . TTLL3 51 . NM_001025930 exon11 c.C2110T p.R704X ACCCAGCGAGGCT . PASS Atlas-SNP HCN1 348980 hgsc.bcm.edu 37 5 45396654 45396654 + Silent SNP G G A rs369683016 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 157.0 43.0 157.0 0.0 0.273885 0 . . weak . HCN1 298 . NM_021072 exon4 c.C1170T p.V390V ATGGCCGACAAAC . PASS Atlas-SNP KCNC4 3749 hgsc.bcm.edu 37 1 110766185 110766185 + Silent SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 81.0 42.0 110.0 0.0 0.518519 0 . . none . KCNC4 113 . NM_001039574 exon2 c.C1278T p.G426G CATTGGCTTCTGG . PASS Atlas-SNP PABPC3 5042 hgsc.bcm.edu 37 13 25670627 25670627 + Silent SNP A A G rs369126872 alternate_allele TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 151.0 85.0 137.0 0.0 0.562914 0 . . alt . PABPC3 129 . NM_030979 exon1 c.A291G p.G97G AAGTGGAGTGGGC . PASS Atlas-SNP DGKQ 1609 hgsc.bcm.edu 37 4 956309 956309 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 57.0 6.0 72.0 0.0 0.105263 0 . . none . DGKQ 29 . NM_001347 exon18 c.G2128A p.V710M TGAGCACGGCGTC . PASS Atlas-SNP CCDC168 643677 hgsc.bcm.edu 37 13 103388764 103388764 + Silent SNP T T C rs113711522 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 290.0 206.0 385.0 0.0 0.710345 0 T|0.996;C|0.004 0.004 strong . . . . NM_001146197 exon4 c.A14283G p.V4761V TGTTTGTACTCTG . PASS Atlas-SNP IRF1 3659 hgsc.bcm.edu 37 5 131825088 131825088 + Missense_Mutation SNP T T G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 48.0 19.0 69.0 0.0 0.395833 0 . . none . IRF1 26 . NM_002198 exon2 c.A83C p.N28T ACTTTATTAATCC . PASS Atlas-SNP MUC5B 727897 hgsc.bcm.edu 37 11 1281932 1281932 + Silent SNP C C T rs61734215 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 106.0 49.0 137.0 0.0 0.462264 0 C|0.992;T|0.008 0.008 strong . MUC5B 473 . NM_002458 exon48 c.C17043T p.C5681C CTTCTGCGAGGGC . PASS Atlas-SNP MTRR 4552 hgsc.bcm.edu 37 5 7873566 7873566 + Silent SNP C C G rs41282641 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 80.0 37.0 94.0 0.0 0.4625 0 C|0.997;G|0.003 0.003 strong . MTRR 74 . NM_024010 exon3 c.C291G p.R97R AGCCCGCAAGTTT . PASS Atlas-SNP PROKR1 10887 hgsc.bcm.edu 37 2 68882661 68882661 + Missense_Mutation SNP A A G rs34715748 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 41.0 25.0 79.0 0.0 0.609756 0 A|0.960;G|0.040 0.040 strong PROKR1,NS,carcinoma,0,1 PROKR1 69 1 NM_138964 exon2 c.A1135G p.I379V AAGACAATTGGGA . PASS Atlas-SNP LTB 4050 hgsc.bcm.edu 37 6 31549599 31549599 + Missense_Mutation SNP T T C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 84.0 46.0 70.0 0.0 0.547619 0 . . none . LTB 19 . NM_002341 exon2 c.A200G p.Q67R AGTCCTTGCTGGG . PASS Atlas-SNP BTG1 694 hgsc.bcm.edu 37 12 92539223 92539223 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 151.0 48.0 140.0 0.0 0.317881 0 . . none . BTG1 30 . NM_001731 exon1 c.G89A p.G30E GTGAGCCCCTTGG . PASS Atlas-SNP CREB3 10488 hgsc.bcm.edu 37 9 35733116 35733116 + Missense_Mutation SNP C C T rs200166825 bycluster TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 250.0 135.0 263.0 0.0 0.54 0 C|0.999;T|0.001 0.001 weak . CREB3 24 . NM_006368 exon2 c.C253T p.R85W CTCCCACGGGAAA . PASS Atlas-SNP POM121L2 94026 hgsc.bcm.edu 37 6 27278838 27278838 + Missense_Mutation SNP T T G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 135.0 32.0 157.0 0.0 0.237037 0 . . none . POM121L2 61 . NM_033482 exon1 c.A1112C p.N371T TCTGTGTTGACCT . PASS Atlas-SNP PHF15 23338 hgsc.bcm.edu 37 5 133901934 133901934 + Silent SNP C C T rs148155246 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 84.0 43.0 114.0 0.0 0.511905 0 C|0.997;T|0.003 0.003 strong . PHF15 60 . NM_015288 exon9 c.C1098T p.D366D CAGTGACGGGGGC . PASS Atlas-SNP ISG20 3669 hgsc.bcm.edu 37 15 89182736 89182736 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 64.0 16.0 58.0 0.0 0.25 0 . . none . ISG20 17 . NM_002201 exon2 c.G139A p.G47R CCTGAGGGAGAGA . PASS Atlas-SNP NRXN1 9378 hgsc.bcm.edu 37 2 51255307 51255307 + Silent SNP G G T rs55640811 bycluster TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 38.0 22.0 37.0 0.0 0.578947 0 . . weak . NRXN1 1118 . NM_004801 exon2 c.C105A p.G35G CTCGGCGCCCGGA . PASS Atlas-SNP VASN 114990 hgsc.bcm.edu 37 16 4431373 4431373 + Silent SNP G G C rs740374 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 24.0 15.0 27.0 0.0 0.625 0 G|0.986;C|0.014 0.014 strong . VASN 21 . NM_138440 exon2 c.G495C p.P165P GCCCCCGCTGCGC . PASS Atlas-SNP RTN3 10313 hgsc.bcm.edu 37 11 63487033 63487033 + Silent SNP T T C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 86.0 21.0 87.0 0.0 0.244186 0 . . none . RTN3 104 . NM_001265589 exon3 c.T1059C p.D353D GACCGATAAATCT . PASS Atlas-SNP PBX1 5087 hgsc.bcm.edu 37 1 164761924 164761924 + Missense_Mutation SNP A A C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 51.0 13.0 58.0 0.0 0.254902 0 . . none . PBX1 60 . NM_001204963 exon3 c.A459C p.K153N AGCCAAACTCTCA . PASS Atlas-SNP HAVCR1 26762 hgsc.bcm.edu 37 5 156482296 156482296 + Missense_Mutation SNP C C G rs56084311 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 133.0 71.0 112.0 0.0 0.533835 0 C|0.992;G|0.008 0.008 strong HAVCR1,NS,carcinoma,+1,1 HAVCR1 84 1 NM_001099414 exon3 c.G295C p.D99H CACTGTCAGACAC . PASS Atlas-SNP NLRP5 126206 hgsc.bcm.edu 37 19 56549518 56549518 + Missense_Mutation SNP A A G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 133.0 24.0 127.0 0.0 0.180451 0 . . none . NLRP5 217 . NM_153447 exon10 c.A2743G p.S915G CCTCTCAGTGATG . PASS Atlas-SNP ITIH6 347365 hgsc.bcm.edu 37 X 54783779 54783779 + Missense_Mutation SNP T T C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 94.0 7.0 55.0 0.0 0.0744681 0 . . none . . . . NM_198510 exon8 c.A2728G p.S910G TGGAACTTGAGAT . PASS Atlas-SNP MAP3K1 4214 hgsc.bcm.edu 37 5 56178615 56178615 + Silent SNP A A C rs55912465 bycluster;byfrequency TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 47.0 28.0 55.0 0.0 0.595745 0 A|0.993;C|0.007 0.007 strong . MAP3K1 355 . NM_005921 exon14 c.A3588C p.S1196S AATGTCAGCGTCT . PASS Atlas-SNP BTG2 7832 hgsc.bcm.edu 37 1 203274835 203274835 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 110.0 31.0 124.0 0.0 0.281818 0 . . none . BTG2 16 . NM_006763 exon1 c.G101A p.R34K AGCAGAGGCTTAA . PASS Atlas-SNP SGK1 6446 hgsc.bcm.edu 37 6 134495155 134495155 + Silent SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 61.0 12.0 76.0 1.0 0.196721 0.0131579 . . none SGK1_ENST00000528577,NS,lymphoid_neoplasm,-2,5 SGK1 387 5 NM_001143676 exon5 c.C501T p.N167N AGAAGGGTTGGCA . scavenged Atlas-SNP FAM65B 9750 hgsc.bcm.edu 37 6 24839461 24839461 + Missense_Mutation SNP T T G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 118.0 38.0 120.0 0.0 0.322034 0 . . none . FAM65B 134 . NM_014722 exon15 c.A1960C p.S654R TGAGACTTAAACT . PASS Atlas-SNP UHRF2 115426 hgsc.bcm.edu 37 9 6413498 6413498 + Missense_Mutation SNP T T A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 70.0 13.0 73.0 0.0 0.185714 0 . . none . UHRF2 50 . NM_152896 exon1 c.T8A p.I3K TGTGGATACAGGT . PASS Atlas-SNP OPA1 4976 hgsc.bcm.edu 37 3 193332566 193332566 + Silent SNP A A G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 158.0 8.0 155.0 0.0 0.0506329 0 . . none . OPA1 79 . NM_130832 exon2 c.A87G p.P29P TTTACCACTACAA . PASS Atlas-SNP SQSTM1 8878 hgsc.bcm.edu 37 5 179263542 179263542 + Silent SNP C C T rs374985304 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 70.0 30.0 81.0 0.0 0.428571 0 . . weak SQSTM1,NS,carcinoma,0,1 SQSTM1 30 1 NM_003900 exon8 c.C1272T p.I424I TGACATCGGAGCG . PASS Atlas-SNP MYO1C 4641 hgsc.bcm.edu 37 17 1382889 1382889 + Silent SNP G G A rs146685153 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 123.0 57.0 138.0 0.0 0.463415 0 G|1.000;A|0.000 0.000 weak . MYO1C 57 . NM_001080779 exon8 c.C1017T p.T339T CACCCTGGTCAGA . PASS Atlas-SNP PTPRQ 374462 hgsc.bcm.edu 37 12 80865948 80865948 + Silent SNP A A G rs61729291 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 116.0 53.0 120.0 0.0 0.456897 0 A|0.969;G|0.031 0.031 strong . PTPRQ 119 . NM_001145026 exon5 c.A588G p.T196T ATTTACAATGTAT . PASS Atlas-SNP SYNE1 23345 hgsc.bcm.edu 37 6 152532702 152532702 + Missense_Mutation SNP T T C rs35763277 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 55.0 34.0 64.0 0.0 0.618182 0 T|0.988;C|0.012 0.012 strong . SYNE1 3227 . NM_182961 exon124 c.A22516G p.S7506G GACGACTGAACAT . PASS Atlas-SNP MMP24 10893 hgsc.bcm.edu 37 20 33855126 33855126 + Silent SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 97.0 4.0 85.0 0.0 0.0412371 0 . . none . MMP24 35 . NM_006690 exon6 c.C1098T p.L366L GCCCCTCGGGGAC . PASS Atlas-SNP FLAD1 80308 hgsc.bcm.edu 37 1 154956487 154956487 + Missense_Mutation SNP C C A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 103.0 31.0 102.0 0.0 0.300971 0 . . none . FLAD1 52 . NM_025207 exon1 c.C317A p.S106Y AACTTTCTCCGGG . PASS Atlas-SNP C3orf17 25871 hgsc.bcm.edu 37 3 112724619 112724619 + Missense_Mutation SNP A A G rs7628368 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 116.0 65.0 129.0 0.0 0.560345 0 A|0.949;G|0.051 0.051 strong C3orf17,lymph_node,lymphoid_neoplasm,0,1 C3orf17 37 1 NM_015412 exon9 c.T1468C p.S490P AGTGTGAGAGTCT . PASS Atlas-SNP TRIM45 80263 hgsc.bcm.edu 37 1 117659283 117659283 + Missense_Mutation SNP C C T rs61758105 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 73.0 40.0 80.0 0.0 0.547945 0 C|0.989;T|0.011 0.011 strong . TRIM45 55 . NM_025188 exon3 c.G1307A p.G436E TTGTCTCCTCCCC . PASS Atlas-SNP MTNR1A 4543 hgsc.bcm.edu 37 4 187455399 187455399 + Missense_Mutation SNP C C T rs28383653 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 69.0 33.0 71.0 0.0 0.478261 0 C|0.988;T|0.012 0.012 strong . MTNR1A 46 . NM_005958 exon2 c.G497A p.G166E AGAGTCCCTGCAC . PASS Atlas-SNP SLC26A7 115111 hgsc.bcm.edu 37 8 92330561 92330561 + Silent SNP T T C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 86.0 10.0 101.0 0.0 0.116279 0 . . none . SLC26A7 207 . NM_134266 exon5 c.T595C p.L199L TATCTCTTGGGAA . PASS Atlas-SNP DNAJC13 23317 hgsc.bcm.edu 37 3 132221139 132221139 + Missense_Mutation SNP C C T rs55825559 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 115.0 59.0 125.0 0.0 0.513043 0 C|0.981;T|0.019 0.019 strong . DNAJC13 253 . NM_015268 exon40 c.C4543T p.P1515S AGTATTCCCCGCG . PASS Atlas-SNP ASXL3 80816 hgsc.bcm.edu 37 18 31326554 31326554 + Nonsense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 20.0 7.0 21.0 0.0 0.35 0 . . none ASXL3_ENST00000269197,NS,carcinoma,-1,1 ASXL3 405 1 NM_030632 exon12 c.C6742T p.R2248X GTTGTACGATAAG . PASS Atlas-SNP SLC12A3 6559 hgsc.bcm.edu 37 16 56904075 56904075 + Silent SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 80.0 4.0 90.0 0.0 0.05 0 . . none . SLC12A3 99 . NM_001126108 exon5 c.C669T p.F223F CATTTTCGCTTTC . PASS Atlas-SNP INPP5B 3633 hgsc.bcm.edu 37 1 38343863 38343863 + Silent SNP G G A rs141357169 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 92.0 37.0 118.0 0.0 0.402174 0 G|0.997;A|0.003 0.003 strong . INPP5B 76 . NM_005540 exon16 c.C1674T p.I558I TACCCCGATGTCA . PASS Atlas-SNP BRD4 23476 hgsc.bcm.edu 37 19 15349962 15349962 + Silent SNP G G A rs118000160 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 104.0 55.0 116.0 0.0 0.528846 0 G|0.997;A|0.003 0.003 strong . BRD4 172 . NM_058243 exon18 c.C3690T p.A1230A CCGAGCGGCGCGG . PASS Atlas-SNP CIITA 4261 hgsc.bcm.edu 37 16 11000862 11000862 + Nonsense_Mutation SNP G G T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 41.0 19.0 33.0 0.0 0.463415 0 . . none . CIITA 92 . NM_000246 exon11 c.G1513T p.E505X GAGCTGGAAGCGC . PASS Atlas-SNP DCST2 127579 hgsc.bcm.edu 37 1 155004092 155004092 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 165.0 78.0 161.0 0.0 0.472727 0 . . none . DCST2 80 . NM_144622 exon4 c.G697A p.V233M TGAGCACGTAACA . PASS Atlas-SNP ZNF451 26036 hgsc.bcm.edu 37 6 56966040 56966040 + Silent SNP T T C rs188982073 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 53.0 28.0 56.0 0.0 0.528302 0 T|0.999;C|0.001 0.001 strong . ZNF451 181 . NM_001257273 exon4 c.T826C p.L276L GTGACATTACAAT . PASS Atlas-SNP MAFG 4097 hgsc.bcm.edu 37 17 79880565 79880565 + Silent SNP G G A rs61752690 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 12.0 7.0 14.0 0.0 0.583333 0 A|0.002;G|0.998 0.002 strong . MAFG 9 . NM_032711 exon3 c.C405T p.A135A CAGGCCGGCGGCA . PASS Atlas-SNP R3HDM1 23518 hgsc.bcm.edu 37 2 136467080 136467080 + Missense_Mutation SNP A A T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 206.0 87.0 253.0 0.0 0.42233 0 . . none . R3HDM1 84 . NM_015361 exon21 c.A2432T p.Q811L GTTCCCAGCAGCT . PASS Atlas-SNP FGL1 2267 hgsc.bcm.edu 37 8 17731876 17731876 + Silent SNP A A G rs34871936 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 102.0 45.0 115.0 0.0 0.441176 0 A|0.990;G|0.010 0.010 strong . FGL1 31 . NM_201553 exon5 c.T399C p.F133F CCTGTTAAAGTTT . PASS Atlas-SNP GNGT1 2792 hgsc.bcm.edu 37 7 93540153 93540153 + Missense_Mutation SNP G G A rs17243826 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 101.0 39.0 97.0 0.0 0.386139 0 A|0.023;C|0.029;G|0.948 0.023 strong . GNGT1 12 . NM_021955 exon3 c.G148A p.E50K TCTGGCGAGGATC . PASS Atlas-SNP IRF1 3659 hgsc.bcm.edu 37 5 131825083 131825083 + Splice_Site SNP C C A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 49.0 21.0 66.0 0.0 0.428571 0 . . none . IRF1 26 . NM_002198 exon3 c.87+1G>T . CACTCACTTTATT . PASS Atlas-SNP SGIP1 84251 hgsc.bcm.edu 37 1 67148009 67148009 + Silent SNP G G A rs61798708 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 106.0 45.0 109.0 0.0 0.424528 0 G|0.994;A|0.006 0.006 strong . SGIP1 272 . NM_032291 exon15 c.G1272A p.S424S GGTTTCGTCCCCC . PASS Atlas-SNP VWA5B2 90113 hgsc.bcm.edu 37 3 183958706 183958706 + Silent SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 60.0 15.0 79.0 0.0 0.25 0 . . none . VWA5B2 47 . NM_138345 exon16 c.G2868A p.V956V GCAGGTGTGCAGC . PASS Atlas-SNP USH1C 10083 hgsc.bcm.edu 37 11 17552707 17552707 + Silent SNP C C A rs41282942 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 75.0 36.0 65.0 0.0 0.48 0 C|0.998;A|0.002 0.002 strong . USH1C 157 . NM_005709 exon4 c.G381T p.G127G CTGGAGCCCGACG . PASS Atlas-SNP AMBRA1 55626 hgsc.bcm.edu 37 11 46456444 46456444 + Silent SNP G G A rs61999319 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 176.0 101.0 161.0 0.0 0.573864 0 G|0.985;A|0.015 0.015 strong . AMBRA1 201 . NM_001267782 exon15 c.C2785T p.L929L GGGCCAGGGAGTA . PASS Atlas-SNP EVPL 2125 hgsc.bcm.edu 37 17 74003525 74003525 + Missense_Mutation SNP C C T rs141706835 bycluster TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 66.0 33.0 68.0 0.0 0.5 0 C|1.000;T|0.000 0.000 weak EVPL,colon,carcinoma,0,1 EVPL 155 1 NM_001988 exon22 c.G5761A p.V1921I TCTGGACGGCCTC . PASS Atlas-SNP COL2A1 1280 hgsc.bcm.edu 37 12 48381394 48381394 + Silent SNP G G A rs150865922 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 28.0 12.0 30.0 0.0 0.428571 0 G|0.997;A|0.003 0.003 strong . COL2A1 368 . NM_001844 exon19 c.C1221T p.S407S ACTTACGGAGGCA . PASS Atlas-SNP BCAN 63827 hgsc.bcm.edu 37 1 156616814 156616814 + Missense_Mutation SNP C C G rs115373136 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 47.0 22.0 62.0 0.0 0.468085 0 C|0.989;G|0.011 0.011 strong . BCAN 174 . NM_198427 exon3 c.C313G p.R105G GCCTACCGGTTCC . PASS Atlas-SNP CARD11 84433 hgsc.bcm.edu 37 7 2984153 2984153 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 63.0 25.0 45.0 0.0 0.396825 0 . . none CARD11,colon,carcinoma,+1,4 CARD11 339 4 NM_032415 exon5 c.G377A p.G126D GTGAGGCCCTCGT . PASS Atlas-SNP SYNE1 23345 hgsc.bcm.edu 37 6 152668211 152668211 + Missense_Mutation SNP A A G rs111449472 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 104.0 42.0 116.0 0.0 0.403846 0 A|0.990;G|0.010 0.010 strong . SYNE1 3227 . NM_182961 exon73 c.T12061C p.C4021R TGCTGCAGATCGC . PASS Atlas-SNP FHAD1 114827 hgsc.bcm.edu 37 1 15679393 15679393 + Silent SNP G G A rs35368057 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 85.0 33.0 86.0 0.0 0.388235 0 G|0.991;A|0.009 0.009 strong . FHAD1 78 . NM_052929 exon19 c.G2409A p.A803A CATTGCGTACGAG . PASS Atlas-SNP HIST1H2AK 8330 hgsc.bcm.edu 37 6 27805865 27805865 + Nonsense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 128.0 50.0 121.0 0.0 0.390625 0 . . none . HIST1H2AK 28 . NM_003510 exon1 c.C253T p.Q85X CCAGCTGCAAGTG . PASS Atlas-SNP SLC6A11 6538 hgsc.bcm.edu 37 3 10960057 10960057 + Missense_Mutation SNP G G A rs376135284 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 100.0 42.0 111.0 0.0 0.42 0 . . weak . SLC6A11 87 . NM_014229 exon8 c.G1039A p.V347M AGCTTCGTGGCTG . PASS Atlas-SNP WDR65 149465 hgsc.bcm.edu 37 1 43680952 43680952 + Silent SNP C C T rs74422853 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 113.0 61.0 123.0 0.0 0.539823 0 C|0.989;T|0.011 0.011 strong . WDR65 76 . NM_001195831 exon12 c.C1956T p.F652F TCAGTTCCTGCTG . PASS Atlas-SNP FREM1 158326 hgsc.bcm.edu 37 9 14740229 14740229 + Silent SNP G G A rs187325866 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 64.0 32.0 42.0 0.0 0.5 0 G|0.999;A|0.001 0.001 strong . FREM1 261 . NM_144966 exon37 c.C6258T p.Y2086Y GCCCAGGTATCTA . PASS Atlas-SNP CAPRIN2 65981 hgsc.bcm.edu 37 12 30881884 30881884 + Missense_Mutation SNP G G A rs374198235 alternate_allele TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 155.0 92.0 161.0 0.0 0.593548 0 . . alt . CAPRIN2 109 . NM_023925 exon8 c.C1480T p.P494S GCTTTGGTGTCTC . PASS Atlas-SNP ZNF414 84330 hgsc.bcm.edu 37 19 8576390 8576390 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 103.0 57.0 100.0 0.0 0.553398 0 . . none . ZNF414 25 . NM_032370 exon6 c.G905A p.G302D GAGCCGCCCTGGG . PASS Atlas-SNP DACT1 51339 hgsc.bcm.edu 37 14 59113721 59113721 + Missense_Mutation SNP C C G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 30.0 13.0 50.0 0.0 0.433333 0 . . none . DACT1 119 . NM_016651 exon4 c.C2380G p.Q794E CCCATTCAAACGG . PASS Atlas-SNP FAM22G 441457 hgsc.bcm.edu 37 9 99701002 99701002 + Silent SNP C C T rs76993010 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 360.0 124.0 315.0 0.0 0.344444 0 T|1.000;|0.000 1.000 weak . FAM22G 66 . NM_001170741 exon7 c.C1797T p.L599L GGGTCTCCCTGGA . PASS Atlas-SNP DAO 1610 hgsc.bcm.edu 37 12 109293183 109293183 + Missense_Mutation SNP T T G rs113854555 alternate_allele TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 52.0 14.0 33.0 0.0 0.269231 0 T|0.500;C|0.500 . alt . DAO 58 . NM_001917 exon10 c.T844G p.F282V ACTGGCTTCCGGC . PASS Atlas-SNP TTC40 54777 hgsc.bcm.edu 37 10 134664628 134664628 + Missense_Mutation SNP A A G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 43.0 12.0 43.0 0.0 0.27907 0 . . none . TTC40 100 . NM_001200049 exon40 c.T5756C p.V1919A AGGCCGACGGAAG . PASS Atlas-SNP KIAA1033 23325 hgsc.bcm.edu 37 12 105550565 105550565 + Silent SNP C C T rs35149056 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 86.0 38.0 71.0 0.0 0.44186 0 C|0.946;T|0.054 0.054 strong . KIAA1033 83 . NM_015275 exon27 c.C2820T p.A940A CAATGCCATTAGG . PASS Atlas-SNP TIAM2 26230 hgsc.bcm.edu 37 6 155575639 155575639 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 175.0 94.0 144.0 0.0 0.537143 0 . . none TIAM2,NS,carcinoma,+1,1 TIAM2 161 1 NM_012454 exon25 c.C4400T p.P1467L AATTACCACTGGA . PASS Atlas-SNP RAPGEF3 10411 hgsc.bcm.edu 37 12 48143315 48143315 + Missense_Mutation SNP A A G rs145878042 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 14.0 5.0 20.0 0.0 0.357143 0 A|0.993;G|0.007 0.007 strong . RAPGEF3 98 . NM_001098531 exon10 c.T899C p.L300P GTCACCAGCCCCT . PASS Atlas-SNP BTBD8 284697 hgsc.bcm.edu 37 1 92568089 92568089 + Missense_Mutation SNP A A G rs17131602 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 145.0 66.0 188.0 0.0 0.455172 0 A|0.986;G|0.014 0.014 strong BTBD8,colon,carcinoma,0,4 BTBD8 32 4 NM_183242 exon3 c.A407G p.K136R GGAAAAAGATAAT . PASS Atlas-SNP PMS2 5395 hgsc.bcm.edu 37 7 6018231 6018231 + Silent SNP T T C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 396.0 212.0 325.0 0.0 0.535354 0 . . none . PMS2 88 . NM_000535 exon13 c.A2271G p.E757E ACCATTTTCATCG . PASS Atlas-SNP SGK1 6446 hgsc.bcm.edu 37 6 134495709 134495709 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 40.0 8.0 70.0 0.0 0.2 0 . . none SGK1_ENST00000367858,NS,lymphoid_neoplasm,-1,2 SGK1 387 2 NM_001143676 exon4 c.G377A p.R126K ATCCTCCTCTGCT . PASS Atlas-SNP BTD 686 hgsc.bcm.edu 37 3 15686611 15686611 + Silent SNP C C T rs372039874 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 131.0 64.0 117.0 0.0 0.48855 0 . . weak . BTD 49 . NM_000060 exon4 c.C1248T p.H416H TCTCCACGTCTGT . PASS Atlas-SNP SORCS1 114815 hgsc.bcm.edu 37 10 108434858 108434858 + Missense_Mutation SNP A A C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 74.0 25.0 66.0 0.0 0.337838 0 . . none . SORCS1 534 . NM_001206572 exon14 c.T1889G p.L630R ACAAAAAGTGGAA . PASS Atlas-SNP HNRNPCL1 343069 hgsc.bcm.edu 37 1 12907263 12907263 + Missense_Mutation SNP A A T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 130.0 30.0 126.0 0.0 0.230769 0 . . none . HNRNPCL1 68 . NM_001013631 exon2 c.T880A p.X294K GTGCTTAAGAGTC . PASS Atlas-SNP KRT7 3855 hgsc.bcm.edu 37 12 52636919 52636919 + Nonsense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 40.0 8.0 37.0 0.0 0.2 0 . . none . KRT7 48 . NM_005556 exon6 c.C982T p.Q328X AAGAACCAGGTGG . PASS Atlas-SNP GATM 2628 hgsc.bcm.edu 37 15 45660421 45660421 + Silent SNP A A G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 54.0 23.0 98.0 0.0 0.425926 0 . . none . GATM 34 . NM_001482 exon4 c.T522C p.V174V GCCCACAACTATC . PASS Atlas-SNP SFTPA1 653509 hgsc.bcm.edu 37 10 81373562 81373562 + Missense_Mutation SNP C C G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 299.0 115.0 306.0 0.0 0.384615 0 . . none . SFTPA1 23 . NM_001093770 exon6 c.C485G p.T162S CCATCACTTTTGA . PASS Atlas-SNP MYH10 4628 hgsc.bcm.edu 37 17 8402769 8402769 + Missense_Mutation SNP T T G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 154.0 50.0 160.0 0.0 0.324675 0 . . none . MYH10 148 . NM_001256012 exon30 c.A3770C p.K1257T CCCTGCTTGTTCT . PASS Atlas-SNP SLC2A9 56606 hgsc.bcm.edu 37 4 9998476 9998476 + Silent SNP A A G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 203.0 60.0 216.0 0.0 0.295566 0 . . none . SLC2A9 158 . NM_020041 exon3 c.T339C p.T113T GGACACAGTCACA . PASS Atlas-SNP PAPLN 89932 hgsc.bcm.edu 37 14 73718474 73718474 + Missense_Mutation SNP G G T rs141960540 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 146.0 76.0 122.0 0.0 0.520548 0 G|0.998;T|0.002 0.002 strong . PAPLN 180 . NM_173462 exon8 c.G692T p.G231V AGCGGGGTGCTGA . PASS Atlas-SNP ROR2 4920 hgsc.bcm.edu 37 9 94495595 94495595 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 101.0 8.0 96.0 0.0 0.0792079 0 . . none . ROR2 167 . NM_004560 exon6 c.G746A p.R249H AGCTCACGCGGCT . PASS Atlas-SNP ZNF561 93134 hgsc.bcm.edu 37 19 9721218 9721218 + Silent SNP G G A rs138137635 bycluster;byfrequency TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 61.0 33.0 57.0 0.0 0.540984 0 G|0.999;A|0.001 0.001 strong . ZNF561 64 . NM_152289 exon6 c.C1119T p.A373A AGTGAAGGCTTTC . PASS Atlas-SNP PCDH17 27253 hgsc.bcm.edu 37 13 58208047 58208047 + Missense_Mutation SNP A A C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 63.0 10.0 47.0 0.0 0.15873 0 . . none PCDH17,colon,carcinoma,-1,1 PCDH17 304 1 NM_001040429 exon1 c.A1367C p.K456T CCACCAAGTCGTT . PASS Atlas-SNP KIAA0232 9778 hgsc.bcm.edu 37 4 6843852 6843852 + Missense_Mutation SNP A A G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 34.0 3.0 37.0 0.0 0.0882353 0 . . none KIAA0232,bladder,carcinoma,-1,1 KIAA0232 102 1 NM_014743 exon4 c.A290G p.K97R AGAGTAAGAAAAA . scavenged Atlas-SNP FAT1 2195 hgsc.bcm.edu 37 4 187629137 187629137 + Silent SNP A A G rs4862726 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 41.0 17.0 54.0 0.0 0.414634 0 A|0.975;G|0.025 0.025 strong . FAT1 500 . NM_005245 exon2 c.T1845C p.F615F TAAACTAAAGAAA . PASS Atlas-SNP CD180 4064 hgsc.bcm.edu 37 5 66492387 66492387 + Missense_Mutation SNP C C T rs377501004 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 88.0 6.0 64.0 0.0 0.0681818 0 . . weak . CD180 78 . NM_005582 exon1 c.G83A p.C28Y TCAATGCACATCT . PASS Atlas-SNP CFHR2 3080 hgsc.bcm.edu 37 1 196918724 196918724 + Missense_Mutation SNP T T A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 219.0 14.0 235.0 0.0 0.0639269 0 . . none . CFHR2 73 . NM_005666 exon2 c.T198A p.F66L ATCCTTTTGGACT . PASS Atlas-SNP PCDHA1 56147 hgsc.bcm.edu 37 5 140167033 140167033 + Silent SNP T T G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 100.0 18.0 116.0 0.0 0.18 0 . . none . PCDHA1 387 . NM_031411 exon1 c.T1158G p.T386T GGTGACTTGCTCC . PASS Atlas-SNP ATP13A4 84239 hgsc.bcm.edu 37 3 193272556 193272556 + Silent SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 118.0 12.0 124.0 0.0 0.101695 0 . . none . ATP13A4 154 . NM_032279 exon1 c.G33A p.L11L ATTGAGCAGAGCG . PASS Atlas-SNP PRAME 23532 hgsc.bcm.edu 37 22 22893394 22893394 + Missense_Mutation SNP A A T rs41310248 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 41.0 25.0 45.0 0.0 0.609756 0 A|0.978;T|0.022 0.022 strong . PRAME 78 . NM_206954 exon4 c.T139A p.L47M GCAGCAACTCCAG . PASS Atlas-SNP CLCN7 1186 hgsc.bcm.edu 37 16 1506130 1506130 + Silent SNP C C T rs41286695 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 24.0 14.0 26.0 0.0 0.583333 0 C|0.973;T|0.027 0.027 strong . CLCN7 53 . NM_001287 exon10 c.G900A p.A300A TCCAAACGCCGCT . PASS Atlas-SNP B4GALNT4 338707 hgsc.bcm.edu 37 11 380395 380395 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 55.0 4.0 70.0 0.0 0.0727273 0 . . none B4GALNT4,NS,carcinoma,+1,1 B4GALNT4 83 1 NM_178537 exon18 c.C2819T p.A940V CCTTCGCGCCCGT . PASS Atlas-SNP NT5M 56953 hgsc.bcm.edu 37 17 17250197 17250197 + Missense_Mutation SNP G G A rs145194793 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 77.0 40.0 63.0 0.0 0.519481 0 G|0.997;A|0.003 0.003 strong . NT5M 17 . NM_020201 exon5 c.G623A p.R208H CCCCCCGCCGCAG . PASS Atlas-SNP PTBP2 58155 hgsc.bcm.edu 37 1 97235290 97235290 + Silent SNP A A G rs139414147 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 89.0 33.0 100.0 0.0 0.370787 0 A|0.998;G|0.002 0.002 strong . PTBP2 62 . NM_021190 exon4 c.A147G p.G49G TAAAGGAGAAGAT . PASS Atlas-SNP LIMD2 80774 hgsc.bcm.edu 37 17 61776651 61776651 + Missense_Mutation SNP T T A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 96.0 20.0 112.0 0.0 0.208333 0 . . none . LIMD2 6 . NM_030576 exon2 c.A8T p.Q3L GCAGCCTGGAACA . PASS Atlas-SNP OMA1 115209 hgsc.bcm.edu 37 1 58999896 58999896 + Silent SNP C C A rs41287650 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 231.0 89.0 281.0 0.0 0.385281 0 C|1.000;A|0.000 0.000 strong . OMA1 50 . NM_145243 exon4 c.G837T p.G279G AGAGATCCCTGGA . PASS Atlas-SNP RSAD1 55316 hgsc.bcm.edu 37 17 48561871 48561871 + Silent SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 43.0 12.0 34.0 0.0 0.27907 0 . . none RSAD1,NS,carcinoma,+2,1 RSAD1 36 1 NM_018346 exon8 c.G1176A p.E392E GCAGGAGCTGCTG . PASS Atlas-SNP OTUD4 54726 hgsc.bcm.edu 37 4 146063471 146063471 + Missense_Mutation SNP C C T rs151020153 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 65.0 35.0 50.0 0.0 0.538462 0 C|0.998;T|0.002 0.002 strong . OTUD4 120 . NM_001102653 exon18 c.G1504A p.V502M AAGACACATGTTC . PASS Atlas-SNP BICD1 636 hgsc.bcm.edu 37 12 32481369 32481369 + Silent SNP C C T rs34447944 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 93.0 32.0 110.0 0.0 0.344086 0 C|0.940;T|0.060 0.060 strong BICD1,colon,carcinoma,0,1 BICD1 89 1 NM_001714 exon5 c.C1980T p.A660A GCTAGCCCCCATG . PASS Atlas-SNP MLXIPL 51085 hgsc.bcm.edu 37 7 73010191 73010191 + Missense_Mutation SNP C C T rs149244334 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 35.0 16.0 52.0 0.0 0.457143 0 C|0.999;T|0.001 0.001 strong . MLXIPL 54 . NM_032951 exon14 c.G2167A p.E723K TGAGCTCCTCAAT . PASS Atlas-SNP CTAGE5 4253 hgsc.bcm.edu 37 14 39769122 39769122 + Missense_Mutation SNP A A C rs34761053 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 60.0 25.0 85.0 0.0 0.416667 0 A|0.995;C|0.005 0.005 strong . CTAGE5 75 . NM_001247989 exon9 c.A742C p.K248Q AAACAGAAAGTAA . PASS Atlas-SNP CELSR1 9620 hgsc.bcm.edu 37 22 46762360 46762360 + Silent SNP G G A rs56325154 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 107.0 52.0 95.0 0.0 0.485981 0 G|0.993;A|0.007 0.007 strong . CELSR1 242 . NM_014246 exon30 c.C8223T p.N2741N GGTGGTGTTGCAG . PASS Atlas-SNP PCDHGA9 56107 hgsc.bcm.edu 37 5 140783628 140783628 + Missense_Mutation SNP A A G rs375910829 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 139.0 71.0 124.0 0.0 0.510791 0 . . weak . PCDHGA9 110 . NM_032089 exon1 c.A1109G p.N370S TTTTCAATGCTCA . PASS Atlas-SNP ENPP5 59084 hgsc.bcm.edu 37 6 46135795 46135795 + Missense_Mutation SNP T T C rs34432940 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 81.0 40.0 60.0 0.0 0.493827 0 T|0.993;C|0.007 0.007 strong . ENPP5 44 . NM_021572 exon2 c.A205G p.I69V TTGTAATAAAAAC . PASS Atlas-SNP PSME4 23198 hgsc.bcm.edu 37 2 54176359 54176359 + Silent SNP A A G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 74.0 23.0 59.0 0.0 0.310811 0 . . none . PSME4 247 . NM_014614 exon2 c.T304C p.L102L CATACAATAACTT . PASS Atlas-SNP ADAMTS18 170692 hgsc.bcm.edu 37 16 77325285 77325285 + Nonsense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 129.0 31.0 138.0 0.0 0.24031 0 . . none ADAMTS18,NS,carcinoma,+1,2 ADAMTS18 270 2 NM_199355 exon21 c.C3280T p.R1094X ATCTTCGCTCTGG . PASS Atlas-SNP SETD5 55209 hgsc.bcm.edu 37 3 9483818 9483818 + Nonsense_Mutation SNP C C G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 47.0 17.0 31.0 0.0 0.361702 0 . . none . SETD5 210 . NM_001080517 exon10 c.C966G p.Y322X ACCATACCCCTTT . PASS Atlas-SNP APMAP 57136 hgsc.bcm.edu 37 20 24954303 24954303 + Silent SNP G G C rs148400044 bycluster;byfrequency TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 102.0 57.0 98.0 0.0 0.558824 0 G|0.998;C|0.002 0.002 strong . APMAP 3 . NM_020531 exon4 c.C399G p.A133A AAACCGGGCAATG . PASS Atlas-SNP SBF1 6305 hgsc.bcm.edu 37 22 50893668 50893668 + Silent SNP C C G rs374064130 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 56.0 35.0 57.0 0.0 0.625 0 . . weak . SBF1 211 . NM_002972 exon33 c.G4539C p.L1513L GCAGTCCAGGAAC . PASS Atlas-SNP RET 5979 hgsc.bcm.edu 37 10 43610119 43610119 + Missense_Mutation SNP G G A rs1799939 bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 46.0 25.0 60.0 0.0 0.543478 0 G|0.839;A|0.161 0.161 strong RET_ENST00000340058,adrenal_gland,pheochromocytoma,0,2 RET 916 2 NM_020630 exon11 c.G2071A p.G691S TCTTCCGGTGCCC . PASS Atlas-SNP WNK2 65268 hgsc.bcm.edu 37 9 96030979 96030979 + Missense_Mutation SNP A A T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 91.0 28.0 109.0 0.0 0.307692 0 . . none . WNK2 277 . NM_006648 exon18 c.A3984T p.E1328D CCCTGAATCTTCG . PASS Atlas-SNP COL6A6 131873 hgsc.bcm.edu 37 3 130311551 130311551 + Silent SNP A A T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 108.0 28.0 131.0 0.0 0.259259 0 . . none COL6A6_ENST00000358511,bladder,carcinoma,+1,2 COL6A6 497 2 NM_001102608 exon14 c.A4356T p.G1452G CAGAGGACTAAAT . PASS Atlas-SNP OR2L3 391192 hgsc.bcm.edu 37 1 248224227 248224227 + Missense_Mutation SNP T T C rs146249174 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 223.0 107.0 234.0 0.0 0.479821 0 T|0.992;C|0.008 0.008 strong . OR2L3 97 . NM_001004687 exon1 c.T244C p.S82P ATGGCATCTGATT . PASS Atlas-SNP PPP4R4 57718 hgsc.bcm.edu 37 14 94722815 94722815 + Silent SNP G G A rs114970142 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 35.0 13.0 41.0 0.0 0.371429 0 G|0.989;A|0.011 0.011 strong . PPP4R4 107 . NM_058237 exon17 c.G1884A p.L628L CTACCTGTTGCCC . PASS Atlas-SNP CHST8 64377 hgsc.bcm.edu 37 19 34262922 34262922 + Missense_Mutation SNP C C T rs149660944 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 103.0 51.0 112.0 0.0 0.495146 0 C|0.995;T|0.005 0.005 strong . CHST8 70 . NM_001127895 exon5 c.C229T p.R77W GTCACTCGGGACT . PASS Atlas-SNP ROR2 4920 hgsc.bcm.edu 37 9 94499797 94499797 + Silent SNP A A G rs16907720 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 30.0 14.0 36.0 0.0 0.466667 0 A|0.902;G|0.098 0.098 strong . ROR2 167 . NM_004560 exon5 c.T498C p.D166D GTAATCATCCCTG . PASS Atlas-SNP PRRC2C 23215 hgsc.bcm.edu 37 1 171509275 171509275 + Silent SNP T T C rs75723046 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 100.0 44.0 112.0 0.0 0.44 0 T|0.997;C|0.003 0.003 strong . . . . NM_015172 exon16 c.T2664C p.D888D TACTGATGCAAAT . PASS Atlas-SNP DCDC2 51473 hgsc.bcm.edu 37 6 24302049 24302049 + Missense_Mutation SNP T T G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 131.0 10.0 131.0 0.0 0.0763359 0 . . none . DCDC2 53 . NM_001195610 exon5 c.A451C p.N151H CTGGGTTTATGAG . PASS Atlas-SNP MUC5B 727897 hgsc.bcm.edu 37 11 1272793 1272793 + Missense_Mutation SNP C C T rs56159668 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 90.0 43.0 86.0 0.0 0.477778 0 C|0.992;T|0.008 0.008 strong . MUC5B 473 . NM_002458 exon31 c.C14683T p.P4895S ACGGTTCCCAGCT . PASS Atlas-SNP ZBTB16 7704 hgsc.bcm.edu 37 11 114118019 114118019 + Missense_Mutation SNP A A G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 131.0 25.0 110.0 0.0 0.19084 0 . . none . ZBTB16 101 . NM_006006 exon6 c.A1724G p.E575G CCTACGAGTGCAA . PASS Atlas-SNP LRIG2 9860 hgsc.bcm.edu 37 1 113637308 113637308 + Missense_Mutation SNP A A G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 209.0 94.0 239.0 0.0 0.449761 0 . . none . LRIG2 67 . NM_014813 exon6 c.A734G p.K245R CTTTGAAAATGCA . PASS Atlas-SNP BRWD1 54014 hgsc.bcm.edu 37 21 40582823 40582823 + Silent SNP C C T rs75046572 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 116.0 74.0 74.0 0.0 0.637931 0 C|0.970;T|0.030 0.030 strong . BRWD1 325 . NM_018963 exon35 c.G3933A p.T1311T ATAGTTCGTAGCT . PASS Atlas-SNP CTSE 1510 hgsc.bcm.edu 37 1 206319201 206319201 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 88.0 13.0 102.0 0.0 0.147727 0 . . none . CTSE 72 . NM_001910 exon3 c.G326A p.C109Y TGTACTGCACTAG . PASS Atlas-SNP HIST1H3J 8356 hgsc.bcm.edu 37 6 27858310 27858310 + Silent SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 81.0 8.0 93.0 0.0 0.0987654 0 . . none . HIST1H3J 16 . NM_003535 exon1 c.C261T p.S87S CGCCGAGCTCTGG . PASS Atlas-SNP ENPP7 339221 hgsc.bcm.edu 37 17 77709383 77709383 + Missense_Mutation SNP C C T rs148221256 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 73.0 23.0 85.0 0.0 0.315068 0 C|0.998;T|0.002 0.002 strong . ENPP7 63 . NM_178543 exon3 c.C941T p.A314V AGGAGGCGTTCCC . PASS Atlas-SNP SCML4 256380 hgsc.bcm.edu 37 6 108067907 108067907 + Missense_Mutation SNP C C T rs142985964 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 63.0 35.0 85.0 0.0 0.555556 0 C|0.999;T|0.001 0.001 strong . SCML4 65 . NM_198081 exon4 c.G473A p.G158D ATCTCACCACCAT . PASS Atlas-SNP OSGIN1 29948 hgsc.bcm.edu 37 16 83992895 83992895 + Missense_Mutation SNP A A G rs150635654 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 79.0 37.0 80.0 0.0 0.468354 0 A|0.999;G|0.001 0.001 strong . OSGIN1 33 . NM_182981 exon3 c.A98G p.Y33C TGTCCTACCTGCT . PASS Atlas-SNP ATAD2 29028 hgsc.bcm.edu 37 8 124360487 124360487 + Silent SNP G G A rs77106954 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 73.0 26.0 124.0 0.0 0.356164 0 G|0.979;A|0.021 0.021 strong . ATAD2 160 . NM_014109 exon15 c.C1833T p.H611H CCTGGTGTGAATC . PASS Atlas-SNP COL27A1 85301 hgsc.bcm.edu 37 9 117029826 117029826 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 61.0 4.0 53.0 0.0 0.0655738 0 . . none . COL27A1 200 . NM_032888 exon34 c.G3490A p.A1164T GGGGAAGCCGGGA . PASS Atlas-SNP ND4 0 hgsc.bcm.edu 37 MT 12088 12088 + Silent SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 17.0 6.0 6.0 0.0 0.352941 0 . . none . . . . ENST00000361381 exon1 c.C1329T p.P443P ATCCCCCATTCTC . PASS Atlas-SNP SGK196 0 hgsc.bcm.edu 37 8 42977591 42977591 + Silent SNP G G C rs34040483 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 85.0 38.0 90.0 0.0 0.447059 0 G|0.992;C|0.008 0.008 strong . . . . NM_032237 exon5 c.G624C p.L208L CGACCTGCCGAAG . PASS Atlas-SNP DMBT1 1755 hgsc.bcm.edu 37 10 124330421 124330421 + Missense_Mutation SNP C C G rs75209396 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 192.0 94.0 161.0 0.0 0.489583 0 C|0.950;G|0.050 0.050 strong . DMBT1 677 . NM_007329 exon4 c.C155G p.S52W TTCCCTCGGAGTC . PASS Atlas-SNP AIPL1 23746 hgsc.bcm.edu 37 17 6337404 6337404 + Silent SNP G G A rs11650007 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 89.0 38.0 100.0 0.0 0.426966 0 G|0.983;A|0.017 0.017 strong . AIPL1 34 . NM_014336 exon2 c.C111T p.F37F GGTGCGGAAATGA . PASS Atlas-SNP SH3RF3 344558 hgsc.bcm.edu 37 2 110065896 110065896 + Missense_Mutation SNP C C T rs192679474 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 97.0 42.0 114.0 0.0 0.43299 0 C|0.998;T|0.002 0.002 strong . SH3RF3 62 . NM_001099289 exon8 c.C2099T p.S700F CCACATCCAGCCC . PASS Atlas-SNP NAALADL2 254827 hgsc.bcm.edu 37 3 174974265 174974265 + Silent SNP C C T rs192980349 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 102.0 48.0 118.0 0.0 0.470588 0 C|0.999;T|0.001 0.001 strong . NAALADL2 86 . NM_207015 exon4 c.C885T p.N295N AAAAAACGTAACA . PASS Atlas-SNP ATG2B 55102 hgsc.bcm.edu 37 14 96800027 96800027 + Missense_Mutation SNP C C T rs183527316 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 98.0 50.0 81.0 0.0 0.510204 0 C|0.998;T|0.002 0.002 strong . ATG2B 169 . NM_018036 exon8 c.G1205A p.R402H TTACCACGGCTAG . PASS Atlas-SNP PPFIBP2 8495 hgsc.bcm.edu 37 11 7662851 7662851 + Missense_Mutation SNP A A C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 92.0 24.0 94.0 0.0 0.26087 0 . . none . PPFIBP2 87 . NM_003621 exon16 c.A1517C p.K506T GGGGAAAGTAAGT . PASS Atlas-SNP HIST2H3D 653604 hgsc.bcm.edu 37 1 149784843 149784843 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 238.0 15.0 239.0 0.0 0.0630252 0 . . none . HIST2H3D 15 . NM_001123375 exon1 c.C394T p.R132C CCCCGCGGATGCG . PASS Atlas-SNP MYO7B 4648 hgsc.bcm.edu 37 2 128367451 128367451 + Silent SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 116.0 13.0 177.0 0.0 0.112069 0 . . none . MYO7B 359 . NM_001080527 exon24 c.C3052T p.L1018L GTCATCCTGAGGT . PASS Atlas-SNP SGK1 6446 hgsc.bcm.edu 37 6 134495218 134495218 + Silent SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 70.0 21.0 62.0 0.0 0.3 0 . . none SGK1_ENST00000528577,NS,lymphoid_neoplasm,0,4 SGK1 387 4 NM_001143676 exon5 c.C438T p.H146H TTCAGGGCTGCAG . PASS Atlas-SNP TTC12 54970 hgsc.bcm.edu 37 11 113234603 113234603 + Silent SNP G G A rs34940277 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 94.0 74.0 89.0 0.0 0.787234 0 G|0.999;A|0.001 0.001 strong . TTC12 66 . NM_017868 exon20 c.G1770A p.T590T CTGCACGAATAGT . PASS Atlas-SNP MTUS1 57509 hgsc.bcm.edu 37 8 17532715 17532715 + Missense_Mutation SNP A A C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 128.0 27.0 92.0 0.0 0.210938 0 . . none . MTUS1 144 . NM_001001924 exon8 c.T2885G p.V962G AGGTTAACAAGTT . PASS Atlas-SNP EPPK1 83481 hgsc.bcm.edu 37 8 144947062 144947062 + Silent SNP C C T rs7819087 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 113.0 70.0 123.0 0.0 0.619469 0 C|0.955;T|0.045 0.045 strong . EPPK1 199 . NM_031308 exon1 c.G360A p.T120T ATAGCCCGTAGTG . PASS Atlas-SNP ZFP2 80108 hgsc.bcm.edu 37 5 178359075 178359075 + Missense_Mutation SNP G G C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 44.0 17.0 27.0 0.0 0.386364 0 . . none . ZFP2 70 . NM_030613 exon5 c.G761C p.S254T GTCAAAGCATGCA . PASS Atlas-SNP EPPK1 83481 hgsc.bcm.edu 37 8 144941940 144941940 + Silent SNP G G A rs73715514 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 117.0 58.0 112.0 0.0 0.495726 0 G|0.951;A|0.049 0.049 strong . EPPK1 199 . NM_031308 exon1 c.C5482T p.L1828L TTTCCAGCAATTT . PASS Atlas-SNP FAM5C 339479 hgsc.bcm.edu 37 1 190067970 190067970 + Missense_Mutation SNP T T G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 135.0 35.0 96.0 0.0 0.259259 0 . . none FAM5C,colon,carcinoma,-2,1 FAM5C 343 1 NM_199051 exon8 c.A1479C p.Q493H GAGATCTTGCAGG . PASS Atlas-SNP ASIP 434 hgsc.bcm.edu 37 20 32856838 32856838 + Silent SNP C C A rs36093428 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 53.0 35.0 62.0 0.0 0.660377 0 C|0.994;A|0.006 0.006 strong . ASIP 6 . NM_001672 exon3 c.C264A p.P88P GACCCCCCTATCT . PASS Atlas-SNP CCR2 729230 hgsc.bcm.edu 37 3 46399581 46399581 + Missense_Mutation SNP A A C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 143.0 51.0 168.0 0.0 0.356643 0 . . none . CCR2 103 . NM_001123041 exon2 c.A563C p.Y188S CTGTTTATGTCTG . PASS Atlas-SNP SOX5 6660 hgsc.bcm.edu 37 12 23757393 23757393 + Missense_Mutation SNP G G T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 124.0 9.0 137.0 0.0 0.0725806 0 . . none . SOX5 134 . NM_006940 exon9 c.C1092A p.N364K ACCAAGGTTGCCT . PASS Atlas-SNP GCH1 2643 hgsc.bcm.edu 37 14 55369053 55369053 + Missense_Mutation SNP T T C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 41.0 15.0 40.0 0.0 0.365854 0 . . none . GCH1 16 . NM_000161 exon1 c.A329G p.Q110R GTCTCCTGGTAGC . PASS Atlas-SNP DNAJA2 10294 hgsc.bcm.edu 37 16 47007480 47007480 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 40.0 11.0 39.0 0.0 0.275 0 . . none . DNAJA2 28 . NM_005880 exon1 c.G4A p.A2T CGTTAGCCATGGC . PASS Atlas-SNP OR1L3 26735 hgsc.bcm.edu 37 9 125437664 125437664 + Missense_Mutation SNP T T G rs56304399 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 132.0 72.0 124.0 0.0 0.545455 0 T|0.993;G|0.007 0.007 strong . OR1L3 51 . NM_001005234 exon1 c.T256G p.L86V AACTTCTTATCAG . PASS Atlas-SNP HRC 3270 hgsc.bcm.edu 37 19 49658345 49658345 + Silent SNP G G A rs117942355 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 61.0 27.0 67.0 0.0 0.442623 0 G|1.000;A|0.000 0.000 strong . HRC 85 . NM_002152 exon1 c.C150T p.S50S CTCCTCGGAGAGC . PASS Atlas-SNP KIF5B 3799 hgsc.bcm.edu 37 10 32320002 32320002 + Missense_Mutation SNP G G A rs35441986 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 79.0 44.0 83.0 0.0 0.556962 0 G|0.998;A|0.002 0.002 strong . KIF5B 81 . NM_004521 exon14 c.C1580T p.S527L CCTACCGATTTCT . PASS Atlas-SNP COL12A1 1303 hgsc.bcm.edu 37 6 75827165 75827165 + Silent SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 67.0 22.0 98.0 0.0 0.328358 0 . . none COL12A1,NS,carcinoma,0,1 COL12A1 385 1 NM_004370 exon47 c.C7452T p.D2484D AAAGTCGTCCACA . PASS Atlas-SNP ALDH9A1 223 hgsc.bcm.edu 37 1 165638577 165638577 + Missense_Mutation SNP T T G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 201.0 69.0 200.0 0.0 0.343284 0 . . none . ALDH9A1 75 . NM_000696 exon7 c.A1041C p.E347D TGTATCTTCCAGA . PASS Atlas-SNP MYO6 4646 hgsc.bcm.edu 37 6 76572352 76572352 + Missense_Mutation SNP T T G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 124.0 6.0 133.0 0.0 0.0483871 0 . . none . MYO6 124 . NM_004999 exon16 c.T1586G p.L529W ATATTTTGGATGA . PASS Atlas-SNP P2RY8 286530 hgsc.bcm.edu 37 X 1585084 1585084 + Missense_Mutation SNP A A C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 87.0 15.0 120.0 0.0 0.172414 0 . . none . P2RY8 53 . NM_178129 exon2 c.T368G p.L123R ACCCCCAGGAAGC . PASS Atlas-SNP FAM135B 51059 hgsc.bcm.edu 37 8 139160926 139160926 + Silent SNP A A G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 49.0 13.0 41.0 0.0 0.265306 0 . . none . FAM135B 423 . NM_015912 exon14 c.T3285C p.F1095F CTGATAAAAACTG . PASS Atlas-SNP RTN4RL1 146760 hgsc.bcm.edu 37 17 1840732 1840732 + Silent SNP G G A rs372962204 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 76.0 38.0 66.0 0.0 0.5 0 . . weak . RTN4RL1 21 . NM_178568 exon2 c.C384T p.H128H GAGGGCGTGAAGC . PASS Atlas-SNP MAP1B 4131 hgsc.bcm.edu 37 5 71491950 71491950 + Missense_Mutation SNP T T C rs143194383 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 83.0 49.0 74.0 0.0 0.590361 0 T|1.000;C|0.000 0.000 strong . MAP1B 243 . NM_005909 exon5 c.T2768C p.I923T ACGACATTGAAAA . PASS Atlas-SNP KCNJ2 3759 hgsc.bcm.edu 37 17 68171425 68171425 + Missense_Mutation SNP G G A rs199473653 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 306.0 85.0 285.0 0.0 0.277778 0 . . weak . KCNJ2 74 . NM_000891 exon2 c.G245A p.R82Q GCTGGCGGTGGAT . PASS Atlas-SNP ENTPD1 953 hgsc.bcm.edu 37 10 97471746 97471746 + Silent SNP G G A rs200247284 bycluster;byfrequency TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 76.0 33.0 64.0 0.0 0.434211 0 G|0.994;A|0.006 0.006 strong . ENTPD1 44 . NM_001098175 exon1 c.G33A p.Q11Q CCAGCAGAAGGGT . PASS Atlas-SNP NBR1 4077 hgsc.bcm.edu 37 17 41342737 41342737 + Silent SNP G G A rs200554551 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 107.0 48.0 124.0 0.0 0.448598 0 G|0.997;A|0.003 0.003 strong . NBR1 55 . NM_031862 exon9 c.G807A p.P269P TGAACCGTTCTGT . PASS Atlas-SNP ALK 238 hgsc.bcm.edu 37 2 29543736 29543736 + Missense_Mutation SNP A A G rs35093491 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 97.0 48.0 80.0 0.0 0.494845 0 A|0.973;G|0.027 0.027 strong . ALK 533 . NM_004304 exon7 c.T1427C p.V476A AAACCCACAGGCA . PASS Atlas-SNP ACOT4 122970 hgsc.bcm.edu 37 14 74061757 74061757 + Missense_Mutation SNP A A G rs141714008 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 122.0 59.0 153.0 0.0 0.483607 0 A|1.000;G|0.000 0.000 weak . ACOT4 25 . NM_152331 exon3 c.A665G p.K222R AGGTAAAAGGCCC . PASS Atlas-SNP NELL1 4745 hgsc.bcm.edu 37 11 20939776 20939776 + Missense_Mutation SNP A A T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 96.0 20.0 90.0 0.0 0.208333 0 . . none . NELL1 179 . NM_006157 exon6 c.A652T p.T218S TATATAACACAGT . PASS Atlas-SNP CACFD1 11094 hgsc.bcm.edu 37 9 136333487 136333487 + Missense_Mutation SNP G G A rs3094381 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 6.0 5.0 5.0 0.0 0.833333 0 G|0.912;A|0.088 0.088 strong . CACFD1 1 . NM_001242369 exon5 c.G454A p.A152T TCCTTCGCAGCCC . PASS Atlas-SNP NOP9 161424 hgsc.bcm.edu 37 14 24772965 24772965 + Silent SNP C C A rs116960868 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 111.0 56.0 112.0 0.0 0.504505 0 C|0.990;A|0.010 0.010 strong C14orf21,colon,carcinoma,-2,1 . . 1 NM_174913 exon7 c.C1312A p.R438R TCATCCCGGCAAG . PASS Atlas-SNP RSPH6A 81492 hgsc.bcm.edu 37 19 46313918 46313918 + Silent SNP C C G rs141102105 bycluster;byfrequency TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 64.0 33.0 93.0 0.0 0.515625 0 C|0.997;G|0.003 0.003 strong RSPH6A,NS,carcinoma,-2,1 RSPH6A 70 1 NM_030785 exon2 c.G831C p.A277A GAACAGCGCCTTC . PASS Atlas-SNP LMX1A 4009 hgsc.bcm.edu 37 1 165322487 165322487 + Missense_Mutation SNP C C A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 38.0 11.0 36.0 0.0 0.289474 0 . . none . LMX1A 87 . NM_001174069 exon3 c.G89T p.S30I TTGGGGCTCACCG . PASS Atlas-SNP TFEC 22797 hgsc.bcm.edu 37 7 115580893 115580893 + Silent SNP G G A rs34298819 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 147.0 70.0 153.0 0.0 0.47619 0 G|0.988;A|0.012 0.012 strong . TFEC 51 . NM_012252 exon8 c.C756T p.S252S AGGATGGCTCTGC . PASS Atlas-SNP PEG3 5178 hgsc.bcm.edu 37 19 57335959 57335959 + Missense_Mutation SNP T T C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 135.0 35.0 140.0 0.0 0.259259 0 . . none . PEG3 414 . NM_001146184 exon3 c.A65G p.E22G TCTAGCTCATACA . PASS Atlas-SNP HIST2H2AC 8338 hgsc.bcm.edu 37 1 149858806 149858806 + Silent SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 209.0 11.0 211.0 0.0 0.0526316 0 . . none HIST2H2AC,NS,carcinoma,0,3 HIST2H2AC 75 3 NM_003517 exon1 c.G282A p.L94L GGAACTGAACAAG . PASS Atlas-SNP C10orf137 26098 hgsc.bcm.edu 37 10 127412393 127412393 + Missense_Mutation SNP T T C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 102.0 17.0 113.0 0.0 0.166667 0 . . none . C10orf137 153 . NM_015608 exon4 c.T398C p.L133P AAAAACTCCTGAA . PASS Atlas-SNP NT5C1B 93034 hgsc.bcm.edu 37 2 18767638 18767638 + Missense_Mutation SNP A A G rs147855918 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 130.0 59.0 113.0 0.0 0.453846 0 A|0.997;G|0.003 0.003 strong . NT5C1B 72 . NM_001199087 exon4 c.T371C p.L124P TTCCGCAGTGATG . PASS Atlas-SNP ZEB2 9839 hgsc.bcm.edu 37 2 145274844 145274844 + Splice_Site SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 50.0 27.0 56.0 0.0 0.54 0 . . none ZEB2,NS,NS,0,1 ZEB2 218 1 NM_001171653 exon3 c.73+1G>A . TTCTTACCGTTTT . PASS Atlas-SNP PCDH9 5101 hgsc.bcm.edu 37 13 67802190 67802190 + Missense_Mutation SNP A A T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 154.0 54.0 103.0 0.0 0.350649 0 . . none . PCDH9 252 . NM_203487 exon2 c.T383A p.I128K ATTTTTATTTTGA . PASS Atlas-SNP NUP62 23636 hgsc.bcm.edu 37 19 50412396 50412396 + Silent SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 85.0 39.0 66.0 0.0 0.458824 0 . . none NUP62,NS,carcinoma,0,2 NUP62 50 2 NM_153719 exon3 c.G669A p.A223A TATTGACGCAAAG . PASS Atlas-SNP GRIN2A 2903 hgsc.bcm.edu 37 16 9857231 9857231 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 86.0 32.0 99.0 0.0 0.372093 0 . . none GRIN2A,colon,carcinoma,0,1 GRIN2A 366 1 NM_001134408 exon14 c.G3827A p.R1276H TGGCAACGAGTGT . PASS Atlas-SNP IGSF10 285313 hgsc.bcm.edu 37 3 151165641 151165641 + Missense_Mutation SNP T T G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 201.0 11.0 197.0 0.0 0.0547264 0 . . none . IGSF10 279 . NM_178822 exon4 c.A2128C p.K710Q TGTGTTTTCCAAC . PASS Atlas-SNP KRTAP19-5 337972 hgsc.bcm.edu 37 21 31874241 31874241 + Silent SNP G G T rs150340950 bycluster;byfrequency TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 66.0 23.0 57.0 0.0 0.348485 0 G|0.975;T|0.025 0.025 strong KRTAP19-5,NS,carcinoma,-2,1 KRTAP19-5 32 1 NM_181611 exon1 c.C168A p.R56R GCAGCTGCGGTAT . PASS Atlas-SNP POM121L2 94026 hgsc.bcm.edu 37 6 27278340 27278340 + Missense_Mutation SNP A A G rs147268352 by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 110.0 24.0 79.0 0.0 0.218182 0 A|0.999;G|0.001 0.001 strong . POM121L2 61 . NM_033482 exon1 c.T1610C p.I537T CCCAAAATCGGTT . PASS Atlas-SNP CCDC15 80071 hgsc.bcm.edu 37 11 124857192 124857192 + Missense_Mutation SNP A A C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 137.0 20.0 138.0 0.0 0.145985 0 . . none . CCDC15 134 . NM_025004 exon8 c.A1070C p.K357T GTGTTAAGCCAGA . PASS Atlas-SNP FAIM3 9214 hgsc.bcm.edu 37 1 207078467 207078467 + Missense_Mutation SNP G G A rs41304091 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 64.0 23.0 65.0 0.0 0.359375 0 G|0.992;A|0.008 0.008 strong . FAIM3 36 . NM_005449 exon8 c.C1070T p.A357V GATGGGGCATGGA . PASS Atlas-SNP SLC22A11 55867 hgsc.bcm.edu 37 11 64337280 64337280 + Silent SNP G G A rs34836439 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 44.0 20.0 38.0 0.0 0.454545 0 G|0.996;A|0.004 0.004 strong . SLC22A11 54 . NM_018484 exon9 c.G1539A p.P513P CCTCCCGGAGACC . PASS Atlas-SNP COL4A2 1284 hgsc.bcm.edu 37 13 111102770 111102770 + Silent SNP C C T rs78615289 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 18.0 8.0 28.0 0.0 0.444444 0 C|0.984;T|0.016 0.016 strong . COL4A2 178 . NM_001846 exon20 c.C1308T p.P436P AGGACCCCCCGGG . PASS Atlas-SNP MRPS12 6183 hgsc.bcm.edu 37 19 39421979 39421979 + Silent SNP T T G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 94.0 27.0 84.0 0.0 0.287234 0 . . none . MRPS12 11 . NM_033362 exon2 c.T45G p.T15T CCTAACTTGTGGT . PASS Atlas-SNP WBSCR17 64409 hgsc.bcm.edu 37 7 71177023 71177023 + Silent SNP G G A rs75947590 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 58.0 28.0 57.0 0.0 0.482759 0 G|0.998;A|0.002 0.002 strong . WBSCR17 208 . NM_022479 exon11 c.G1689A p.K563K GAACAAGGGCACG . PASS Atlas-SNP PRSS36 146547 hgsc.bcm.edu 37 16 31152818 31152818 + Missense_Mutation SNP C C T rs117442264 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 32.0 12.0 25.0 0.0 0.375 0 C|0.990;T|0.010 0.010 strong . PRSS36 50 . NM_001258291 exon12 c.G1873A p.V625I CCAGGACCCAGCC . PASS Atlas-SNP OGFR 11054 hgsc.bcm.edu 37 20 61444660 61444660 + Missense_Mutation SNP C C A rs61743079 bycluster TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 8.0 3.0 4.0 0.0 0.375 0 C|0.981;A|0.019 0.019 weak OGFR,NS,neuroblastoma,0,1 OGFR 63 1 NM_007346 exon7 c.C1693A p.R565S GGCCCCCGCCCGG . scavenged Atlas-SNP RAB21 23011 hgsc.bcm.edu 37 12 72148943 72148943 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 11.0 9.0 0.0 0.0 0.818182 . . . none . RAB21 17 . NM_014999 exon1 c.G34A p.A12T GGGGCGGCGGCGG . PASS Atlas-SNP JAKMIP1 152789 hgsc.bcm.edu 37 4 6062160 6062160 + Silent SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 83.0 29.0 92.0 0.0 0.349398 0 . . none . JAKMIP1 250 . NM_001099433 exon11 c.G1635A p.E545E TCCCTTCTCAACC . PASS Atlas-SNP KCNH7 90134 hgsc.bcm.edu 37 2 163228507 163228507 + Silent SNP A A C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 77.0 33.0 117.0 0.0 0.428571 0 . . none KCNH7,NS,carcinoma,0,1 KCNH7 378 1 NM_033272 exon16 c.T3423G p.T1141T AAGTGAAGTCAAG . PASS Atlas-SNP HELZ2 85441 hgsc.bcm.edu 37 20 62194238 62194238 + Silent SNP C C T rs34996572 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 70.0 33.0 67.0 0.0 0.471429 0 C|0.984;T|0.016 0.016 strong . . . . NM_001037335 exon9 c.G5937A p.P1979P CCCCTGCGGCGTC . PASS Atlas-SNP SMYD1 150572 hgsc.bcm.edu 37 2 88387508 88387508 + Silent SNP C C A rs113636517 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 191.0 132.0 239.0 1.0 0.691099 0.0041841 C|0.995;A|0.005 0.005 strong . SMYD1 95 . NM_198274 exon3 c.C442A p.R148R GACCTGCGGGTGG . PASS Atlas-SNP RBM44 375316 hgsc.bcm.edu 37 2 238725962 238725962 + Missense_Mutation SNP G G A rs182474506 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 99.0 44.0 103.0 0.0 0.444444 0 G|0.999;A|0.001 0.001 strong . RBM44 167 . NM_001080504 exon3 c.G403A p.D135N GAATTAGATCCTG . PASS Atlas-SNP DDX51 317781 hgsc.bcm.edu 37 12 132625027 132625027 + Silent SNP G G A rs61942919 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 84.0 32.0 87.0 0.0 0.380952 0 G|0.995;A|0.005 0.005 strong DDX51,NS,carcinoma,-1,1 DDX51 33 1 NM_175066 exon11 c.C1614T p.R538R CCCGTAGCGCGAG . PASS Atlas-SNP ZNF131 7690 hgsc.bcm.edu 37 5 43173541 43173541 + Silent SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 85.0 38.0 87.0 0.0 0.447059 0 . . none . ZNF131 51 . NM_003432 exon7 c.C1074T p.Y358Y GCTCTACGAATGC . PASS Atlas-SNP COL15A1 1306 hgsc.bcm.edu 37 9 101804366 101804366 + Missense_Mutation SNP T T C rs35901514 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 67.0 37.0 54.0 0.0 0.552239 0 T|0.993;C|0.007 0.007 strong . COL15A1 211 . NM_001855 exon24 c.T2551C p.F851L CCTGGCTTTCCAG . PASS Atlas-SNP CARD11 84433 hgsc.bcm.edu 37 7 2983886 2983886 + Missense_Mutation SNP T T A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 199.0 88.0 174.0 0.0 0.442211 0 . . none CARD11,colon,carcinoma,-1,6 CARD11 339 6 NM_032415 exon5 c.A644T p.K215M ATGTTCTTCTCCT . PASS Atlas-SNP USP13 8975 hgsc.bcm.edu 37 3 179424788 179424788 + Missense_Mutation SNP T T C rs141550831 bycluster;byfrequency TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 150.0 89.0 157.0 0.0 0.593333 0 T|0.999;C|0.001 0.001 strong USP13,NS,carcinoma,-1,1 USP13 117 1 NM_003940 exon5 c.T544C p.W182R GACACGTGGGAAA . PASS Atlas-SNP SEL1L2 80343 hgsc.bcm.edu 37 20 13912308 13912308 + Missense_Mutation SNP C C T rs143129534 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 108.0 40.0 98.0 1.0 0.37037 0.0102041 C|0.988;T|0.012 0.012 strong SEL1L2,colon,carcinoma,-1,1 SEL1L2 103 1 NM_001271539 exon3 c.G224A p.R75H ATTTTACGTTGAT . scavenged Atlas-SNP ARHGAP18 93663 hgsc.bcm.edu 37 6 129929191 129929191 + Missense_Mutation SNP A A C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 38.0 9.0 25.0 0.0 0.236842 0 . . none . ARHGAP18 52 . NM_033515 exon9 c.T1129G p.C377G CTTGGCAAAGATT . PASS Atlas-SNP NACAD 23148 hgsc.bcm.edu 37 7 45120282 45120282 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 115.0 74.0 131.0 0.0 0.643478 0 . . none . NACAD 44 . NM_001146334 exon7 c.G4631A p.R1544Q AGAGCCCGCACGG . PASS Atlas-SNP PARP11 57097 hgsc.bcm.edu 37 12 3931308 3931308 + Silent SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 93.0 12.0 87.0 0.0 0.129032 0 . . none . PARP11 39 . NM_020367 exon5 c.C360T p.N120N GGCCTCGTTTTCA . PASS Atlas-SNP ENPP2 5168 hgsc.bcm.edu 37 8 120569823 120569823 + Missense_Mutation SNP G G A rs61738778 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 106.0 51.0 120.0 0.0 0.481132 0 G|0.996;A|0.004 0.004 strong . ENPP2 254 . NM_006209 exon26 c.C2686T p.R896C AGCTGCGGCTGGT . PASS Atlas-SNP ETFB 2109 hgsc.bcm.edu 37 19 51857774 51857774 + Missense_Mutation SNP T T G rs143144671 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 71.0 42.0 67.0 0.0 0.591549 0 T|0.998;G|0.002 0.002 strong . ETFB 46 . NM_001014763 exon1 c.A119C p.E40A AGCCATTCCTGGG . PASS Atlas-SNP WNK2 65268 hgsc.bcm.edu 37 9 96030957 96030957 + Missense_Mutation SNP A A G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 95.0 27.0 116.0 0.0 0.284211 0 . . none . WNK2 277 . NM_006648 exon18 c.A3962G p.H1321R CTGAGCACCCCGC . PASS Atlas-SNP OTC 5009 hgsc.bcm.edu 37 X 38262964 38262964 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 59.0 18.0 47.0 0.0 0.305085 0 . . none . OTC 60 . NM_000531 exon6 c.G634A p.G212R AAATTCGGAATGC . PASS Atlas-SNP LTB 4050 hgsc.bcm.edu 37 6 31549604 31549604 + Silent SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 80.0 27.0 69.0 0.0 0.3375 0 . . none . LTB 19 . NM_002341 exon2 c.C195T p.A65A TTGCTGGGCCTGT . PASS Atlas-SNP CHST1 8534 hgsc.bcm.edu 37 11 45671241 45671241 + Silent SNP C C G rs7115779 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 25.0 11.0 27.0 0.0 0.44 0 C|0.989;G|0.011 0.011 strong CHST1,colon,adenoma,0,1 CHST1 81 1 NM_003654 exon4 c.G1233C p.S411S GGGTCACGAGAAG . PASS Atlas-SNP MRPL38 64978 hgsc.bcm.edu 37 17 73895744 73895744 + Missense_Mutation SNP G G A rs1128878 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 57.0 21.0 54.0 0.0 0.368421 0 G|0.999;A|0.001 0.001 strong . MRPL38 26 . NM_032478 exon7 c.C722T p.P241L TTACCCGGGATGT . PASS Atlas-SNP LEPR 3953 hgsc.bcm.edu 37 1 66102617 66102617 + Silent SNP A A G rs61781316 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 44.0 17.0 71.0 0.0 0.386364 0 A|0.997;G|0.003 0.003 strong . LEPR 284 . NM_002303 exon20 c.A3417G p.A1139A TTTTGCATCTTAC . PASS Atlas-SNP OR8G2 26492 hgsc.bcm.edu 37 11 124096271 124096271 + Missense_Mutation SNP A A G rs201854907 bycluster;byfrequency TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 201.0 16.0 175.0 0.0 0.079602 0 A|0.996;G|0.005 0.005 strong . . . . NM_001007249 exon1 c.A874G p.T292A TTTTATACTATTG . PASS Atlas-SNP ACTN1 87 hgsc.bcm.edu 37 14 69341653 69341653 + Missense_Mutation SNP T T A rs11557769 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 46.0 25.0 66.0 0.0 0.543478 0 T|0.988;A|0.012 0.012 strong ACTN1,NS,carcinoma,+2,1 ACTN1 77 1 NM_001130004 exon22 c.A2668T p.T890S GGCCGGTGTAGGG . PASS Atlas-SNP CD83 9308 hgsc.bcm.edu 37 6 14118297 14118297 + Splice_Site SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 32.0 10.0 29.0 0.0 0.3125 0 . . none . CD83 23 . NM_001040280 exon2 c.153+1G>A . GTCAAGGTAGGTG . PASS Atlas-SNP NOP9 161424 hgsc.bcm.edu 37 14 24771172 24771172 + Silent SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 58.0 11.0 75.0 0.0 0.189655 0 . . none . . . . NM_174913 exon4 c.G810A p.V270V CACAGTGTTTATC . PASS Atlas-SNP DUSP2 1844 hgsc.bcm.edu 37 2 96810556 96810556 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 76.0 9.0 92.0 0.0 0.118421 0 . . none DUSP2,NS,carcinoma,+2,1 DUSP2 20 1 NM_004418 exon2 c.C454T p.P152S TTGGCGGCAGCGC . PASS Atlas-SNP CYP3A4 1576 hgsc.bcm.edu 37 7 99358595 99358595 + Silent SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 261.0 110.0 287.0 1.0 0.421456 0.00348432 . . none . CYP3A4 56 . NM_017460 exon12 c.G1263A p.K421K GTTCTTCTTGCTG . PASS Atlas-SNP WDTC1 23038 hgsc.bcm.edu 37 1 27631526 27631526 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 58.0 33.0 42.0 0.0 0.568965 0 . . none . WDTC1 69 . NM_001276252 exon15 c.G1678A p.G560S GACGATGGCTCCT . PASS Atlas-SNP SLFN11 91607 hgsc.bcm.edu 37 17 33680127 33680127 + Missense_Mutation SNP T T C rs143643982 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 47.0 26.0 43.0 0.0 0.553191 0 T|0.999;C|0.001 0.001 strong . SLFN11 112 . NM_152270 exon5 c.A1954G p.K652E AAGTTTTCCGGGT . PASS Atlas-SNP FAF2 23197 hgsc.bcm.edu 37 5 175926010 175926010 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 55.0 22.0 43.0 0.0 0.4 0 . . none . FAF2 38 . NM_014613 exon9 c.G935A p.R312Q AGAAACGGGAGGA . PASS Atlas-SNP CSMD1 64478 hgsc.bcm.edu 37 8 3253868 3253868 + Missense_Mutation SNP A A T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 97.0 28.0 61.0 0.0 0.28866 0 . . none . CSMD1 1469 . NM_033225 exon17 c.T2441A p.V814D TCTCTGACCTCCA . PASS Atlas-SNP PRSS58 136541 hgsc.bcm.edu 37 7 141955390 141955390 + Silent SNP C C T rs145731516 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 109.0 47.0 101.0 0.0 0.431193 0 C|0.994;T|0.006 0.006 strong . PRSS58 41 . NM_001001317 exon3 c.G144A p.P48P CCAAAGCGGGTGG . PASS Atlas-SNP LYRM7 90624 hgsc.bcm.edu 37 5 130515811 130515811 + Silent SNP G G A rs113642581 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 48.0 23.0 54.0 0.0 0.479167 0 A|0.027;C|0.000;G|0.973 0.027 strong . LYRM7 7 . NM_181705 exon2 c.G42A p.L14L AACACTGCACAGG . PASS Atlas-SNP OR7A10 390892 hgsc.bcm.edu 37 19 14952301 14952301 + Missense_Mutation SNP A A C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 100.0 49.0 88.0 0.0 0.49 0 . . none . OR7A10 33 . NM_001005190 exon1 c.T389G p.L130R TAGTGCAGAGGGT . PASS Atlas-SNP LOXHD1 125336 hgsc.bcm.edu 37 18 44065109 44065109 + Missense_Mutation SNP C C T rs373848470 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 60.0 30.0 58.0 0.0 0.5 0 . . weak . LOXHD1 367 . NM_144612 exon38 c.G5869A p.E1957K CGATCTCGTAGGC . PASS Atlas-SNP SERBP1 26135 hgsc.bcm.edu 37 1 67895779 67895779 + Nonsense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 110.0 39.0 127.0 0.0 0.354545 0 . . none . SERBP1 31 . NM_001018067 exon1 c.C205T p.Q69X GCAGCTGTTTGCC . PASS Atlas-SNP COL9A3 1299 hgsc.bcm.edu 37 20 61452556 61452556 + Silent SNP G G A rs149690829 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 51.0 27.0 61.0 0.0 0.529412 0 G|1.000;A|0.000 0.000 strong . COL9A3 70 . NM_001853 exon6 c.G333A p.P111P GGGGCCGCCCGGG . PASS Atlas-SNP ADAMTS12 81792 hgsc.bcm.edu 37 5 33614391 33614391 + Missense_Mutation SNP A A T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 104.0 10.0 111.0 0.0 0.0961538 0 . . none . ADAMTS12 464 . NM_030955 exon16 c.T2479A p.F827I GCCAGAAGTACAT . PASS Atlas-SNP CACNA1C 775 hgsc.bcm.edu 37 12 2224449 2224449 + Missense_Mutation SNP G G A rs34534613 bycluster;byfrequency TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 34.0 17.0 34.0 0.0 0.5 0 G|0.997;A|0.003 0.003 strong . CACNA1C 1023 . NM_001129831 exon2 c.G109A p.G37R GCAGCGGGGCTGG . PASS Atlas-SNP SLC22A15 55356 hgsc.bcm.edu 37 1 116577849 116577849 + Missense_Mutation SNP C C T rs201564754 by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 247.0 64.0 245.0 0.0 0.259109 0 C|1.000;T|0.000 0.000 strong . SLC22A15 65 . NM_018420 exon7 c.C986T p.A329V TGAGTGCGGGTGA . PASS Atlas-SNP DIP2A 23181 hgsc.bcm.edu 37 21 47971585 47971585 + Missense_Mutation SNP G G T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 95.0 32.0 66.0 0.0 0.336842 0 . . none . DIP2A 332 . NM_015151 exon24 c.G2878T p.A960S CTGGTTGCTGGGA . PASS Atlas-SNP KIF1A 547 hgsc.bcm.edu 37 2 241710437 241710437 + Missense_Mutation SNP T T C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 63.0 15.0 45.0 0.0 0.238095 0 . . none . KIF1A 152 . NM_001244008 exon15 c.A1292G p.E431G ATGCGCTCGTGGA . PASS Atlas-SNP SPATC1 375686 hgsc.bcm.edu 37 8 145095768 145095768 + Missense_Mutation SNP C C T rs150277218 bycluster;byfrequency TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 64.0 30.0 58.0 0.0 0.46875 0 C|0.999;T|0.001 0.001 strong . SPATC1 77 . NM_001134374 exon3 c.C1066T p.H356Y ACCACCCACATCG . PASS Atlas-SNP CXorf58 254158 hgsc.bcm.edu 37 X 23933912 23933912 + Splice_Site SNP G G A rs62584865 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 110.0 40.0 77.0 0.0 0.363636 0 G|0.991;A|0.009 0.009 strong . CXorf58 53 . NM_001169574 exon4 c.311+1G>A . ATTCAGGTAATGT . PASS Atlas-SNP RANBP17 64901 hgsc.bcm.edu 37 5 170338066 170338066 + Missense_Mutation SNP T T G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 171.0 41.0 143.0 0.0 0.239766 0 . . none . RANBP17 108 . NM_022897 exon7 c.T688G p.F230V TTTGACTTCATTG . PASS Atlas-SNP PRRC2A 7916 hgsc.bcm.edu 37 6 31603046 31603046 + Silent SNP C C T rs139053368 bycluster;byfrequency TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 105.0 19.0 114.0 0.0 0.180952 0 C|0.999;T|0.001 0.001 strong . PRRC2A 152 . NM_004638 exon22 c.C5298T p.D1766D TAGTGACAAGGTC . PASS Atlas-SNP COL8A1 1295 hgsc.bcm.edu 37 3 99513830 99513830 + Missense_Mutation SNP G G A rs139380413 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 39.0 20.0 50.0 0.0 0.512821 0 G|0.999;A|0.001 0.001 strong . COL8A1 68 . NM_001850 exon5 c.G1085A p.R362Q GTGACCGGGGCAT . PASS Atlas-SNP TNFRSF13B 23495 hgsc.bcm.edu 37 17 16843666 16843666 + Missense_Mutation SNP C C T rs104894649 bycluster;byfrequency TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 61.0 32.0 46.0 0.0 0.52459 0 C|0.999;T|0.001 0.001 strong . TNFRSF13B 34 . NM_012452 exon4 c.G605A p.R202H CTTTGACGGGGCC . PASS Atlas-SNP CUTA 51596 hgsc.bcm.edu 37 6 33384473 33384473 + Missense_Mutation SNP C C T rs41267649 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 173.0 142.0 183.0 0.0 0.820809 0 C|0.986;T|0.014 0.014 strong . CUTA 5 . NM_001014433 exon6 c.G551A p.R184H ACCTGGCGCACCC . PASS Atlas-SNP RIN2 54453 hgsc.bcm.edu 37 20 19937289 19937289 + Silent SNP C C T rs368413043 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 66.0 33.0 55.0 0.0 0.5 0 . . weak . RIN2 126 . NM_001242581 exon4 c.C336T p.S112S CTATTCCGAGGAA . PASS Atlas-SNP KCNU1 157855 hgsc.bcm.edu 37 8 36664917 36664917 + Missense_Mutation SNP G G A rs180964986 by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 73.0 18.0 100.0 0.0 0.246575 0 G|1.000;A|0.000 0.000 strong KCNU1,NS,carcinoma,0,1 KCNU1 359 1 NM_001031836 exon6 c.G605A p.R202H CCTTGCGCCTGCT . PASS Atlas-SNP UBR2 23304 hgsc.bcm.edu 37 6 42613298 42613298 + Silent SNP T T C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 47.0 20.0 45.0 0.0 0.425532 0 . . none . UBR2 134 . NM_015255 exon21 c.T2379C p.H793H GGCTCATAGTGAA . PASS Atlas-SNP ATAD2 29028 hgsc.bcm.edu 37 8 124357253 124357253 + Silent SNP G G A rs16898247 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 91.0 40.0 69.0 0.0 0.43956 0 G|0.843;A|0.157 0.157 strong ATAD2,NS,carcinoma,-2,1 ATAD2 160 1 NM_014109 exon19 c.C2589T p.H863H CCACACGTGGATA . PASS Atlas-SNP ZBTB24 9841 hgsc.bcm.edu 37 6 109796673 109796673 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 74.0 4.0 82.0 0.0 0.0540541 0 . . none . ZBTB24 64 . NM_014797 exon5 c.C1217T p.P406L CATTCCGGTAATG . PASS Atlas-SNP DNAH7 56171 hgsc.bcm.edu 37 2 196825256 196825256 + Silent SNP G G C rs115124743 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 128.0 80.0 106.0 0.0 0.625 0 G|0.969;C|0.031 0.031 strong . DNAH7 512 . NM_018897 exon18 c.C2619G p.V873V AGAGGAGACTGTG . PASS Atlas-SNP VIL1 7429 hgsc.bcm.edu 37 2 219313993 219313993 + Silent SNP A A C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 101.0 48.0 119.0 0.0 0.475248 0 . . none . VIL1 65 . NM_007127 exon20 c.A2418C p.P806P GACTCCAGCTGCC . PASS Atlas-SNP EPPK1 83481 hgsc.bcm.edu 37 8 144943223 144943223 + Missense_Mutation SNP T T C rs139952490 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 50.0 20.0 36.0 0.0 0.4 0 T|0.995;C|0.005 0.005 strong . EPPK1 199 . NM_031308 exon1 c.A4199G p.N1400S AACTTGTTGTCCT . PASS Atlas-SNP ACVR1C 130399 hgsc.bcm.edu 37 2 158412701 158412701 + Missense_Mutation SNP T T G rs55920843 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 134.0 33.0 146.0 0.0 0.246269 0 T|0.993;G|0.007 0.007 strong . ACVR1C 85 . NM_145259 exon3 c.A448C p.N150H CCACATTTGGTCT . PASS Atlas-SNP SNX5 27131 hgsc.bcm.edu 37 20 17933265 17933265 + Missense_Mutation SNP C C T rs145056868 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 55.0 30.0 77.0 0.0 0.545455 0 C|1.000;T|0.000 0.000 strong . SNX5 38 . NM_014426 exon5 c.G479A p.R160H AAGTTGCGATCTT . PASS Atlas-SNP SLC4A5 57835 hgsc.bcm.edu 37 2 74450058 74450058 + Missense_Mutation SNP C C T rs36081793 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 82.0 47.0 104.0 0.0 0.573171 0 C|0.977;T|0.023 0.023 strong . SLC4A5 215 . NM_021196 exon25 c.G3316A p.V1106I TTATAACCGAGGG . PASS Atlas-SNP KRTAP5-5 439915 hgsc.bcm.edu 37 11 1651150 1651150 + Missense_Mutation SNP G G A rs201376522 bycluster TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 55.0 38.0 56.0 0.0 0.690909 0 . . weak KRTAP5-5,right_upper_lobe,carcinoma,-1,2 KRTAP5-5 86 2 NM_001001480 exon1 c.G80A p.G27D GCTCCGGCTGTGG . PASS Atlas-SNP CELSR1 9620 hgsc.bcm.edu 37 22 46761565 46761565 + Silent SNP G G C rs34184256 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 87.0 29.0 103.0 0.0 0.333333 0 G|0.992;C|0.008 0.008 strong . CELSR1 242 . NM_014246 exon31 c.C8322G p.L2774L CACGCCGAGCTTC . PASS Atlas-SNP EPHB6 2051 hgsc.bcm.edu 37 7 142561786 142561786 + Silent SNP T T C rs56300555 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 143.0 73.0 171.0 0.0 0.51049 0 T|0.990;C|0.010 0.010 strong . EPHB6 168 . NM_004445 exon7 c.T228C p.H76H ATGTCATGTGGCA . PASS Atlas-SNP DNAH8 1769 hgsc.bcm.edu 37 6 38883000 38883000 + Silent SNP C C T rs150857304 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 103.0 79.0 89.0 0.0 0.76699 0 C|0.998;T|0.002 0.002 strong . DNAH8 1239 . NM_001206927 exon68 c.C9987T p.S3329S AGTAAGCGCTCAG . PASS Atlas-SNP BIVM-ERCC5 0 hgsc.bcm.edu 37 13 103460019 103460019 + Silent SNP G G A rs111947510 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 66.0 21.0 89.0 0.0 0.318182 0 G|0.991;A|0.009 0.009 strong . . . . NM_001204425 exon1 c.G402A p.L134L CAGCCTGGGCAAG . PASS Atlas-SNP SERBP1 26135 hgsc.bcm.edu 37 1 67895758 67895758 + Missense_Mutation SNP T T G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 149.0 50.0 169.0 0.0 0.33557 0 . . none . SERBP1 31 . NM_001018067 exon1 c.A226C p.K76Q GGTCTTTCTGGGA . PASS Atlas-SNP CARHSP1 23589 hgsc.bcm.edu 37 16 8953030 8953030 + Silent SNP C C T rs2231706 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 141.0 63.0 124.0 0.0 0.446809 0 C|0.989;T|0.011 0.011 strong . CARHSP1 12 . NM_001042476 exon2 c.G156A p.S52S TCACGCCGAGAAG . PASS Atlas-SNP GATA2 2624 hgsc.bcm.edu 37 3 128204641 128204641 + Missense_Mutation SNP G G T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 102.0 31.0 94.0 0.0 0.303922 0 . . none . GATA2 122 . NM_001145662 exon3 c.C800A p.P267H CCTCCGGGGTGGA . PASS Atlas-SNP SLC44A3 126969 hgsc.bcm.edu 37 1 95330440 95330440 + Silent SNP C C T rs142406496 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 99.0 51.0 83.0 0.0 0.515152 0 C|0.996;T|0.004 0.004 strong . SLC44A3 109 . NM_001114106 exon11 c.C1380T p.N460N GCAAAACGCACTG . PASS Atlas-SNP PROC 5624 hgsc.bcm.edu 37 2 128178900 128178900 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 127.0 47.0 202.0 0.0 0.370079 0 . . none PROC,colon,carcinoma,-1,1 PROC 31 1 NM_000312 exon3 c.C112T p.R38W GTGCTGCGGATCC . PASS Atlas-SNP ELP3 55140 hgsc.bcm.edu 37 8 27957438 27957438 + Silent SNP C C T rs200001470 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 65.0 27.0 60.0 0.0 0.415385 0 C|1.000;T|0.000 0.000 strong . ELP3 36 . NM_018091 exon3 c.C213T p.V71V CAAGGTCTTGATG . PASS Atlas-SNP PARVB 29780 hgsc.bcm.edu 37 22 44495953 44495953 + Missense_Mutation SNP A A G rs56194750 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 66.0 35.0 79.0 0.0 0.530303 0 A|0.997;G|0.003 0.003 strong . PARVB 44 . NM_001003828 exon4 c.A322G p.M108V CGCACGATGATTG . PASS Atlas-SNP NKTR 4820 hgsc.bcm.edu 37 3 42662976 42662976 + Silent SNP A A C rs35419602 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 78.0 29.0 67.0 0.0 0.371795 0 A|0.988;C|0.012 0.012 strong . NKTR 116 . NM_005385 exon6 c.A342C p.R114R AAATCGAGGGAAA . PASS Atlas-SNP COL24A1 255631 hgsc.bcm.edu 37 1 86488270 86488270 + Missense_Mutation SNP T T G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 166.0 16.0 148.0 0.0 0.0963855 0 . . none . COL24A1 202 . NM_152890 exon17 c.A2153C p.E718A CCTTGTTCACCCT . PASS Atlas-SNP B3GNT5 84002 hgsc.bcm.edu 37 3 182987591 182987591 + Missense_Mutation SNP G G A rs115825683 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 63.0 26.0 69.0 0.0 0.412698 0 G|0.994;A|0.006 0.006 strong . B3GNT5 26 . NM_032047 exon2 c.G5A p.R2K ATATGAGAATGTT . PASS Atlas-SNP GPD2 2820 hgsc.bcm.edu 37 2 157367399 157367399 + Silent SNP G G T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 144.0 107.0 199.0 1.0 0.743056 0.00502513 . . none . GPD2 59 . NM_001083112 exon4 c.G366T p.L122L ATATCTGCAGAAG . PASS Atlas-SNP CASZ1 54897 hgsc.bcm.edu 37 1 10705018 10705018 + Missense_Mutation SNP T T C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 81.0 40.0 103.0 0.0 0.493827 0 . . none . CASZ1 150 . NM_001079843 exon18 c.A3824G p.N1275S AAGCCATTGGCTG . PASS Atlas-SNP VCX3B 425054 hgsc.bcm.edu 37 X 8434346 8434346 + Silent SNP G G A rs808146 bycluster TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 450.0 135.0 326.0 0.0 0.3 0 . . weak . VCX3B 34 . NM_001001888 exon3 c.G663A p.E221E GGTGGAGGAACCA . PASS Atlas-SNP YBX1 4904 hgsc.bcm.edu 37 1 43149084 43149084 + Silent SNP T T C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 104.0 28.0 104.0 0.0 0.269231 0 . . none . YBX1 49 . NM_004559 exon2 c.T177C p.V59V GAAGGTTTTGGGA . PASS Atlas-SNP AKAP3 10566 hgsc.bcm.edu 37 12 4735922 4735922 + Missense_Mutation SNP C C G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 112.0 30.0 98.0 0.0 0.267857 0 . . none . AKAP3 212 . NM_006422 exon4 c.G2146C p.E716Q AGCACTCATATAA . PASS Atlas-SNP DEFB110 245913 hgsc.bcm.edu 37 6 49986738 49986738 + Silent SNP C C T rs115648436 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 132.0 65.0 159.0 0.0 0.492424 0 C|0.991;T|0.009 0.009 strong . DEFB110 5 . NM_001037497 exon2 c.G156A p.R52R AGCAATCCTAATT . PASS Atlas-SNP C1orf127 148345 hgsc.bcm.edu 37 1 11009679 11009679 + Splice_Site SNP G G A rs1281013 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 51.0 29.0 56.0 0.0 0.568627 0 G|0.907;A|0.093 0.093 strong . C1orf127 134 . NM_001170754 exon12 c.1290+2C>T . AGACGTGCTTTGG . PASS Atlas-SNP LIG4 3981 hgsc.bcm.edu 37 13 108861048 108861048 + Missense_Mutation SNP C C T rs2232642 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 79.0 21.0 107.0 0.0 0.265823 0 C|0.958;T|0.042 0.042 strong . LIG4 91 . NM_206937 exon3 c.G2569A p.A857T CCTCAGCTAAACA . PASS Atlas-SNP ATF4 468 hgsc.bcm.edu 37 22 39917561 39917561 + Silent SNP C C T rs375843215 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 100.0 45.0 112.0 0.0 0.45 0 . . weak . ATF4 27 . NM_001675 exon1 c.C111T p.Y37Y TGATTACCTGGAG . PASS Atlas-SNP C1orf127 148345 hgsc.bcm.edu 37 1 11008102 11008102 + Missense_Mutation SNP G G A rs1281018 bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 71.0 37.0 64.0 0.0 0.521127 0 G|0.914;A|0.086 0.086 strong . C1orf127 134 . NM_001170754 exon12 c.C2090T p.A697V AGGGGCGCTGCCA . PASS Atlas-SNP KRTAP16-1 100505753 hgsc.bcm.edu 37 17 39465038 39465038 + Silent SNP A A G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 118.0 35.0 125.0 0.0 0.29661 0 . . none . KRTAP16-1 12 . NM_001146182 exon1 c.T468C p.P156P AATAGCAGGCTCA . PASS Atlas-SNP ALMS1 7840 hgsc.bcm.edu 37 2 73676965 73676965 + Missense_Mutation SNP G G A rs201074268 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 61.0 42.0 64.0 0.0 0.688525 0 G|0.998;A|0.002 0.002 strong . ALMS1 384 . NM_015120 exon8 c.G3308A p.G1103D AGCCTGGTATTTT . PASS Atlas-SNP SLC22A18AS 5003 hgsc.bcm.edu 37 11 2909507 2909507 + Missense_Mutation SNP G G A rs146094810 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 60.0 33.0 49.0 0.0 0.55 0 G|0.998;A|0.002 0.002 strong . SLC22A18AS 7 . NM_007105 exon4 c.C665T p.P222L GGGTTGGGGGGGC . PASS Atlas-SNP SGK1 6446 hgsc.bcm.edu 37 6 134495169 134495169 + Missense_Mutation SNP G G A rs141028225 alternate_allele TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 72.0 21.0 80.0 0.0 0.291667 0 G|1.000;C|0.000 . alt . SGK1 387 . NM_001143676 exon5 c.C487T p.L163F TCATAAGCTCAGG . PASS Atlas-SNP NCAPD2 9918 hgsc.bcm.edu 37 12 6630996 6630996 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 66.0 21.0 70.0 0.0 0.318182 0 . . none NCAPD2,NS,carcinoma,0,1 NCAPD2 99 1 NM_014865 exon15 c.C1747T p.R583W AATCCCCGGGAGT . PASS Atlas-SNP ABCA13 154664 hgsc.bcm.edu 37 7 48312084 48312084 + Missense_Mutation SNP G G C rs78575608 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 120.0 26.0 164.0 0.0 0.216667 0 G|0.974;C|0.026 0.026 strong . ABCA13 1192 . NM_152701 exon17 c.G2821C p.V941L CAAGAAGTTGATA . PASS Atlas-SNP SGK1 6446 hgsc.bcm.edu 37 6 134495154 134495154 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 60.0 12.0 75.0 0.0 0.2 0 . . none SGK1_ENST00000367858,NS,carcinoma,0,5 SGK1 387 5 NM_001143676 exon5 c.C502T p.P168S GAGAAGGGTTGGC . PASS Atlas-SNP CHD1 1105 hgsc.bcm.edu 37 5 98216991 98216991 + Nonsense_Mutation SNP C C A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 183.0 40.0 197.0 0.0 0.218579 0 . . none . CHD1 137 . NM_001270 exon20 c.G2956T p.E986X GGGGCTCTTGTTC . PASS Atlas-SNP TMEM219 124446 hgsc.bcm.edu 37 16 29979376 29979376 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 95.0 7.0 99.0 0.0 0.0736842 0 . . none . TMEM219 10 . NM_001083613 exon4 c.C386T p.T129I TTATCACAGCCAG . PASS Atlas-SNP MLH1 4292 hgsc.bcm.edu 37 3 37053568 37053568 + Missense_Mutation SNP A A G rs1799977 bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 73.0 38.0 81.0 0.0 0.520548 0 A|0.799;G|0.201 0.201 strong MLH1,NS,carcinoma,0,1 MLH1 226 1 NM_000249 exon8 c.A655G p.I219V CGCTCCATCTTTG . PASS Atlas-SNP CHMP5 51510 hgsc.bcm.edu 37 9 33266075 33266075 + Missense_Mutation SNP A A C rs146626883 bycluster;byfrequency TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 73.0 29.0 72.0 0.0 0.39726 0 A|0.999;C|0.001 0.001 strong CHMP5,rectum,carcinoma,-1,1 CHMP5 15 1 NM_016410 exon2 c.A137C p.K46T AGTATAAGGATCA . PASS Atlas-SNP MMP24 10893 hgsc.bcm.edu 37 20 33842284 33842284 + Missense_Mutation SNP C C A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 57.0 15.0 72.0 0.0 0.263158 0 . . none . MMP24 35 . NM_006690 exon4 c.C544A p.L182I GGTGAGCTAGACA . PASS Atlas-SNP GALNTL6 442117 hgsc.bcm.edu 37 4 173269737 173269737 + Silent SNP T T C rs114177519 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 148.0 78.0 111.0 0.0 0.527027 0 T|0.994;C|0.006 0.006 strong . GALNTL6 102 . NM_001034845 exon5 c.T450C p.N150N TCATAATGAAGGT . PASS Atlas-SNP C1orf127 148345 hgsc.bcm.edu 37 1 11008594 11008594 + Missense_Mutation SNP A A T rs1281016 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 159.0 83.0 126.0 0.0 0.522013 0 A|0.922;T|0.078 0.078 strong . C1orf127 134 . NM_001170754 exon12 c.T1598A p.V533D CCTGAGACCAGAA . PASS Atlas-SNP ABCG8 64241 hgsc.bcm.edu 37 2 44073405 44073405 + Missense_Mutation SNP T T C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 109.0 26.0 115.0 0.0 0.238532 0 . . none . ABCG8 98 . NM_022437 exon3 c.T277C p.F93L CTAAGCTTCAAAG . PASS Atlas-SNP AKAP8L 26993 hgsc.bcm.edu 37 19 15491357 15491357 + Missense_Mutation SNP T T C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 93.0 48.0 98.0 0.0 0.516129 0 . . none . AKAP8L 64 . NM_014371 exon13 c.A1603G p.I535V TGCTGATGAGCTT . PASS Atlas-SNP C17orf74 201243 hgsc.bcm.edu 37 17 7330307 7330307 + Missense_Mutation SNP C C T rs146528431 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 61.0 41.0 77.0 0.0 0.672131 0 C|0.995;T|0.005 0.005 strong . C17orf74 56 . NM_175734 exon3 c.C997T p.R333W AACGCCCGGCCTG . PASS Atlas-SNP PTPN3 5774 hgsc.bcm.edu 37 9 112145817 112145817 + Silent SNP C C T rs146869100 bycluster;byfrequency TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 79.0 41.0 82.0 0.0 0.518987 0 C|0.998;T|0.002 0.002 strong . PTPN3 106 . NM_002829 exon23 c.G2268A p.Q756Q CCAGTACTGGTGA . PASS Atlas-SNP ZP3 7784 hgsc.bcm.edu 37 7 76062798 76062798 + Missense_Mutation SNP G G A rs74676082 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 21.0 13.0 39.0 0.0 0.619048 0 G|0.996;A|0.004 0.004 strong . ZP3 32 . NM_001110354 exon4 c.G547A p.A183T TGGAACGCTGAGA . PASS Atlas-SNP PUS3 83480 hgsc.bcm.edu 37 11 125764156 125764156 + Missense_Mutation SNP A A C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 62.0 8.0 33.0 0.0 0.129032 0 . . none . PUS3 33 . NM_031307 exon4 c.T970G p.L324V CATATAAGACTAG . PASS Atlas-SNP TENM1 10178 hgsc.bcm.edu 37 X 123539063 123539063 + Missense_Mutation SNP A A C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 60.0 25.0 39.0 0.0 0.416667 0 . . none . . . . NM_001163278 exon27 c.T5209G p.F1737V TGGCAAAAGTGAC . PASS Atlas-SNP FLG 2312 hgsc.bcm.edu 37 1 152275921 152275921 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 156.0 57.0 161.0 0.0 0.365385 0 . . none FLG,NS,carcinoma,0,1 FLG 900 1 NM_002016 exon3 c.G11441A p.R3814H TCATTACGTGTTT . PASS Atlas-SNP ND4 0 hgsc.bcm.edu 37 MT 11044 11044 + Silent SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 6.0 6.0 10.0 0.0 1 0 . . none . . . . ENST00000361381 exon1 c.C285T p.Y95Y ACTCTACCTCTCT . PASS Atlas-SNP SSC5D 284297 hgsc.bcm.edu 37 19 56011279 56011279 + Missense_Mutation SNP C C T rs35651406 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 48.0 26.0 40.0 0.0 0.541667 0 C|0.997;T|0.003 0.003 strong . SSC5D 65 . NM_001195267 exon10 c.C1802T p.A601V AGCTGGCCACCAA . PASS Atlas-SNP DTNB 1838 hgsc.bcm.edu 37 2 25611102 25611102 + Silent SNP G G A rs200383554 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 36.0 22.0 45.0 0.0 0.611111 0 G|1.000;A|0.000 0.000 strong . DTNB 43 . NM_021907 exon17 c.C1704T p.V568V TCCCCCGACTCCG . PASS Atlas-SNP LIG4 3981 hgsc.bcm.edu 37 13 108862810 108862810 + Silent SNP G G A rs2232638 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 72.0 14.0 103.0 0.0 0.194444 0 G|0.956;A|0.044 0.044 strong . LIG4 91 . NM_206937 exon3 c.C807T p.Y269Y TTCTATGTAGAAA . PASS Atlas-SNP ZP3 7784 hgsc.bcm.edu 37 7 76062913 76062913 + Missense_Mutation SNP C C G rs139729790 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 59.0 26.0 74.0 0.0 0.440678 0 C|0.991;G|0.009 0.009 strong ZP3_ENST00000394857,NS,lymphoid_neoplasm,0,2 ZP3 32 2 NM_001110354 exon4 c.C662G p.P221R CCACACCGACACC . PASS Atlas-SNP JAK1 3716 hgsc.bcm.edu 37 1 65312343 65312343 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 73.0 20.0 94.0 0.0 0.273973 0 . . none JAK1,NS,malignant_melanoma,0,1 JAK1 209 1 NM_002227 exon14 c.G1976A p.R659H ACGTCGCGGACAC . PASS Atlas-SNP PTPN12 5782 hgsc.bcm.edu 37 7 77267956 77267956 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 101.0 47.0 128.0 0.0 0.465347 0 . . none . PTPN12 83 . NM_002835 exon17 c.G2189A p.G730D CGGGAGGTATTCA . PASS Atlas-SNP CYP3A4 1576 hgsc.bcm.edu 37 7 99358604 99358604 + Silent SNP T T C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 240.0 102.0 270.0 1.0 0.425 0.0037037 . . none . CYP3A4 56 . NM_017460 exon12 c.A1254G p.R418R GCTGAATCTGGTT . PASS Atlas-SNP ABCA2 20 hgsc.bcm.edu 37 9 139904722 139904722 + Silent SNP C C T rs34125425 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 63.0 30.0 60.0 0.0 0.47619 0 C|0.984;T|0.016 0.016 strong . ABCA2 113 . NM_212533 exon41 c.G6366A p.A2122A CTTGCCCGCACCG . PASS Atlas-SNP P4HA2 8974 hgsc.bcm.edu 37 5 131539462 131539462 + Silent SNP T T C rs144253110 bycluster;byfrequency TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 136.0 64.0 118.0 0.0 0.470588 0 T|0.999;C|0.001 0.001 strong . P4HA2 72 . NM_001017974 exon10 c.A1230G p.V410V AGTCTTTACTGTT . PASS Atlas-SNP LTBP1 4052 hgsc.bcm.edu 37 2 33172827 33172827 + Missense_Mutation SNP G G A rs147166401 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 67.0 39.0 84.0 0.0 0.58209 0 G|0.992;A|0.008 0.008 strong . LTBP1 317 . NM_206943 exon1 c.G436A p.E146K CCGCAGGAGACCC . PASS Atlas-SNP GLRA4 441509 hgsc.bcm.edu 37 X 102974119 102974119 + Silent SNP G G A rs41300882 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 196.0 141.0 128.0 0.0 0.719388 0 G|0.995;A|0.005 0.005 strong . GLRA4 86 . NM_001024452 exon7 c.C799T p.L267L TGAGTAGGCTGGG . PASS Atlas-SNP TUB 7275 hgsc.bcm.edu 37 11 8119298 8119298 + Missense_Mutation SNP A A G rs55892969 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 106.0 59.0 112.0 0.0 0.556604 0 A|0.983;G|0.017 0.017 strong . TUB 71 . NM_003320 exon9 c.A1088G p.K363R AGAGTAAAACTTC . PASS Atlas-SNP UNC13B 10497 hgsc.bcm.edu 37 9 35399243 35399243 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 186.0 8.0 223.0 0.0 0.0430108 0 . . none . UNC13B 153 . NM_006377 exon33 c.G3913A p.E1305K ACAATGGAGAGGA . PASS Atlas-SNP TXN2 25828 hgsc.bcm.edu 37 22 36872873 36872873 + Silent SNP C C T rs150502647 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 138.0 67.0 120.0 0.0 0.485507 0 C|0.993;T|0.007 0.007 strong . TXN2 15 . NM_012473 exon3 c.G294A p.P98P TAACCTCGGCCCC . PASS Atlas-SNP OR10G9 219870 hgsc.bcm.edu 37 11 123893757 123893757 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 239.0 25.0 199.0 0.0 0.104603 0 . . none OR10G9,NS,carcinoma,0,2 OR10G9 80 2 NM_001001953 exon1 c.C38T p.T13M TCCTCACGGGCCT . scavenged Atlas-SNP TAS2R43 259289 hgsc.bcm.edu 37 12 11244199 11244199 + Missense_Mutation SNP C C G rs201245949 bycluster;byfrequency TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 103.0 12.0 26.0 0.0 0.116505 0 C|0.994;G|0.006 0.006 strong . TAS2R43 19 . NM_176884 exon1 c.G630C p.Q210H ATGGAGCTGCATC . PASS Atlas-SNP KIF13B 23303 hgsc.bcm.edu 37 8 29033628 29033628 + Missense_Mutation SNP T T G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 61.0 3.0 81.0 0.0 0.0491803 0 . . none KIF13B_ENST00000524189,colon,carcinoma,+1,2 KIF13B 192 2 NM_015254 exon10 c.A902C p.K301T ACAAATTTATTCT . scavenged Atlas-SNP DIS3 22894 hgsc.bcm.edu 37 13 73340177 73340177 + Missense_Mutation SNP G G A rs35017269 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 25.0 15.0 23.0 0.0 0.6 0 G|0.989;A|0.011 0.011 strong . DIS3 103 . NM_014953 exon15 c.C1903T p.P635S CTTCAGGAGAGGA . PASS Atlas-SNP ABCC4 10257 hgsc.bcm.edu 37 13 95696540 95696540 + Silent SNP C C T rs11568695 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 126.0 72.0 95.0 0.0 0.571429 0 C|0.950;T|0.050 0.050 strong ABCC4_ENST00000376887,colon,carcinoma,-1,2 ABCC4 248 2 NM_005845 exon28 c.G3609A p.A1203A TGCCGTCGCTTCA . PASS Atlas-SNP SUV39H1 6839 hgsc.bcm.edu 37 X 48558888 48558888 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 94.0 52.0 86.0 0.0 0.553191 0 . . none . SUV39H1 36 . NM_003173 exon3 c.C572T p.T191I CACCCACTGGAGG . PASS Atlas-SNP CSDE1 7812 hgsc.bcm.edu 37 1 115272916 115272916 + Missense_Mutation SNP T T C rs149300730 bycluster TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 108.0 39.0 100.0 0.0 0.361111 0 T|1.000;C|0.000 0.000 weak . CSDE1 145 . NM_001242891 exon13 c.A1457G p.N486S TTAGGATTGGAAA . PASS Atlas-SNP NAA15 80155 hgsc.bcm.edu 37 4 140264020 140264020 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 128.0 40.0 137.0 0.0 0.3125 0 . . none . NAA15 88 . NM_057175 exon5 c.G443A p.R148K CGCAGAGAGCATC . PASS Atlas-SNP PSG11 5680 hgsc.bcm.edu 37 19 43519324 43519324 + Missense_Mutation SNP G G A rs139355393 bycluster TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 102.0 49.0 120.0 0.0 0.480392 0 G|1.000;A|0.000 0.000 weak . PSG11 57 . NM_002785 exon4 c.C908T p.A303V TTACGAGCAGAGC . PASS Atlas-SNP UHRF2 115426 hgsc.bcm.edu 37 9 6413515 6413515 + Missense_Mutation SNP G G C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 77.0 14.0 87.0 0.0 0.181818 0 . . none UHRF2,NS,carcinoma,-1,1 UHRF2 50 1 NM_152896 exon1 c.G25C p.D9H ACCATTGATGGCT . PASS Atlas-SNP FAM83H 286077 hgsc.bcm.edu 37 8 144808953 144808953 + Missense_Mutation SNP G G T rs200179667 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 47.0 22.0 62.0 0.0 0.468085 0 G|0.999;T|0.001 0.001 strong . FAM83H 68 . NM_198488 exon5 c.C2678A p.P893Q GTAGTTGGACTTC . PASS Atlas-SNP ART5 116969 hgsc.bcm.edu 37 11 3660238 3660238 + Missense_Mutation SNP G G A rs142998376 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 73.0 33.0 83.0 0.0 0.452055 0 G|0.998;A|0.002 0.002 strong . ART5 38 . NM_053017 exon3 c.C815T p.A272V CCTGGCGCAGACA . PASS Atlas-SNP DHX34 9704 hgsc.bcm.edu 37 19 47858526 47858526 + Silent SNP C C T rs138629177 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 105.0 53.0 122.0 0.0 0.504762 0 C|1.000;T|0.000 0.000 weak . DHX34 98 . NM_014681 exon3 c.C936T p.A312A GTCGGCCACCATC . PASS Atlas-SNP BCL9 607 hgsc.bcm.edu 37 1 147090956 147090956 + Missense_Mutation SNP C C T rs61751616 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 46.0 23.0 25.0 0.0 0.5 0 C|0.990;T|0.010 0.010 strong . BCL9 150 . NM_004326 exon8 c.C995T p.P332L CCCCTCCGCCTCC . PASS Atlas-SNP KRTAP27-1 643812 hgsc.bcm.edu 37 21 31709723 31709723 + Silent SNP A A C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 230.0 45.0 157.0 0.0 0.195652 0 . . none . KRTAP27-1 53 . NM_001077711 exon1 c.T264G p.T88T GGAGTAAGTAGTT . PASS Atlas-SNP KIAA0146 23514 hgsc.bcm.edu 37 8 48612997 48612997 + Missense_Mutation SNP T T A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 103.0 10.0 119.0 0.0 0.0970874 0 . . none . KIAA0146 64 . NM_001080394 exon12 c.T1718A p.L573Q ACACCCTGTGGCC . PASS Atlas-SNP DNHD1 144132 hgsc.bcm.edu 37 11 6578788 6578788 + Missense_Mutation SNP C C T rs111982303 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 62.0 38.0 71.0 0.0 0.612903 0 C|0.988;T|0.012 0.012 strong . DNHD1 198 . NM_144666 exon25 c.C8263T p.P2755S ATAGGACCAGTAA . PASS Atlas-SNP C17orf70 80233 hgsc.bcm.edu 37 17 79517729 79517729 + Missense_Mutation SNP G G A rs62076033 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 79.0 36.0 83.0 0.0 0.455696 0 G|0.997;A|0.003 0.003 strong . C17orf70 79 . NM_025161 exon3 c.C791T p.A264V CCAGGGGCTGACC . PASS Atlas-SNP PPP2R1B 5519 hgsc.bcm.edu 37 11 111637053 111637053 + Silent SNP T T C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 35.0 17.0 25.0 0.0 0.485714 0 . . none . PPP2R1B 44 . NM_001177562 exon1 c.A33G p.P11P TGCTCCTGGGCCG . PASS Atlas-SNP MYO9A 4649 hgsc.bcm.edu 37 15 72189925 72189925 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 192.0 52.0 229.0 0.0 0.270833 0 . . none . MYO9A 203 . NM_006901 exon25 c.G4919A p.R1640H GAAATGCGATTAT . PASS Atlas-SNP UTP20 27340 hgsc.bcm.edu 37 12 101779435 101779435 + Silent SNP T T C rs149160478 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 95.0 49.0 97.0 0.0 0.515789 0 T|1.000;C|0.000 0.000 weak . UTP20 222 . NM_014503 exon61 c.T8131C p.L2711L TTCTCATTAGCCT . PASS Atlas-SNP SGK1 6446 hgsc.bcm.edu 37 6 134495674 134495674 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 45.0 7.0 71.0 0.0 0.155556 0 . . none . SGK1 387 . NM_001143676 exon4 c.G412A p.A138T TATTGGCAATCTT . PASS Atlas-SNP TREML2 79865 hgsc.bcm.edu 37 6 41166063 41166063 + Missense_Mutation SNP C C A rs147506354 bycluster;byfrequency TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 72.0 59.0 75.0 0.0 0.819444 0 C|0.998;A|0.002 0.002 strong . TREML2 41 . NM_024807 exon2 c.G160T p.V54F ACCAAACCTTGCC . PASS Atlas-SNP RXFP2 122042 hgsc.bcm.edu 37 13 32367033 32367033 + Missense_Mutation SNP C C G rs138951290 bycluster;byfrequency TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 138.0 67.0 114.0 0.0 0.485507 0 C|0.999;G|0.001 0.001 strong RXFP2,NS,carcinoma,0,1 RXFP2 95 1 NM_130806 exon16 c.C1594G p.R532G AACATTCGACCTG . PASS Atlas-SNP NOP58 51602 hgsc.bcm.edu 37 2 203157538 203157538 + Silent SNP A A G rs16839032 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 132.0 66.0 116.0 0.0 0.5 0 A|0.989;G|0.011 0.011 strong NOP58,NS,carcinoma,0,1 NOP58 41 1 NM_015934 exon9 c.A819G p.E273E CTATGAATATCTA . PASS Atlas-SNP RABGGTB 5876 hgsc.bcm.edu 37 1 76260248 76260248 + Missense_Mutation SNP A A C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 78.0 20.0 72.0 0.0 0.25641 0 . . none . RABGGTB 37 . NM_004582 exon9 c.A909C p.E303D GGGAGAAGAACAG . PASS Atlas-SNP TNF 7124 hgsc.bcm.edu 37 6 31543607 31543607 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 43.0 7.0 71.0 0.0 0.162791 0 . . none . TNF 15 . NM_000594 exon1 c.G89A p.C30Y GGCGGTGCTTGTT . PASS Atlas-SNP HBE1 3046 hgsc.bcm.edu 37 11 5289816 5289816 + Silent SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 54.0 6.0 49.0 0.0 0.111111 0 . . none . HBE1 42 . NM_005330 exon3 c.C327T p.N109N CATCACGTTACCC . PASS Atlas-SNP BTG2 7832 hgsc.bcm.edu 37 1 203274836 203274836 + Silent SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 110.0 30.0 125.0 0.0 0.272727 0 . . none . BTG2 16 . NM_006763 exon1 c.G102A p.R34R GCAGAGGCTTAAG . PASS Atlas-SNP NUDC 10726 hgsc.bcm.edu 37 1 27268110 27268110 + Missense_Mutation SNP A A C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 105.0 6.0 84.0 0.0 0.0571429 0 . . none . NUDC 15 . NM_006600 exon3 c.A322C p.T108P GAGCTAACTGATG . PASS Atlas-SNP EFCAB7 84455 hgsc.bcm.edu 37 1 64011657 64011657 + Missense_Mutation SNP A A G rs41313264 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 170.0 75.0 164.0 0.0 0.441176 0 A|0.993;G|0.007 0.007 strong . EFCAB7 45 . NM_032437 exon7 c.A875G p.Y292C ATCAGTACAGGAT . PASS Atlas-SNP HPSE2 60495 hgsc.bcm.edu 37 10 100481475 100481475 + Missense_Mutation SNP C C T rs142102360 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 52.0 21.0 61.0 0.0 0.403846 0 C|0.997;T|0.003 0.003 strong . HPSE2 203 . NM_001166246 exon5 c.G895A p.A299T AGCTGGCTCTGGA . PASS Atlas-SNP NPAS2 4862 hgsc.bcm.edu 37 2 101606810 101606810 + Silent SNP G G A rs1053091 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 108.0 43.0 105.0 0.0 0.398148 0 G|0.989;A|0.011 0.011 strong . NPAS2 88 . NM_002518 exon18 c.G1920A p.A640A AGCTGCGCTCCCG . PASS Atlas-SNP COX3 5742 hgsc.bcm.edu 37 MT 9932 9932 + Silent SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 8.0 8.0 4.0 0.0 1 0 . . none . . . . ENST00000362079 exon1 c.G726A p.W242W ATACTGGCATTTT . PASS Atlas-SNP CERS6 253782 hgsc.bcm.edu 37 2 169312974 169312974 + Missense_Mutation SNP G G A rs4496303 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 72.0 36.0 75.0 0.0 0.5 0 A|0.008;G|0.990;T|0.002 0.008 strong . . . . NM_001256126 exon1 c.G16A p.A6T ATCTTAGCCTGGT . PASS Atlas-SNP MASTL 84930 hgsc.bcm.edu 37 10 27462061 27462061 + Silent SNP G G A rs41282228 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 66.0 31.0 52.0 0.0 0.469697 0 G|0.989;A|0.011 0.011 strong . MASTL 81 . NM_001172303 exon9 c.G2139A p.Q713Q AAATCAGATCAAG . PASS Atlas-SNP TUBGCP3 10426 hgsc.bcm.edu 37 13 113140350 113140350 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 150.0 101.0 154.0 0.0 0.673333 0 . . none . TUBGCP3 74 . NM_006322 exon22 c.G2681A p.R894H GACACACGGAGCC . PASS Atlas-SNP GDF9 2661 hgsc.bcm.edu 37 5 132200000 132200000 + Missense_Mutation SNP A A C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 100.0 13.0 95.0 0.0 0.13 0 . . none . GDF9 50 . NM_005260 exon1 c.T226G p.S76A TAGGTGACCCACC . PASS Atlas-SNP DNAJA4 55466 hgsc.bcm.edu 37 15 78565495 78565495 + Silent SNP G G A rs74978019 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 255.0 113.0 234.0 1.0 0.443137 0.0042735 G|0.997;A|0.003 0.003 strong DNAJA4_ENST00000446172,NS,carcinoma,+1,2 DNAJA4 63 2 NM_018602 exon4 c.G459A p.T153T AGTCACGAAGAAA . PASS Atlas-SNP SNX5 27131 hgsc.bcm.edu 37 20 17949050 17949050 + Silent SNP A A G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 63.0 16.0 114.0 2.0 0.253968 0.0175439 . . none SNX5,NS,lymphoid_neoplasm,+2,1 SNX5 38 1 NM_014426 exon1 c.T19C p.L7L GCAGCAACTCGGG . scavenged Atlas-SNP BAI3 577 hgsc.bcm.edu 37 6 69348966 69348966 + Silent SNP A A C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 43.0 9.0 36.0 0.0 0.209302 0 . . none BAI3,NS,carcinoma,+1,1 BAI3 451 1 NM_001704 exon3 c.A399C p.V133V TCGAGTATTTCCA . scavenged Atlas-SNP OR10J1 26476 hgsc.bcm.edu 37 1 159410258 159410258 + Missense_Mutation SNP A A C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 226.0 69.0 229.0 0.0 0.30531 0 . . none OR10J1,NS,carcinoma,0,1 OR10J1 118 1 NM_012351 exon1 c.A710C p.K237T TCCTCAAGATTGC . PASS Atlas-SNP SGK1 6446 hgsc.bcm.edu 37 6 134494655 134494655 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 85.0 16.0 81.0 0.0 0.188235 0 . . none . SGK1 387 . NM_001143676 exon6 c.C563T p.A188V GGTTTAGCATGAG . PASS Atlas-SNP LRRC16B 90668 hgsc.bcm.edu 37 14 24534916 24534916 + Missense_Mutation SNP G G T rs79328356 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 64.0 33.0 68.0 0.0 0.515625 0 G|0.958;T|0.042 0.042 strong LRRC16B,NS,carcinoma,+1,1 LRRC16B 120 1 NM_138360 exon34 c.G3482T p.G1161V TTCCCGGGTTGGA . PASS Atlas-SNP CSNK1A1 1452 hgsc.bcm.edu 37 5 148904609 148904609 + Missense_Mutation SNP T T A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 261.0 18.0 212.0 0.0 0.0689655 0 . . none . CSNK1A1 63 . NM_001025105 exon3 c.A356T p.Q119L CATACCTGGTCAG . PASS Atlas-SNP STRN3 29966 hgsc.bcm.edu 37 14 31404490 31404490 + Silent SNP A A C rs149753992 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 80.0 37.0 77.0 0.0 0.4625 0 A|1.000;C|0.000 0.000 weak . STRN3 117 . NM_001083893 exon7 c.T867G p.A289A GTCAGCAGCTAAA . PASS Atlas-SNP FAM53B 9679 hgsc.bcm.edu 37 10 126370517 126370517 + Missense_Mutation SNP G G C rs147832040 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 71.0 40.0 76.0 0.0 0.56338 0 G|0.998;C|0.002 0.002 strong . FAM53B 22 . NM_014661 exon4 c.C565G p.R189G CAAATCGGTGGTG . PASS Atlas-SNP CCDC135 84229 hgsc.bcm.edu 37 16 57760115 57760115 + Missense_Mutation SNP C C A rs143054335 bycluster;byfrequency TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 154.0 64.0 157.0 0.0 0.415584 0 C|1.000;A|0.000 0.000 strong CCDC135,NS,carcinoma,0,1 CCDC135 97 1 NM_032269 exon13 c.C1894A p.R632S TCCAAGCGCGAGT . PASS Atlas-SNP HMCN1 83872 hgsc.bcm.edu 37 1 186121996 186121996 + Missense_Mutation SNP C C T rs114629728 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 168.0 72.0 156.0 0.0 0.428571 0 C|0.996;T|0.004 0.004 strong . HMCN1 797 . NM_031935 exon96 c.C15011T p.T5004I AAGTCACTGTAAA . PASS Atlas-SNP CDH15 1013 hgsc.bcm.edu 37 16 89260195 89260195 + Silent SNP G G A rs62068507 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 13.0 7.0 20.0 0.0 0.538462 0 G|0.995;A|0.005 0.005 strong . CDH15 54 . NM_004933 exon13 c.G2025A p.P675P TCACCCGACAGCG . PASS Atlas-SNP CRIP1 1396 hgsc.bcm.edu 37 14 105954687 105954687 + Missense_Mutation SNP G G T rs7824 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 110.0 57.0 123.0 0.0 0.518182 0 C|0.064;G|0.923;T|0.013 0.013 strong . CRIP1 1 . NM_001311 exon4 c.G155T p.C52F CCTACTGCAACCA . PASS Atlas-SNP CLUL1 27098 hgsc.bcm.edu 37 18 618015 618015 + Silent SNP C C G rs116985056 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 91.0 30.0 109.0 0.0 0.32967 0 C|0.999;G|0.001 0.001 strong . CLUL1 57 . NM_199167 exon2 c.C15G p.L5L GCCACTCTTGGTG . PASS Atlas-SNP F2 2147 hgsc.bcm.edu 37 11 46751059 46751059 + Silent SNP G G A rs5900 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 48.0 27.0 37.0 0.0 0.5625 0 A|0.014;C|0.000;G|0.986 0.014 strong . F2 75 . NM_000506 exon12 c.G1602A p.P534P GCGGCCGGTCTGC . PASS Atlas-SNP FYCO1 79443 hgsc.bcm.edu 37 3 46008011 46008011 + Missense_Mutation SNP C C G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 135.0 71.0 147.0 0.0 0.525926 0 . . none . FYCO1 115 . NM_024513 exon8 c.G2815C p.A939P AGGCTGCCTCTTT . PASS Atlas-SNP BAZ2B 29994 hgsc.bcm.edu 37 2 160182374 160182374 + Missense_Mutation SNP T T C rs148382881 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 103.0 20.0 132.0 0.0 0.194175 0 T|0.987;C|0.013 0.013 strong . BAZ2B 196 . NM_013450 exon35 c.A5999G p.N2000S GACTCATTAGTCT . PASS Atlas-SNP EPPK1 83481 hgsc.bcm.edu 37 8 144942794 144942794 + Missense_Mutation SNP G G A rs373737061 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 82.0 44.0 66.0 0.0 0.536585 0 . . weak EPPK1,NS,carcinoma,0,1 EPPK1 199 1 NM_031308 exon1 c.C4628T p.T1543M TCCAGCGTCTTCC . PASS Atlas-SNP GALNT8 26290 hgsc.bcm.edu 37 12 4854722 4854722 + Missense_Mutation SNP G G A rs201387598 bycluster TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 94.0 43.0 111.0 0.0 0.457447 0 G|0.999;A|0.001 0.001 weak . GALNT8 89 . NM_017417 exon5 c.G988A p.E330K AACTGGGAACTCT . PASS Atlas-SNP PDCD11 22984 hgsc.bcm.edu 37 10 105160184 105160184 + Missense_Mutation SNP A A G rs150893869 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 17.0 10.0 23.0 0.0 0.588235 0 A|0.995;G|0.005 0.005 strong . PDCD11 160 . NM_014976 exon3 c.A133G p.K45E AAAAGAAAAAAGA . PASS Atlas-SNP TLN2 83660 hgsc.bcm.edu 37 15 63131091 63131091 + Missense_Mutation SNP C C T rs140301741 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 58.0 31.0 62.0 0.0 0.534483 0 C|0.998;T|0.002 0.002 strong . TLN2 253 . NM_015059 exon55 c.C7411T p.L2471F GACAATCTTGTCC . PASS Atlas-SNP RHPN2 85415 hgsc.bcm.edu 37 19 33517507 33517507 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 23.0 2.0 15.0 0.0 0.0869565 0 . . none RHPN2,face,carcinoma,0,2 RHPN2 107 2 NM_033103 exon3 c.G217A p.V73M GCCGCACTTGCTC . scavenged Atlas-SNP LEMD3 23592 hgsc.bcm.edu 37 12 65563416 65563416 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 63.0 9.0 66.0 0.0 0.142857 0 . . none . LEMD3 68 . NM_001167614 exon1 c.G40A p.D14N CTCTCGGATGAGG . PASS Atlas-SNP USH1C 10083 hgsc.bcm.edu 37 11 17527386 17527386 + Silent SNP A A G rs369021714 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 80.0 41.0 74.0 0.0 0.5125 0 . . weak . USH1C 157 . NM_153676 exon19 c.T2124C p.S708S AACTTCAGATTTC . PASS Atlas-SNP FRMD1 79981 hgsc.bcm.edu 37 6 168458002 168458002 + Silent SNP G G A rs55991596 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 72.0 37.0 77.0 0.0 0.513889 0 G|0.958;A|0.042 0.042 strong . FRMD1 52 . NM_024919 exon11 c.C1425T p.A475A GACCCCGGCTGTC . PASS Atlas-SNP CD109 135228 hgsc.bcm.edu 37 6 74481186 74481186 + Missense_Mutation SNP C C T rs41266745 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 43.0 23.0 57.0 0.0 0.534884 0 C|0.998;T|0.002 0.002 strong . CD109 170 . NM_133493 exon15 c.C1709T p.P570L CTGAACCATCTGA . PASS Atlas-SNP LARS 51520 hgsc.bcm.edu 37 5 145522992 145522992 + Silent SNP C C T rs146906828 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 88.0 45.0 79.0 0.0 0.511364 0 C|0.997;T|0.003 0.003 strong . LARS 100 . NM_020117 exon19 c.G1860A p.E620E CGGAGACTCTGCC . PASS Atlas-SNP CARD14 79092 hgsc.bcm.edu 37 17 78157961 78157961 + Missense_Mutation SNP G G A rs114688446 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 73.0 34.0 68.0 0.0 0.465753 0 A|0.001;G|0.994;T|0.005 0.001 strong . CARD14 98 . NM_024110 exon4 c.G599A p.S200N TGCTCAGCCTCTC . PASS Atlas-SNP RGS1 5996 hgsc.bcm.edu 37 1 192545417 192545417 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 178.0 43.0 182.0 0.0 0.241573 0 . . none . RGS1 75 . NM_002922 exon2 c.G140A p.G47E GTAGTGGAATGGA . PASS Atlas-SNP TULP4 56995 hgsc.bcm.edu 37 6 158923378 158923378 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 82.0 4.0 87.0 0.0 0.0487805 0 . . none . TULP4 137 . NM_020245 exon13 c.G2683A p.G895S AGCAGTGGCAACG . PASS Atlas-SNP CCDC80 151887 hgsc.bcm.edu 37 3 112356977 112356977 + Silent SNP T T C rs35149092 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 233.0 116.0 239.0 0.0 0.497854 0 T|0.996;C|0.004 0.004 strong . CCDC80 100 . NM_199511 exon2 c.A1776G p.E592E ATCCTGTTCTGTT . PASS Atlas-SNP DPCR1 135656 hgsc.bcm.edu 37 6 30919798 30919798 + Missense_Mutation SNP A A C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 45.0 16.0 25.0 0.0 0.355556 0 . . none . DPCR1 99 . NM_080870 exon2 c.A3557C p.K1186T CAGAAAAGCCTAC . PASS Atlas-SNP KTN1 3895 hgsc.bcm.edu 37 14 56119783 56119783 + Missense_Mutation SNP G G A rs139730003 bycluster TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 163.0 75.0 154.0 0.0 0.460123 0 G|1.000;A|0.000 0.000 weak . KTN1 147 . NM_004986 exon27 c.G2743A p.A915T GAAGTAGCACAAC . PASS Atlas-SNP AGGF1 55109 hgsc.bcm.edu 37 5 76331449 76331449 + Missense_Mutation SNP G G A rs34203073 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 244.0 105.0 208.0 2.0 0.430328 0.00961538 G|0.986;A|0.014 0.014 strong AGGF1,colon,carcinoma,0,1 AGGF1 71 1 NM_018046 exon3 c.G397A p.E133K GCTATCGAAACTT . scavenged Atlas-SNP EPG5 57724 hgsc.bcm.edu 37 18 43514856 43514856 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 140.0 60.0 120.0 0.0 0.428571 0 . . none . EPG5 199 . NM_020964 exon11 c.C2176T p.L726F GCATGAGGTAGAA . PASS Atlas-SNP MCCC1 56922 hgsc.bcm.edu 37 3 182804555 182804555 + Missense_Mutation SNP C C T rs375244642 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 60.0 28.0 80.0 0.0 0.466667 0 . . weak . MCCC1 87 . NM_020166 exon4 c.G295A p.G99S CGGGGCCGATGGA . PASS Atlas-SNP PCDHB11 56125 hgsc.bcm.edu 37 5 140580963 140580963 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 150.0 59.0 203.0 0.0 0.393333 0 . . none . PCDHB11 162 . NM_018931 exon1 c.C1616T p.P539L GCTCCCCGGCTTT . PASS Atlas-SNP OR2T1 26696 hgsc.bcm.edu 37 1 248570057 248570057 + Silent SNP T T C rs138375160 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 157.0 73.0 181.0 0.0 0.464968 0 T|0.994;C|0.006 0.006 strong . OR2T1 89 . NM_030904 exon1 c.T762C p.V254V CTGTGTTTTGATG . PASS Atlas-SNP ALB 213 hgsc.bcm.edu 37 4 74280774 74280774 + Silent SNP A A C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 125.0 30.0 98.0 0.0 0.24 0 . . none . ALB 132 . NM_000477 exon9 c.A1081C p.R361R GCAAGAAGGCATC . PASS Atlas-SNP SF3B1 23451 hgsc.bcm.edu 37 2 198270136 198270136 + Missense_Mutation SNP T T C rs367701030 alternate_allele TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 156.0 44.0 177.0 0.0 0.282051 0 . . alt . SF3B1 1038 . NM_012433 exon10 c.A1300G p.T434A TTGGAGTAGCTGT . PASS Atlas-SNP SLC22A18AS 5003 hgsc.bcm.edu 37 11 2909573 2909573 + Missense_Mutation SNP G G A rs139893801 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 64.0 33.0 60.0 0.0 0.515625 0 G|0.999;A|0.001 0.001 strong . SLC22A18AS 7 . NM_007105 exon4 c.C599T p.T200I CGTCCTGTCATTC . PASS Atlas-SNP APLF 200558 hgsc.bcm.edu 37 2 68765205 68765205 + Missense_Mutation SNP C C T rs13404469 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 123.0 91.0 173.0 0.0 0.739837 0 C|0.910;T|0.090 0.090 strong . APLF 69 . NM_173545 exon7 c.C1006T p.L336F GACTCACTTCAGG . PASS Atlas-SNP OR12D3 81797 hgsc.bcm.edu 37 6 29342271 29342271 + Missense_Mutation SNP G G A rs369042428 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 106.0 29.0 124.0 0.0 0.273585 0 . . weak . OR12D3 55 . NM_030959 exon1 c.C794T p.T265I ATGGAGGTGGCTG . PASS Atlas-SNP EEF1D 1936 hgsc.bcm.edu 37 8 144671955 144671955 + Silent SNP C C T rs61757370 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 55.0 29.0 53.0 0.0 0.527273 0 C|0.987;T|0.013 0.013 strong . EEF1D 48 . NM_001130053 exon3 c.G297A p.A99A CAGGTCCGCGGGG . PASS Atlas-SNP ATP2A1 487 hgsc.bcm.edu 37 16 28898778 28898778 + Silent SNP C C G rs113803159 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 69.0 39.0 65.0 0.0 0.565217 0 C|0.995;G|0.005 0.005 strong . ATP2A1 116 . NM_004320 exon8 c.C663G p.G221G CTTGGGCATCGTG . PASS Atlas-SNP DACT2 168002 hgsc.bcm.edu 37 6 168708678 168708678 + Missense_Mutation SNP C C G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 41.0 8.0 59.0 0.0 0.195122 0 . . none . DACT2 46 . NM_214462 exon4 c.G1759C p.A587P CTTGGGCTGAGGT . PASS Atlas-SNP SPNS1 83985 hgsc.bcm.edu 37 16 28995211 28995211 + Silent SNP C C T rs113165798 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 44.0 24.0 44.0 0.0 0.545455 0 C|0.995;T|0.005 0.005 strong . SPNS1 47 . NM_001142448 exon12 c.C1425T p.G475G GGGCGGCGCAGCC . PASS Atlas-SNP TREX2 11219 hgsc.bcm.edu 37 X 152710522 152710522 + Missense_Mutation SNP C C A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 20.0 7.0 21.0 0.0 0.35 0 . . none . TREX2 36 . NM_080701 exon2 c.G367T p.D123Y GGAAATCATAATC . PASS Atlas-SNP VWA3A 146177 hgsc.bcm.edu 37 16 22143031 22143031 + Missense_Mutation SNP G G A rs199942653 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 220.0 92.0 262.0 1.0 0.418182 0.00381679 G|0.999;A|0.001 0.001 weak . VWA3A 115 . NM_173615 exon19 c.G1853A p.G618D CTGGGGGCATCCC . PASS Atlas-SNP USP11 8237 hgsc.bcm.edu 37 X 47092423 47092423 + Missense_Mutation SNP G G A rs149757747 bycluster;byfrequency TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 81.0 21.0 70.0 0.0 0.259259 0 G|1.000;A|0.000 0.000 strong . USP11 93 . NM_004651 exon1 c.G110A p.C37Y TTGGCTGTAGAAG . PASS Atlas-SNP LCMT2 9836 hgsc.bcm.edu 37 15 43621483 43621483 + Missense_Mutation SNP C C T rs144228208 bycluster TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 63.0 45.0 93.0 0.0 0.714286 0 C|1.000;T|0.000 0.000 weak LCMT2,NS,carcinoma,-1,1 LCMT2 48 1 NM_014793 exon1 c.G1205A p.G402D TGGCTGCCTTTCC . PASS Atlas-SNP DDX23 9416 hgsc.bcm.edu 37 12 49229991 49229991 + Missense_Mutation SNP A A G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 135.0 34.0 158.0 0.0 0.251852 0 . . none . DDX23 82 . NM_004818 exon11 c.T1295C p.I432T ACACCAATGATGT . PASS Atlas-SNP ARHGAP32 9743 hgsc.bcm.edu 37 11 128842603 128842603 + Silent SNP G G A rs376118787 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 137.0 40.0 128.0 0.0 0.291971 0 . . weak . ARHGAP32 307 . NM_001142685 exon21 c.C3756T p.P1252P CTCTTCGGGGGAC . PASS Atlas-SNP ABLIM3 22885 hgsc.bcm.edu 37 5 148618836 148618836 + Missense_Mutation SNP C C T rs201076202 bycluster TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 179.0 85.0 189.0 0.0 0.47486 0 . . weak . ABLIM3 91 . NM_014945 exon12 c.C1070T p.S357F CCTACTCCCAGGT . PASS Atlas-SNP BEST2 54831 hgsc.bcm.edu 37 19 12866544 12866544 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 147.0 21.0 123.0 0.0 0.142857 0 . . none . BEST2 35 . NM_017682 exon6 c.C830T p.T277I TCTTCACCCTCTT . PASS Atlas-SNP LOXHD1 125336 hgsc.bcm.edu 37 18 44159672 44159672 + Missense_Mutation SNP A A C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 154.0 74.0 136.0 0.0 0.480519 0 . . none . LOXHD1 367 . NM_144612 exon13 c.T1730G p.L577R CCAAAAAGGCAGA . PASS Atlas-SNP DSG2 1829 hgsc.bcm.edu 37 18 29126108 29126108 + Missense_Mutation SNP T T G rs142841727 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 107.0 53.0 116.0 0.0 0.495327 0 T|0.995;G|0.005 0.005 strong DSG2,NS,lymphoid_neoplasm,0,1 DSG2 115 1 NM_001943 exon15 c.T2759G p.V920G AAAAGGTAGCTAC . PASS Atlas-SNP MRC2 9902 hgsc.bcm.edu 37 17 60766283 60766283 + Missense_Mutation SNP C C T rs201851897 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 118.0 35.0 135.0 0.0 0.29661 0 C|1.000;T|0.000 0.000 strong MRC2,NS,carcinoma,0,1 MRC2 126 1 NM_006039 exon23 c.C3296T p.T1099M GCTGCACGGAGGA . PASS Atlas-SNP FOXO1 2308 hgsc.bcm.edu 37 13 41239736 41239736 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 207.0 46.0 106.0 0.0 0.222222 0 . . none . FOXO1 110 . NM_002015 exon1 c.G614A p.S205N GCCGAGCTGTTGC . PASS Atlas-SNP PYGL 5836 hgsc.bcm.edu 37 14 51378517 51378517 + Missense_Mutation SNP C C G rs35026927 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 164.0 81.0 160.0 0.0 0.493902 0 C|0.996;G|0.004 0.004 strong PYGL,colon,carcinoma,+2,1 PYGL 77 1 NM_002863 exon16 c.G1900C p.D634H TAGGGTCATTGTT . PASS Atlas-SNP ACACB 32 hgsc.bcm.edu 37 12 109647006 109647006 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 115.0 51.0 109.0 0.0 0.443478 0 . . none ACACB,caecum,adenoma,-1,1 ACACB 330 1 NM_001093 exon20 c.C3097T p.R1033W ACCCTCCGGCACC . PASS Atlas-SNP EGFLAM 133584 hgsc.bcm.edu 37 5 38438505 38438505 + Missense_Mutation SNP G G C rs35767836 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 123.0 54.0 107.0 0.0 0.439024 0 G|0.987;C|0.013 0.013 strong . EGFLAM 302 . NM_001205301 exon17 c.G2412C p.E804D GAAGGAGGGCTAT . PASS Atlas-SNP NLRP8 126205 hgsc.bcm.edu 37 19 56473502 56473502 + Missense_Mutation SNP G G C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 150.0 8.0 159.0 0.0 0.0533333 0 . . none . NLRP8 225 . NM_176811 exon4 c.G2112C p.K704N TGATAAGCTGGAA . PASS Atlas-SNP TIGD1 200765 hgsc.bcm.edu 37 2 233413648 233413648 + Silent SNP G G A rs72991949 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 4.0 4.0 4.0 0.0 1 0 G|0.858;A|0.142 0.142 strong . TIGD1 17 . NM_145702 exon1 c.C945T p.Y315Y CTCCTCGTATATC . PASS Atlas-SNP SLITRK2 84631 hgsc.bcm.edu 37 X 144906370 144906370 + Silent SNP A A G rs45540333 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 174.0 122.0 130.0 0.0 0.701149 0 A|0.986;G|0.014 0.014 strong . SLITRK2 221 . NM_001144005 exon5 c.A2427G p.K809K CAGGAAATGCTTT . PASS Atlas-SNP MYBL1 4603 hgsc.bcm.edu 37 8 67478431 67478431 + Missense_Mutation SNP T T G rs61729530 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 123.0 70.0 102.0 0.0 0.569106 0 T|0.991;G|0.009 0.009 strong . MYBL1 73 . NM_001080416 exon15 c.A1998C p.E666D ATGTATTTCCAAT . PASS Atlas-SNP FGD5 152273 hgsc.bcm.edu 37 3 14862049 14862049 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 84.0 32.0 84.0 0.0 0.380952 0 . . none FGD5_ENST00000285046,NS,carcinoma,0,2 FGD5 248 2 NM_152536 exon1 c.G1471A p.G491S GTGGCCGGCTATG . PASS Atlas-SNP LYST 1130 hgsc.bcm.edu 37 1 235887393 235887393 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 128.0 14.0 150.0 0.0 0.109375 0 . . none . LYST 370 . NM_000081 exon39 c.G9250A p.D3084N CATTATCTCTCAA . PASS Atlas-SNP HCAR1 27198 hgsc.bcm.edu 37 12 123214166 123214166 + Missense_Mutation SNP G G A rs140482291 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 70.0 36.0 48.0 0.0 0.514286 0 G|0.998;A|0.002 0.002 strong . HCAR1 21 . NM_032554 exon1 c.C721T p.L241F AATAGAGTCTAGC . PASS Atlas-SNP OR5K3 403277 hgsc.bcm.edu 37 3 98110414 98110414 + Missense_Mutation SNP T T A rs199575537 bycluster TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 27.0 2.0 23.0 0.0 0.0740741 0 . . weak OR5K3,NS,carcinoma,0,2 OR5K3 60 2 NM_001005516 exon1 c.T905A p.I302N AAAAAATTATGAA . scavenged Atlas-SNP EGFR 1956 hgsc.bcm.edu 37 7 55229255 55229255 + Missense_Mutation SNP G G A rs2227983 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 44.0 25.0 52.0 0.0 0.568182 0 A|0.243;C|0.000;G|0.757;T|0.000 0.243 strong . EGFR 20426 . NM_005228 exon13 c.G1562A p.R521K AGCCCAGGGACTG . PASS Atlas-SNP PCDH10 57575 hgsc.bcm.edu 37 4 134072208 134072208 + Missense_Mutation SNP C C G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 43.0 10.0 58.0 0.0 0.232558 0 . . none PCDH10,NS,carcinoma,-2,2 PCDH10 290 2 NM_032961 exon1 c.C913G p.P305A CTCTCGCCGCGCA . PASS Atlas-SNP RAB11FIP3 9727 hgsc.bcm.edu 37 16 570737 570737 + Silent SNP G G A rs142673366 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 93.0 37.0 91.0 0.0 0.397849 0 G|0.999;A|0.001 0.001 strong . RAB11FIP3 31 . NM_014700 exon14 c.G2169A p.A723A GGAGGCGATTCAG . PASS Atlas-SNP MBOAT1 154141 hgsc.bcm.edu 37 6 20124710 20124710 + Missense_Mutation SNP G G A rs146228602 bycluster;byfrequency TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 85.0 14.0 92.0 0.0 0.164706 0 G|0.999;A|0.001 0.001 strong MBOAT1,NS,carcinoma,+1,1 MBOAT1 48 1 NM_001080480 exon8 c.C836T p.P279L CGAGCCGGAAAGC . PASS Atlas-SNP HLTF 6596 hgsc.bcm.edu 37 3 148756993 148756993 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 73.0 22.0 69.0 0.0 0.30137 0 . . none . HLTF 87 . NM_139048 exon23 c.G2639A p.R880H TCCAAACGAGTAA . PASS Atlas-SNP OFD1 8481 hgsc.bcm.edu 37 X 13786875 13786875 + Silent SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 211.0 48.0 157.0 0.0 0.227488 0 . . none . OFD1 109 . NM_003611 exon22 c.C2967T p.D989D AGTGGACACGCTG . PASS Atlas-SNP MUC4 4585 hgsc.bcm.edu 37 3 195507998 195507998 + Missense_Mutation SNP G G C rs199622660 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 86.0 21.0 93.0 0.0 0.244186 0 . . weak . MUC4 1505 . NM_018406 exon2 c.C10453G p.H3485D TGGTGTGACCTGT . PASS Atlas-SNP INO80D 54891 hgsc.bcm.edu 37 2 206872126 206872126 + Silent SNP C C T rs116331438 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 241.0 118.0 202.0 0.0 0.489627 0 C|0.999;T|0.001 0.001 strong INO80D_ENST00000403263,NS,carcinoma,0,2 INO80D 134 2 NM_017759 exon10 c.G1800A p.P600P GTCATCCGGCAAC . PASS Atlas-SNP PCDHGA5 56110 hgsc.bcm.edu 37 5 140745959 140745959 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 101.0 48.0 128.0 0.0 0.475248 0 . . none . PCDHGA5 215 . NM_032054 exon1 c.G2062A p.D688N GATCTGGACCTCA . PASS Atlas-SNP LYST 1130 hgsc.bcm.edu 37 1 235918870 235918870 + Silent SNP T T G rs61738992 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 88.0 41.0 96.0 0.0 0.465909 0 T|0.976;G|0.024 0.024 strong . LYST 370 . NM_000081 exon25 c.A7137C p.L2379L GTTGGCTAGCAAG . PASS Atlas-SNP ARHGAP12 94134 hgsc.bcm.edu 37 10 32097650 32097650 + Missense_Mutation SNP C C T rs34750454 bycluster TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 102.0 31.0 102.0 0.0 0.303922 0 C|0.987;T|0.013 0.013 weak . ARHGAP12 79 . NM_018287 exon19 c.G2293A p.V765I CCTTAACAGCAGC . PASS Atlas-SNP SEC61A1 29927 hgsc.bcm.edu 37 3 127774411 127774411 + Missense_Mutation SNP T T C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 158.0 64.0 155.0 0.0 0.405063 0 . . none . SEC61A1 39 . NM_013336 exon3 c.T128C p.L43S TCTTCTTAGTGTG . PASS Atlas-SNP AFAP1L1 134265 hgsc.bcm.edu 37 5 148695859 148695859 + Silent SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 124.0 13.0 91.0 0.0 0.104839 0 . . none . AFAP1L1 86 . NM_001146337 exon11 c.C1260T p.P420P GGTTCCCTGCTGT . PASS Atlas-SNP CXorf30 645090 hgsc.bcm.edu 37 X 36317108 36317108 + Missense_Mutation SNP A A C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 150.0 59.0 120.0 0.0 0.393333 0 . . none . CXorf30 76 . NM_001098843 exon7 c.A41C p.E14A GCATTGAAATACC . PASS Atlas-SNP UTP14A 10813 hgsc.bcm.edu 37 X 129045815 129045815 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 66.0 17.0 66.0 0.0 0.257576 0 . . none . UTP14A 74 . NM_006649 exon6 c.G455A p.R152Q AGAACCGGCAGGC . PASS Atlas-SNP CDC25C 995 hgsc.bcm.edu 37 5 137627769 137627769 + Missense_Mutation SNP G G C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 91.0 32.0 97.0 0.0 0.351648 0 . . none . CDC25C 37 . NM_001790 exon8 c.C652G p.P218A TCTCTGGCATCGA . PASS Atlas-SNP MAN1C1 57134 hgsc.bcm.edu 37 1 26110236 26110236 + Missense_Mutation SNP G G A rs79507311 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 40.0 27.0 31.0 0.0 0.675 0 G|0.990;A|0.010 0.010 strong . MAN1C1 48 . NM_020379 exon12 c.G1849A p.V617M CTCCCGGTGAACC . PASS Atlas-SNP SLC6A13 6540 hgsc.bcm.edu 37 12 333237 333237 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 86.0 5.0 96.0 0.0 0.0581395 0 . . none . SLC6A13 62 . NM_016615 exon11 c.G1232A p.R411H TTCTTGCGGAACA . PASS Atlas-SNP EPHB4 2050 hgsc.bcm.edu 37 7 100417879 100417879 + Missense_Mutation SNP C C T rs201531252 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 46.0 24.0 49.0 0.0 0.521739 0 C|0.999;T|0.001 0.001 weak . EPHB4 106 . NM_004444 exon5 c.G848A p.G283E CAGGACCCTTCTC . PASS Atlas-SNP GTPBP8 29083 hgsc.bcm.edu 37 3 112718352 112718352 + Missense_Mutation SNP G G T rs1054263 bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 180.0 73.0 247.0 0.0 0.405556 0 G|0.948;T|0.052 0.052 strong GTPBP8,lymph_node,lymphoid_neoplasm,0,1 GTPBP8 22 1 NM_014170 exon5 c.G726T p.Q242H GCTTCAGATCCAG . PASS Atlas-SNP BMP10 27302 hgsc.bcm.edu 37 2 69093413 69093413 + Missense_Mutation SNP G G A rs34008398 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 209.0 151.0 285.0 0.0 0.722488 0 G|0.991;A|0.009 0.009 strong . BMP10 70 . NM_014482 exon2 c.C625T p.R209C GCCAACGTCTGAT . PASS Atlas-SNP PRKD1 5587 hgsc.bcm.edu 37 14 30066797 30066797 + Silent SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 143.0 29.0 126.0 0.0 0.202797 0 . . none . PRKD1 316 . NM_002742 exon16 c.C2334T p.S778S TGTGCCGCTTAGG . PASS Atlas-SNP FASTKD2 22868 hgsc.bcm.edu 37 2 207632128 207632128 + Silent SNP C C T rs150195745 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 49.0 25.0 55.0 0.0 0.510204 0 C|1.000;T|0.000 0.000 weak . FASTKD2 49 . NM_001136193 exon2 c.C711T p.H237H TCTTCACGCCATA . PASS Atlas-SNP POLQ 10721 hgsc.bcm.edu 37 3 121208294 121208294 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 150.0 38.0 178.0 0.0 0.253333 0 . . none . POLQ 273 . NM_199420 exon16 c.G3484A p.A1162T CAACAGCTACTCC . PASS Atlas-SNP HIP1R 9026 hgsc.bcm.edu 37 12 123345296 123345296 + Missense_Mutation SNP G G A rs141813189 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 177.0 82.0 145.0 0.0 0.463277 0 G|0.999;A|0.001 0.001 strong . HIP1R 68 . NM_003959 exon28 c.G2731A p.A911T GAGATCGCAGCCA . PASS Atlas-SNP TDP2 51567 hgsc.bcm.edu 37 6 24653283 24653283 + Silent SNP T T C rs11559067 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 86.0 74.0 74.0 0.0 0.860465 0 T|0.977;C|0.023 0.023 strong . TDP2 29 . NM_016614 exon6 c.A735G p.L245L TTTCTTTAAAACC . PASS Atlas-SNP CTAGE5 4253 hgsc.bcm.edu 37 14 39818076 39818076 + Missense_Mutation SNP A A G rs61742363 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 129.0 61.0 88.0 0.0 0.472868 0 A|0.988;G|0.012 0.012 strong . CTAGE5 75 . NM_001247989 exon23 c.A2158G p.R720G TTGAGAAGAGGAC . PASS Atlas-SNP S100A7A 338324 hgsc.bcm.edu 37 1 153390649 153390649 + Missense_Mutation SNP A A G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 184.0 47.0 155.0 0.0 0.255435 0 . . none . S100A7A 24 . NM_176823 exon2 c.A91G p.S31G AAGCCAAGCCTGC . PASS Atlas-SNP HLX 3142 hgsc.bcm.edu 37 1 221057573 221057573 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 136.0 40.0 114.0 1.0 0.294118 0.00877193 . . none HLX,NS,carcinoma,0,1 HLX 67 1 NM_021958 exon4 c.C994T p.R332W AAGTGGCGGCACT . scavenged Atlas-SNP WNK1 65125 hgsc.bcm.edu 37 12 922913 922913 + Missense_Mutation SNP T T C rs200234585 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 67.0 31.0 77.0 0.0 0.462687 0 . . weak . WNK1 403 . NM_001184985 exon2 c.T865C p.S289P TGGGAATCCACAG . PASS Atlas-SNP PRDM9 56979 hgsc.bcm.edu 37 5 23510038 23510038 + Missense_Mutation SNP C C A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 172.0 50.0 215.0 0.0 0.290698 0 . . none . PRDM9 344 . NM_020227 exon4 c.C203A p.A68D TCAGAGCCACTCG . PASS Atlas-SNP OR6C76 390326 hgsc.bcm.edu 37 12 55820685 55820685 + Silent SNP T T G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 154.0 50.0 116.0 0.0 0.324675 0 . . none . OR6C76 98 . NM_001005183 exon1 c.T648G p.T216T CTATACTTACATC . PASS Atlas-SNP MCF2L2 23101 hgsc.bcm.edu 37 3 182941927 182941927 + Missense_Mutation SNP T T C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 77.0 4.0 96.0 0.0 0.0519481 0 . . none . MCF2L2 164 . NM_015078 exon19 c.A2167G p.R723G TTGCCCTAGCTCG . PASS Atlas-SNP NTF3 4908 hgsc.bcm.edu 37 12 5604064 5604064 + Silent SNP T T C rs200399901 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 37.0 19.0 28.0 0.0 0.513514 0 T|0.999;C|0.001 0.001 strong . NTF3 50 . NM_001102654 exon2 c.T723C p.T241T ACTGACTTCAGAG . PASS Atlas-SNP UHRF2 115426 hgsc.bcm.edu 37 9 6413640 6413640 + Silent SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 16.0 7.0 24.0 0.0 0.4375 0 . . none . UHRF2 50 . NM_152896 exon1 c.G150A p.K50K GGGCAAGCAGGTG . PASS Atlas-SNP SETD4 54093 hgsc.bcm.edu 37 21 37420606 37420606 + Missense_Mutation SNP T T G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 71.0 15.0 63.0 0.0 0.211268 0 . . none . SETD4 37 . NM_001007259 exon5 c.A296C p.K99T ACTTACTTAGTAA . PASS Atlas-SNP CLDN24 100132463 hgsc.bcm.edu 37 4 184243174 184243174 + Missense_Mutation SNP G G T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 147.0 8.0 150.0 0.0 0.0544218 0 . . none . CLDN24 5 . NM_001185149 exon1 c.C406A p.P136T AGACGGGAACCAG . PASS Atlas-SNP WBSCR17 64409 hgsc.bcm.edu 37 7 71142240 71142240 + Silent SNP G G A rs77485397 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 49.0 25.0 45.0 0.0 0.510204 0 G|0.995;A|0.005 0.005 strong WBSCR17,NS,carcinoma,+1,2 WBSCR17 208 2 NM_022479 exon9 c.G1449A p.P483P GGGGCCGCTGGAG . PASS Atlas-SNP TLR4 7099 hgsc.bcm.edu 37 9 120476365 120476365 + Silent SNP G G A rs5030721 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 61.0 24.0 57.0 0.0 0.393443 0 G|0.993;A|0.007 0.007 strong . TLR4 220 . NM_138554 exon3 c.G1959A p.K653K CTATAAGTTCTAT . PASS Atlas-SNP UTP20 27340 hgsc.bcm.edu 37 12 101755803 101755803 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 76.0 18.0 79.0 0.0 0.236842 0 . . none . UTP20 222 . NM_014503 exon44 c.G5755A p.G1919R CAGGTCGGAGATT . PASS Atlas-SNP DDR2 4921 hgsc.bcm.edu 37 1 162729613 162729613 + Silent SNP C C T rs56351141 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 82.0 29.0 107.0 0.0 0.353659 0 C|0.991;T|0.009 0.009 strong DDR2_ENST00000367922,right_upper_lobe,carcinoma,0,2 DDR2 228 2 NM_001014796 exon9 c.C699T p.T233T ATTGACCGATGGT . PASS Atlas-SNP CCDC146 57639 hgsc.bcm.edu 37 7 76866265 76866265 + Missense_Mutation SNP T T C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 69.0 30.0 81.0 0.0 0.434783 0 . . none . CCDC146 87 . NM_020879 exon3 c.T158C p.L53S GCTAGTTACATGC . PASS Atlas-SNP PCIF1 63935 hgsc.bcm.edu 37 20 44574722 44574722 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 83.0 22.0 61.0 0.0 0.26506 0 . . none . PCIF1 51 . NM_022104 exon13 c.C1396T p.P466S TTCCTGCCCCGGG . PASS Atlas-SNP NMUR2 56923 hgsc.bcm.edu 37 5 151777633 151777633 + Missense_Mutation SNP T T G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 83.0 5.0 64.0 0.0 0.060241 0 . . none NMUR2,NS,carcinoma,0,1 NMUR2 111 1 NM_020167 exon2 c.A799C p.N267H TCTTGTTGACTGA . PASS Atlas-SNP HCN2 610 hgsc.bcm.edu 37 19 605093 605093 + Silent SNP G G A rs55839339 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 72.0 34.0 82.0 0.0 0.472222 0 G|0.984;A|0.016 0.016 strong . HCN2 36 . NM_001194 exon3 c.G1089A p.A363A CAGCGCGGTGATG . PASS Atlas-SNP MRGPRE 116534 hgsc.bcm.edu 37 11 3249972 3249972 + Missense_Mutation SNP C C A rs200284450 bycluster TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 43.0 21.0 45.0 0.0 0.488372 0 . . weak . MRGPRE 35 . NM_001039165 exon2 c.G58T p.D20Y CCACATCCTCCTG . PASS Atlas-SNP B4GALNT1 2583 hgsc.bcm.edu 37 12 58022555 58022555 + Silent SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 69.0 26.0 91.0 0.0 0.376812 0 . . none . B4GALNT1 53 . NM_001478 exon8 c.A943A p.T315T GCTTGTCGCTGTC . PASS Atlas-SNP ARHGEF11 9826 hgsc.bcm.edu 37 1 156928576 156928576 + Missense_Mutation SNP C C T rs142957547 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 134.0 58.0 131.0 0.0 0.432836 0 C|0.996;T|0.004 0.004 strong . ARHGEF11 168 . NM_198236 exon17 c.G1460A p.R487H ACTTGGCGCTCTC . PASS Atlas-SNP DPYSL5 56896 hgsc.bcm.edu 37 2 27121394 27121394 + Silent SNP G G A rs79644076 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 223.0 110.0 213.0 1.0 0.493274 0.00469484 G|0.995;A|0.005 0.005 strong . DPYSL5 69 . NM_001253724 exon2 c.G27A p.R9R CGTGAGGATCCTC . PASS Atlas-SNP AK8 158067 hgsc.bcm.edu 37 9 135703450 135703450 + Missense_Mutation SNP G G T rs114347984 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 49.0 18.0 55.0 0.0 0.367347 0 G|0.997;T|0.003 0.003 strong . AK8 45 . NM_152572 exon7 c.C506A p.T169K AGGACCGTGTCTG . PASS Atlas-SNP ACTG1 71 hgsc.bcm.edu 37 17 79479101 79479101 + Missense_Mutation SNP A A T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 37.0 10.0 73.0 0.0 0.27027 0 . . none ACTG1,spleen,lymphoid_neoplasm,0,1 ACTG1 55 1 NM_001614 exon3 c.T191A p.I64N GTCAGGATGCCAC . PASS Atlas-SNP EPB41L4A 64097 hgsc.bcm.edu 37 5 111531387 111531387 + Silent SNP A A T rs149373122 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 77.0 37.0 86.0 0.0 0.480519 0 A|0.993;T|0.007 0.007 strong . EPB41L4A 130 . NM_022140 exon16 c.T1395A p.G465G ATCTTCACCACTG . PASS Atlas-SNP OGDHL 55753 hgsc.bcm.edu 37 10 50944528 50944528 + Missense_Mutation SNP C C A rs140281439 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 63.0 28.0 58.0 0.0 0.444444 0 C|0.998;A|0.002 0.002 strong OGDHL,NS,carcinoma,0,1 OGDHL 149 1 NM_018245 exon21 c.G2629T p.A877S GTGCTGCGGCCCC . PASS Atlas-SNP BTG1 694 hgsc.bcm.edu 37 12 92539189 92539189 + Silent SNP G G A rs201780644 by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 106.0 30.0 109.0 0.0 0.283019 0 G|1.000;A|0.000 0.000 strong . BTG1 30 . NM_001731 exon1 c.C123T p.S41S GCTCTGGCTGAAG . PASS Atlas-SNP TSPEAR 54084 hgsc.bcm.edu 37 21 45949769 45949769 + Silent SNP G G A rs117791519 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 57.0 40.0 36.0 0.0 0.701754 0 G|0.996;A|0.004 0.004 strong . TSPEAR 110 . NM_144991 exon5 c.C702T p.N234N CGGGGCGTTCCTG . PASS Atlas-SNP KRAS 3845 hgsc.bcm.edu 37 12 25362777 25362777 + Silent SNP A A G rs1137282 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 122.0 63.0 102.0 0.0 0.516393 0 T|0.136;G|0.154;C|0.028;A|0.682 0.154 strong . KRAS 30930 . NM_004985 exon5 c.T519C p.D173D TTTACCATCTTTG . PASS Atlas-SNP MLL3 58508 hgsc.bcm.edu 37 7 151962183 151962183 + Missense_Mutation SNP A A C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 288.0 20.0 245.0 0.0 0.0694444 0 . . none MLL3_ENST00000355193,right_upper_lobe,carcinoma,0,2 MLL3 1564 2 NM_170606 exon8 c.T1124G p.V375G GGAGTAACCGCTA . scavenged Atlas-SNP C3orf30 152405 hgsc.bcm.edu 37 3 118865647 118865647 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 47.0 22.0 68.0 0.0 0.468085 0 . . none C3orf30,NS,carcinoma,0,1 C3orf30 64 1 NM_152539 exon1 c.G611A p.R204Q CTGAGCGAAGAAC . PASS Atlas-SNP GORASP1 64689 hgsc.bcm.edu 37 3 39140352 39140352 + Missense_Mutation SNP C C A rs138864486 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 131.0 58.0 107.0 0.0 0.442748 0 C|0.993;A|0.007 0.007 strong . GORASP1 42 . NM_031899 exon8 c.G949T p.D317Y TGTTGTCCAAGAG . PASS Atlas-SNP HNF1A 6927 hgsc.bcm.edu 37 12 121435427 121435427 + Missense_Mutation SNP G G A rs2464196 bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 127.0 124.0 114.0 0.0 0.976378 0 G|0.725;A|0.275 0.275 strong . HNF1A 302 . NM_000545 exon7 c.G1460A p.S487N CCCAGAGCCCCTT . PASS Atlas-SNP SLC7A1 6541 hgsc.bcm.edu 37 13 30110256 30110256 + Missense_Mutation SNP C C G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 71.0 31.0 78.0 0.0 0.43662 0 . . none . SLC7A1 64 . NM_003045 exon3 c.G70C p.E24Q TCTCCTCCCGGCT . PASS Atlas-SNP PARVA 55742 hgsc.bcm.edu 37 11 12525965 12525965 + Missense_Mutation SNP G G C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 131.0 63.0 160.0 0.0 0.480916 0 . . none . PARVA 27 . NM_018222 exon6 c.G766C p.V256L CAAGTGGTTGTGG . PASS Atlas-SNP PKD1 5310 hgsc.bcm.edu 37 16 2164244 2164244 + Missense_Mutation SNP G G A rs139963923 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 63.0 24.0 78.0 0.0 0.380952 0 G|1.000;A|0.000 0.000 weak . PKD1 184 . NM_000296 exon11 c.C2780T p.T927M TCCGCCGTCACCC . PASS Atlas-SNP VANGL1 81839 hgsc.bcm.edu 37 1 116206871 116206871 + Missense_Mutation SNP A A G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 46.0 25.0 60.0 0.0 0.543478 0 . . none . VANGL1 65 . NM_138959 exon4 c.A794G p.Y265C GCTTCTACAGCCT . PASS Atlas-SNP PIGT 51604 hgsc.bcm.edu 37 20 44048224 44048224 + Silent SNP T T C rs147475258 bycluster;byfrequency TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 88.0 35.0 57.0 0.0 0.397727 0 T|0.999;C|0.001 0.001 strong . PIGT 85 . NM_001184729 exon5 c.T675C p.V225V CCCTGTTTGCAGA . PASS Atlas-SNP CYP2A7 1549 hgsc.bcm.edu 37 19 41382544 41382544 + Silent SNP G G A rs116333747 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 254.0 119.0 202.0 0.0 0.468504 0 G|0.992;A|0.008 0.008 strong . CYP2A7 71 . NM_000764 exon8 c.C1191T p.S397S CAGCACGGAGCCC . PASS Atlas-SNP PCDHB16 57717 hgsc.bcm.edu 37 5 140564454 140564454 + Missense_Mutation SNP T T G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 152.0 50.0 133.0 0.0 0.328947 0 . . none . PCDHB16 159 . NM_020957 exon1 c.T2320G p.F774V CCCAACTTCTCTC . PASS Atlas-SNP MAGI2 9863 hgsc.bcm.edu 37 7 78636484 78636484 + Missense_Mutation SNP A A C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 74.0 25.0 100.0 0.0 0.337838 0 . . none MAGI2,caecum,carcinoma,0,1 MAGI2 246 1 NM_012301 exon2 c.T340G p.L114V ATCGTAAGTTGAG . PASS Atlas-SNP MBTPS1 8720 hgsc.bcm.edu 37 16 84125394 84125394 + Silent SNP G G A rs113848224 bycluster;byfrequency TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 90.0 36.0 120.0 0.0 0.4 0 G|0.998;A|0.002 0.002 strong . MBTPS1 85 . NM_003791 exon7 c.C906T p.D302D TAACACGTCGATC . PASS Atlas-SNP FAM83G 644815 hgsc.bcm.edu 37 17 18881605 18881605 + Missense_Mutation SNP C C A rs201344489 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 119.0 72.0 119.0 0.0 0.605042 0 C|0.998;A|0.002 0.002 strong . FAM83G 51 . NM_001039999 exon5 c.G1374T p.Q458H CTGGTGCTGGGCG . PASS Atlas-SNP CACNA2D4 93589 hgsc.bcm.edu 37 12 1910786 1910786 + Missense_Mutation SNP C C T rs62621429 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 61.0 32.0 49.0 0.0 0.52459 0 C|0.979;T|0.021 0.021 strong . CACNA2D4 220 . NM_172364 exon30 c.G2746A p.D916N CACCATCCACCTC . PASS Atlas-SNP C12orf77 196415 hgsc.bcm.edu 37 12 25148927 25148927 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 179.0 42.0 120.0 0.0 0.234637 0 . . none . C12orf77 18 . NM_001101339 exon3 c.G221A p.S74N CGTATGCTGTCCA . PASS Atlas-SNP ACAN 176 hgsc.bcm.edu 37 15 89402447 89402447 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 100.0 47.0 115.0 0.0 0.47 0 . . none . ACAN 220 . NM_001135 exon12 c.G6631A p.V2211I CTGGGCGTTGTCA . PASS Atlas-SNP SHC3 53358 hgsc.bcm.edu 37 9 91652977 91652977 + Silent SNP G G A rs56005403 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 40.0 20.0 29.0 0.0 0.5 0 G|0.990;A|0.010 0.010 strong . SHC3 66 . NM_016848 exon11 c.C1587T p.G529G AAAGGAGCCCGGG . PASS Atlas-SNP FABP7 2173 hgsc.bcm.edu 37 6 123104889 123104889 + Missense_Mutation SNP G G A rs77153426 alternate_allele TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 137.0 65.0 120.0 0.0 0.474453 0 . . alt . FABP7 10 . NM_001446 exon4 c.G376A p.V126I GTTGCTGTTCGCC . PASS Atlas-SNP ACAA1 30 hgsc.bcm.edu 37 3 38167095 38167095 + Missense_Mutation SNP A A G rs2229528 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 100.0 46.0 105.0 0.0 0.46 0 T|0.067;G|0.026 0.026 strong . ACAA1 32 . NM_001607 exon11 c.T1160C p.V387A GTGATGACCTGTC . PASS Atlas-SNP KIAA1586 57691 hgsc.bcm.edu 37 6 56918304 56918304 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 83.0 31.0 74.0 0.0 0.373494 0 . . none . KIAA1586 59 . NM_020931 exon4 c.G1007A p.C336Y TCCAGTGCACAAT . PASS Atlas-SNP SGK1 6446 hgsc.bcm.edu 37 6 134494661 134494661 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 81.0 23.0 82.0 0.0 0.283951 0 . . none SGK1_ENST00000367858,lymph_node,lymphoid_neoplasm,0,3 SGK1 387 3 NM_001143676 exon6 c.C557T p.P186L GCATGAGGATTGG . PASS Atlas-SNP MCMDC2 157777 hgsc.bcm.edu 37 8 67813482 67813482 + Silent SNP G G A rs139959817 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 171.0 65.0 180.0 0.0 0.380117 0 G|0.979;A|0.021 0.021 strong . MCMDC2 84 . NM_173518 exon13 c.G1668A p.L556L CAGCTTGGAAGCA . PASS Atlas-SNP KIAA0922 23240 hgsc.bcm.edu 37 4 154519764 154519764 + Missense_Mutation SNP A A G rs72729691 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 75.0 34.0 77.0 0.0 0.453333 0 A|0.994;G|0.006 0.006 strong . KIAA0922 214 . NM_001131007 exon21 c.A2146G p.M716V ATTGACATGATTG . PASS Atlas-SNP PCDHAC1 56135 hgsc.bcm.edu 37 5 140306924 140306924 + Missense_Mutation SNP A A T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 71.0 15.0 95.0 0.0 0.211268 0 . . none . PCDHAC1 141 . NM_031882 exon1 c.A447T p.Q149H TGCCCAAGATGAC . PASS Atlas-SNP ZFP90 146198 hgsc.bcm.edu 37 16 68598023 68598023 + Missense_Mutation SNP A A G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 70.0 14.0 79.0 0.0 0.2 0 . . none ZFP90,NS,carcinoma,0,1 ZFP90 67 1 NM_133458 exon4 c.A1333G p.T445A ACTCTTACCGAAG . PASS Atlas-SNP KRT33A 3883 hgsc.bcm.edu 37 17 39502917 39502917 + Missense_Mutation SNP C C A rs144588166 bycluster;byfrequency TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 73.0 30.0 92.0 0.0 0.410959 0 C|0.999;A|0.001 0.001 strong . KRT33A 53 . NM_004138 exon6 c.G880T p.D294Y GAGAGTCTCGCTG . PASS Atlas-SNP CYP2B6 1555 hgsc.bcm.edu 37 19 41497346 41497346 + Missense_Mutation SNP A A G rs35303484 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 32.0 16.0 28.0 0.0 0.5 0 A|0.997;G|0.003;T|0.000 0.003 strong . CYP2B6 79 . NM_000767 exon1 c.A136G p.M46V CTGCAGATGGATA . PASS Atlas-SNP GMPS 8833 hgsc.bcm.edu 37 3 155633817 155633817 + Nonsense_Mutation SNP G G T rs201869567 alternate_allele TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 53.0 4.0 70.0 0.0 0.0754717 0 G|0.999;A|0.001 . alt . GMPS 70 . NM_003875 exon9 c.G1048T p.E350X GCCAATGAAGTAA . PASS Atlas-SNP DUSP2 1844 hgsc.bcm.edu 37 2 96810609 96810609 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 60.0 20.0 75.0 0.0 0.333333 0 . . none . DUSP2 20 . NM_004418 exon2 c.G401A p.G134D TGGAAGCCGTCGA . PASS Atlas-SNP CREB3L4 148327 hgsc.bcm.edu 37 1 153941842 153941842 + Missense_Mutation SNP T T G rs186432230 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 119.0 62.0 125.0 0.0 0.521008 0 T|1.000;G|0.000 0.000 strong . CREB3L4 36 . NM_001255978 exon4 c.T454G p.S152A CCTGATTCCTGCA . PASS Atlas-SNP OR9Q1 219956 hgsc.bcm.edu 37 11 57947163 57947163 + Missense_Mutation SNP G G A rs111629598 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 210.0 105.0 175.0 0.0 0.5 0 G|0.976;A|0.024 0.024 strong . OR9Q1 60 . NM_001005212 exon3 c.G247A p.A83T ATGCTGGCAGTGC . PASS Atlas-SNP IGLL5 100423062 hgsc.bcm.edu 37 22 23230404 23230404 + Missense_Mutation SNP A A C rs115653109 byfrequency;by1000genomes;alternate_allele TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 41.0 12.0 141.0 0.0 0.292683 0 A|0.999;G|0.001 . alt . IGLL5 26 . NM_001256296 exon1 c.A65C p.E22A AGTTGGAAGCAGC . PASS Atlas-SNP LAMA1 284217 hgsc.bcm.edu 37 18 6950847 6950847 + Missense_Mutation SNP A A C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 103.0 27.0 110.0 0.0 0.262136 0 . . none . LAMA1 458 . NM_005559 exon58 c.T8331G p.F2777L AAGGTCAAACATG . PASS Atlas-SNP KIAA1804 0 hgsc.bcm.edu 37 1 233511675 233511675 + Missense_Mutation SNP A A C rs35758282 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 116.0 53.0 112.0 0.0 0.456897 0 A|0.998;C|0.002 0.002 strong . KIAA1804 129 . NM_032435 exon7 c.A1689C p.E563D AGATGAAAGCAAT . PASS Atlas-SNP TAS2R14 50840 hgsc.bcm.edu 37 12 11091206 11091206 + Missense_Mutation SNP G G A rs35804287 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 77.0 42.0 78.0 0.0 0.545455 0 G|0.989;A|0.011 0.011 strong . TAS2R14 26 . NM_023922 exon1 c.C601T p.L201F AGATGAGGAGAAG . PASS Atlas-SNP SPDEF 25803 hgsc.bcm.edu 37 6 34507305 34507305 + Silent SNP C C T rs374584207 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 190.0 34.0 217.0 0.0 0.178947 0 . . weak . SPDEF 34 . NM_012391 exon4 c.G669A p.A223A GTGAATCGCCCCA . PASS Atlas-SNP IGHMBP2 3508 hgsc.bcm.edu 37 11 68705754 68705754 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 50.0 6.0 65.0 0.0 0.12 0 . . none IGHMBP2,right_upper_lobe,carcinoma,0,1 IGHMBP2 83 1 NM_002180 exon14 c.G2716A p.V906I GCCGGCGTCACAA . PASS Atlas-SNP KLHL42 57542 hgsc.bcm.edu 37 12 27950775 27950775 + Silent SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 52.0 17.0 60.0 0.0 0.326923 0 . . none . . . . NM_020782 exon3 c.G1194A p.G398G GGGGGGGTGTCTC . PASS Atlas-SNP APOLD1 81575 hgsc.bcm.edu 37 12 12940402 12940402 + Missense_Mutation SNP C C T rs146348815 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 80.0 30.0 87.0 0.0 0.375 0 C|1.000;T|0.000 0.000 weak . APOLD1 10 . NM_001130415 exon2 c.C656T p.T219I GGGACACCAAGGT . PASS Atlas-SNP MDGA1 266727 hgsc.bcm.edu 37 6 37605158 37605158 + Missense_Mutation SNP C C T rs201115181 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 101.0 20.0 127.0 0.0 0.19802 0 C|0.999;T|0.001 0.001 strong MDGA1,NS,carcinoma,+2,1 MDGA1 104 1 NM_153487 exon17 c.G2854A p.A952T GCAACGCCAAGAG . PASS Atlas-SNP HIST1H2BL 8340 hgsc.bcm.edu 37 6 27775367 27775367 + Silent SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 94.0 29.0 115.0 0.0 0.308511 0 . . none . HIST1H2BL 48 . NM_003519 exon1 c.G318A p.E106E GGCCAGCTCCCCC . PASS Atlas-SNP ZNF831 128611 hgsc.bcm.edu 37 20 57768655 57768655 + Missense_Mutation SNP G G A rs61743779 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 53.0 30.0 61.0 0.0 0.566038 0 G|0.996;A|0.004 0.004 strong . ZNF831 287 . NM_178457 exon1 c.G2581A p.D861N GATGCCGATCCCG . PASS Atlas-SNP TIGD2 166815 hgsc.bcm.edu 37 4 90034450 90034450 + Missense_Mutation SNP T T C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 76.0 7.0 63.0 0.0 0.0921053 0 . . none . TIGD2 36 . NM_145715 exon1 c.T325C p.F109L AAGTTCTTTTTTG . PASS Atlas-SNP ATM 472 hgsc.bcm.edu 37 11 108124761 108124761 + Missense_Mutation SNP T T C rs4986761 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 41.0 32.0 53.0 0.0 0.780488 0 T|0.993;C|0.007 0.007 strong ATM,NS,carcinoma,0,2 ATM 1657 2 NM_000051 exon13 c.T2119C p.S707P TACTCATCTGAGG . PASS Atlas-SNP VGLL2 245806 hgsc.bcm.edu 37 6 117586990 117586990 + Missense_Mutation SNP T T G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 68.0 24.0 53.0 0.0 0.352941 0 . . none . VGLL2 18 . NM_182645 exon1 c.T64G p.Y22D GCCGCCTACACCC . PASS Atlas-SNP KRTAP19-5 337972 hgsc.bcm.edu 37 21 31874240 31874240 + Missense_Mutation SNP T T C rs117415039 bycluster;byfrequency TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 65.0 24.0 57.0 0.0 0.369231 0 T|0.975;C|0.025 0.025 strong . KRTAP19-5 32 . NM_181611 exon1 c.A169G p.S57G GGCAGCTGCGGTA . PASS Atlas-SNP ADARB2 105 hgsc.bcm.edu 37 10 1246060 1246060 + Silent SNP C C T rs138375235 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 44.0 31.0 47.0 0.0 0.704545 0 C|0.997;T|0.003 0.003 strong . ADARB2 95 . NM_018702 exon8 c.G1710A p.A570A CAGGAGCGCGCCC . PASS Atlas-SNP ASPSCR1 79058 hgsc.bcm.edu 37 17 79941511 79941511 + Silent SNP C C T rs11539917 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 47.0 29.0 59.0 0.0 0.617021 0 C|0.988;T|0.012 0.012 strong ASPSCR1_ENST00000306729,colon,carcinoma,0,1 ASPSCR1 27 1 NM_001251888 exon3 c.C240T p.P80P GGTGCCCGCTTCC . PASS Atlas-SNP DYX1C1 161582 hgsc.bcm.edu 37 15 55789910 55789910 + Missense_Mutation SNP C C T rs17819126 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 47.0 29.0 49.0 0.0 0.617021 0 C|0.959;T|0.041 0.041 strong . DYX1C1 54 . NM_001033560 exon3 c.G271A p.V91I ACTTACCACCCGT . PASS Atlas-SNP TAS1R2 80834 hgsc.bcm.edu 37 1 19181279 19181279 + Missense_Mutation SNP G G A rs140330444 bycluster TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 39.0 14.0 53.0 0.0 0.358974 0 G|1.000;A|0.000 0.000 weak . TAS1R2 134 . NM_152232 exon3 c.C685T p.R229W CGCGCCGGGCCAC . PASS Atlas-SNP LAMA5 3911 hgsc.bcm.edu 37 20 60898891 60898891 + Silent SNP C C T rs138911913 byfrequency TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 51.0 23.0 78.0 0.0 0.45098 0 C|0.999;T|0.001 0.001 strong . LAMA5 268 . NM_005560 exon44 c.G5790A p.L1930L GCCTCGCAGGACA . PASS Atlas-SNP SSX3 10214 hgsc.bcm.edu 37 X 48213499 48213499 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 278.0 109.0 187.0 0.0 0.392086 0 . . none . SSX3 64 . NM_021014 exon4 c.G215A p.R72H TTATTACGCATGA . PASS Atlas-SNP DYNC1H1 1778 hgsc.bcm.edu 37 14 102516487 102516487 + Silent SNP G G A rs35079638 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 91.0 52.0 87.0 0.0 0.571429 0 G|0.998;A|0.002 0.002 strong . DYNC1H1 395 . NM_001376 exon77 c.G13764A p.T4588T CCTGACGCAGCTG . PASS Atlas-SNP PALD1 27143 hgsc.bcm.edu 37 10 72298745 72298745 + Missense_Mutation SNP C C T rs117244352 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 99.0 49.0 115.0 0.0 0.494949 0 C|0.990;T|0.010 0.010 strong . . . . NM_014431 exon13 c.C1550T p.T517M ACGGCACGGCCCA . PASS Atlas-SNP TMEM144 55314 hgsc.bcm.edu 37 4 159161513 159161513 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 89.0 46.0 117.0 0.0 0.516854 0 . . none . TMEM144 34 . NM_018342 exon10 c.G745A p.A249T TTTCTGGCCTACT . PASS Atlas-SNP DGCR2 9993 hgsc.bcm.edu 37 22 19028744 19028744 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 72.0 4.0 72.0 0.0 0.0555556 0 . . none . DGCR2 45 . NM_005137 exon9 c.C1223T p.T408M AGGCCCGTGCCAA . PASS Atlas-SNP SF3B14 0 hgsc.bcm.edu 37 2 24291323 24291323 + Silent SNP G G A rs41281479 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 100.0 49.0 110.0 0.0 0.49 0 G|0.997;A|0.003 0.003 strong . SF3B14 6 . NM_016047 exon3 c.C156T p.N52N AGGTGTGTTCCCC . PASS Atlas-SNP RGAG1 57529 hgsc.bcm.edu 37 X 109696758 109696758 + Silent SNP T T G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 71.0 24.0 62.0 0.0 0.338028 0 . . none . RGAG1 168 . NM_020769 exon3 c.T2913G p.A971A CATGGCTTCTGGA . PASS Atlas-SNP USP37 57695 hgsc.bcm.edu 37 2 219360656 219360656 + Silent SNP T T C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 59.0 21.0 77.0 0.0 0.355932 0 . . none . USP37 76 . NM_020935 exon14 c.A1299G p.L433L CTGACTTAAAAAT . PASS Atlas-SNP KNDC1 85442 hgsc.bcm.edu 37 10 135027195 135027195 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 52.0 10.0 61.0 0.0 0.192308 0 . . none . KNDC1 155 . NM_152643 exon25 c.C4490T p.A1497V CACGGGCCCTGGG . PASS Atlas-SNP RECQL5 9400 hgsc.bcm.edu 37 17 73657118 73657118 + Silent SNP C C T rs149970344 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 155.0 61.0 152.0 0.0 0.393548 0 C|1.000;T|0.000 0.000 weak . RECQL5 77 . NM_001003715 exon6 c.G903A p.V301V GTTCTGCACCAGC . PASS Atlas-SNP PKN3 29941 hgsc.bcm.edu 37 9 131469190 131469190 + Missense_Mutation SNP C C A rs56251280 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 60.0 33.0 49.0 0.0 0.55 0 C|0.996;A|0.004 0.004 strong . PKN3 62 . NM_013355 exon5 c.C539A p.A180E TGCTGGCGGAGGA . PASS Atlas-SNP BCL2A1 597 hgsc.bcm.edu 37 15 80263051 80263051 + Silent SNP G G A rs147879852 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 187.0 94.0 160.0 0.0 0.502674 0 G|1.000;A|0.000 0.000 weak BCL2A1,colon,carcinoma,0,1 BCL2A1 28 1 NM_001114735 exon1 c.C411T p.N137N GCCTCCGTTTTGC . PASS Atlas-SNP DNAH5 1767 hgsc.bcm.edu 37 5 13788927 13788927 + Missense_Mutation SNP T T G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 199.0 37.0 207.0 0.0 0.18593 0 . . none . DNAH5 868 . NM_001369 exon51 c.A8545C p.S2849R CCAAACTTACTAA . PASS Atlas-SNP DHX32 55760 hgsc.bcm.edu 37 10 127548215 127548215 + Missense_Mutation SNP G G A rs201005566 bycluster TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 66.0 34.0 84.0 0.0 0.515152 0 . . weak . DHX32 67 . NM_018180 exon3 c.C806T p.S269L TCACCCGAGTGGT . PASS Atlas-SNP CARKD 55739 hgsc.bcm.edu 37 13 111287893 111287893 + Missense_Mutation SNP G G C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 55.0 40.0 91.0 0.0 0.727273 0 . . none . CARKD 36 . NM_018210 exon8 c.G730C p.V244L ACGGTGGTCCAGA . PASS Atlas-SNP C12orf40 283461 hgsc.bcm.edu 37 12 40041723 40041723 + Missense_Mutation SNP T T A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 103.0 56.0 118.0 1.0 0.543689 0.00847458 . . none C12orf40,NS,carcinoma,-1,1 C12orf40 118 1 NM_001031748 exon6 c.T514A p.S172T TTCACATCTGGAA . scavenged Atlas-SNP TRANK1 9881 hgsc.bcm.edu 37 3 36873866 36873866 + Missense_Mutation SNP T T A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 270.0 153.0 273.0 0.0 0.566667 0 . . none . TRANK1 398 . NM_014831 exon21 c.A7076T p.H2359L CACAGGTGGGTCT . PASS Atlas-SNP LRP2 4036 hgsc.bcm.edu 37 2 170063380 170063380 + Missense_Mutation SNP T T C rs35413340 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 79.0 36.0 85.0 0.0 0.455696 0 T|0.999;C|0.001 0.001 strong . LRP2 751 . NM_004525 exon39 c.A6850G p.T2284A AAACAGTGATGCC . PASS Atlas-SNP RFX8 731220 hgsc.bcm.edu 37 2 102019129 102019129 + Silent SNP C C T rs201832728 bycluster TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 89.0 42.0 81.0 0.0 0.47191 0 . . weak . RFX8 16 . NM_001145664 exon11 c.G1014A p.E338E CATGTCCTCCTCC . PASS Atlas-SNP PAQR7 164091 hgsc.bcm.edu 37 1 26189517 26189517 + Missense_Mutation SNP C C T rs6689014 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 113.0 57.0 101.0 0.0 0.504425 0 C|0.995;T|0.005 0.005 strong . PAQR7 23 . NM_178422 exon2 c.G814A p.G272R CCTGCCCGAAGAC . PASS Atlas-SNP HIST4H4 121504 hgsc.bcm.edu 37 12 14923887 14923887 + Silent SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 83.0 5.0 71.0 0.0 0.060241 0 . . none . HIST4H4 13 . NM_175054 exon1 c.C132T p.V44V GCGCTTGACGCCC . PASS Atlas-SNP TMEM69 51249 hgsc.bcm.edu 37 1 46159157 46159157 + Silent SNP C C T rs61735666 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 92.0 38.0 84.0 0.0 0.413043 0 C|0.996;T|0.004 0.004 strong . TMEM69 20 . NM_016486 exon3 c.C324T p.F108F CCCCTTCGTTGCT . PASS Atlas-SNP SYNCRIP 10492 hgsc.bcm.edu 37 6 86332210 86332210 + Missense_Mutation SNP A A C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 113.0 6.0 93.0 0.0 0.0530973 0 . . none . SYNCRIP 80 . NM_006372 exon8 c.T998G p.V333G GCCATAACCTCAG . PASS Atlas-SNP ZNF318 24149 hgsc.bcm.edu 37 6 43305991 43305991 + Silent SNP A A T rs374528550 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 102.0 58.0 96.0 0.0 0.568627 0 . . weak . ZNF318 175 . NM_014345 exon10 c.T5745A p.V1915V ACTAACAACTGAA . PASS Atlas-SNP GBP1 2633 hgsc.bcm.edu 37 1 89523844 89523844 + Silent SNP G G A rs141095851 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 125.0 62.0 106.0 0.0 0.496 0 G|0.999;A|0.001 0.001 strong . GBP1 68 . NM_002053 exon6 c.C705T p.C235C GACAAAGCATTTT . PASS Atlas-SNP HIST1H2AC 8334 hgsc.bcm.edu 37 6 26124610 26124610 + Silent SNP G G A rs139293879 alternate_allele TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 92.0 24.0 100.0 0.0 0.26087 0 G|1.000;C|0.000 . alt . HIST1H2AC 29 . NM_003512 exon1 c.G150A p.V50V GCCGGTGTACCTG . PASS Atlas-SNP PNPLA1 285848 hgsc.bcm.edu 37 6 36269675 36269675 + Silent SNP T T A rs201231660 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 87.0 61.0 108.0 0.0 0.701149 0 T|1.000;A|0.000 0.000 strong . PNPLA1 92 . NM_001145717 exon6 c.T813A p.I271I AGTGATTTTCCCC . PASS Atlas-SNP TLR3 7098 hgsc.bcm.edu 37 4 187004078 187004078 + Missense_Mutation SNP A A C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 86.0 26.0 101.0 0.0 0.302326 0 . . none . TLR3 83 . NM_003265 exon4 c.A1238C p.N413T TACTCAACCTAAC . PASS Atlas-SNP POLR1A 25885 hgsc.bcm.edu 37 2 86317012 86317012 + Missense_Mutation SNP C C G rs146078741 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 69.0 18.0 152.0 0.0 0.26087 0 C|0.991;G|0.009 0.009 strong . POLR1A 137 . NM_015425 exon4 c.G473C p.R158P TCCTCCCGAATTT . PASS Atlas-SNP PPP2R1B 5519 hgsc.bcm.edu 37 11 111637049 111637049 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 35.0 17.0 24.0 0.0 0.485714 0 . . none . PPP2R1B 44 . NM_001177562 exon1 c.G37A p.A13T CCGCTGCTCCTGG . PASS Atlas-SNP PVRL1 5818 hgsc.bcm.edu 37 11 119548402 119548402 + Missense_Mutation SNP C C T rs78809001 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 208.0 34.0 192.0 0.0 0.163462 0 C|0.991;T|0.009 0.009 strong . PVRL1 133 . NM_002855 exon3 c.G596A p.R199Q GGGTTCCGGATCT . PASS Atlas-SNP ABCC4 10257 hgsc.bcm.edu 37 13 95715014 95715014 + Silent SNP A A G rs11568655 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 81.0 43.0 71.0 0.0 0.530864 0 A|0.966;G|0.034 0.034 strong . ABCC4 248 . NM_005845 exon26 c.T3310C p.L1104L TTGTCAAGATCTT . PASS Atlas-SNP ADIPOQ 9370 hgsc.bcm.edu 37 3 186572089 186572089 + Missense_Mutation SNP T T C rs17366743 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 173.0 69.0 159.0 0.0 0.398844 0 T|0.981;C|0.019 0.019 strong . ADIPOQ 35 . NM_001177800 exon4 c.T331C p.Y111H TATGTATACCGCT . PASS Atlas-SNP RAET1L 154064 hgsc.bcm.edu 37 6 150342155 150342155 + Missense_Mutation SNP C C T rs148198102 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 297.0 144.0 307.0 1.0 0.484848 0.00325733 C|0.994;T|0.006 0.006 strong . RAET1L 21 . NM_130900 exon3 c.G517A p.E173K CATTCTCCCACTT . PASS Atlas-SNP PPP2R3B 28227 hgsc.bcm.edu 37 X 322294 322294 + Missense_Mutation SNP G G A rs200157354 bycluster TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 241.0 161.0 310.0 0.0 0.66805 0 . . weak . PPP2R3B 43 . NM_013239 exon2 c.C356T p.P119L GTGGCCGGGGGCA . PASS Atlas-SNP PTK2 5747 hgsc.bcm.edu 37 8 141711117 141711117 + Missense_Mutation SNP G G C rs185796736 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 140.0 67.0 131.0 0.0 0.478571 0 G|0.999;C|0.001 0.001 strong . PTK2 311 . NM_005607 exon26 c.C2438G p.S813C ACTGTAGAGTCCT . PASS Atlas-SNP SSPO 23145 hgsc.bcm.edu 37 7 149492640 149492640 + Silent SNP G G A rs372238122 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 109.0 58.0 115.0 0.0 0.53211 0 . . weak . . . . NM_198455 exon43 c.G6420A p.P2140P AGTGCCGGAGACT . PASS Atlas-SNP ITGA11 22801 hgsc.bcm.edu 37 15 68654003 68654003 + Missense_Mutation SNP A A G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 57.0 5.0 37.0 0.0 0.0877193 0 . . none . ITGA11 110 . NM_001004439 exon5 c.T397C p.Y133H TGTAGTAGGAGCT . PASS Atlas-SNP BTG2 7832 hgsc.bcm.edu 37 1 203274867 203274867 + Missense_Mutation SNP G G C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 81.0 30.0 90.0 0.0 0.37037 0 . . none BTG2,lymph_node,lymphoid_neoplasm,-1,2 BTG2 16 2 NM_006763 exon1 c.G133C p.A45P CAGGAGGCACTCA . PASS Atlas-SNP SH3PXD2B 285590 hgsc.bcm.edu 37 5 171766135 171766135 + Missense_Mutation SNP T T G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 113.0 28.0 100.0 0.0 0.247788 0 . . none . SH3PXD2B 91 . NM_001017995 exon13 c.A1974C p.E658D TTGGTCTTCGCCC . PASS Atlas-SNP MUC2 4583 hgsc.bcm.edu 37 11 1097794 1097794 + Missense_Mutation SNP A A T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 68.0 5.0 74.0 0.0 0.0735294 0 . . none . MUC2 614 . NM_002457 exon37 c.A6875T p.K2292M CCTCCAAGCCACA . PASS Atlas-SNP CLN8 2055 hgsc.bcm.edu 37 8 1719450 1719450 + Missense_Mutation SNP G G C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 160.0 18.0 140.0 0.0 0.1125 0 . . none . CLN8 64 . NM_018941 exon2 c.G230C p.S77T TTCAGAGCACAGC . PASS Atlas-SNP ZNF577 84765 hgsc.bcm.edu 37 19 52375854 52375854 + Silent SNP T T G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 73.0 18.0 63.0 0.0 0.246575 0 . . none . ZNF577 63 . NM_032679 exon7 c.A1389C p.T463T TTCATTTGTGAGG . PASS Atlas-SNP LRP6 4040 hgsc.bcm.edu 37 12 12279735 12279735 + Missense_Mutation SNP C C T rs34815107 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 93.0 46.0 110.0 0.0 0.494624 0 C|0.994;T|0.006 0.006 strong . LRP6 170 . NM_002336 exon20 c.G4202A p.R1401H TTCATACGTGGAC . PASS Atlas-SNP NPHP4 261734 hgsc.bcm.edu 37 1 6012866 6012866 + Missense_Mutation SNP T T G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 42.0 11.0 42.0 0.0 0.261905 0 . . none . NPHP4 119 . NM_015102 exon7 c.A704C p.K235T ATGGGCTTCTGGA . PASS Atlas-SNP IAH1 285148 hgsc.bcm.edu 37 2 9616161 9616161 + Missense_Mutation SNP C C G rs61732203 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 179.0 178.0 170.0 0.0 0.994413 0 C|0.982;G|0.018 0.018 strong . IAH1 12 . NM_001039613 exon2 c.C127G p.L43V GACAGGCTGGTCA . PASS Atlas-SNP ALK 238 hgsc.bcm.edu 37 2 29449819 29449819 + Silent SNP C C T rs2293563 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 119.0 60.0 126.0 0.0 0.504202 0 C|0.816;T|0.184 0.184 strong ALK,NS,carcinoma,0,1 ALK 533 1 NM_004304 exon18 c.G3036A p.T1012T CAGCACCGTCCCG . PASS Atlas-SNP DYNC1I1 1780 hgsc.bcm.edu 37 7 95442624 95442624 + Missense_Mutation SNP T T A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 63.0 7.0 62.0 0.0 0.111111 0 . . none . DYNC1I1 111 . NM_004411 exon4 c.T340A p.S114T CAAGACTCAGGCG . PASS Atlas-SNP TMEM54 113452 hgsc.bcm.edu 37 1 33361552 33361552 + Missense_Mutation SNP C C T rs139394643 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 37.0 15.0 32.0 0.0 0.405405 0 C|0.998;T|0.002 0.002 strong . TMEM54 12 . NM_033504 exon3 c.G229A p.A77T TGGCTGCGATGCC . PASS Atlas-SNP SLCO6A1 133482 hgsc.bcm.edu 37 5 101834386 101834386 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 122.0 5.0 103.0 0.0 0.0409836 0 . . none . SLCO6A1 153 . NM_173488 exon1 c.C163T p.P55S CCTCTGGAAGTAG . PASS Atlas-SNP MUC17 140453 hgsc.bcm.edu 37 7 100686777 100686777 + Missense_Mutation SNP C C T rs138142210 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 234.0 125.0 220.0 0.0 0.534188 0 C|0.983;T|0.017 0.017 strong MUC17,NS,carcinoma,0,3 MUC17 804 3 NM_001040105 exon3 c.C12080T p.T4027M CATCAACGCTTTC . PASS Atlas-SNP USP36 57602 hgsc.bcm.edu 37 17 76823425 76823425 + Silent SNP G G T rs143701541 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 38.0 22.0 27.0 0.0 0.578947 0 G|0.980;T|0.020 0.020 strong . USP36 243 . NM_025090 exon6 c.C591A p.I197I TCGGGCGATCTCT . PASS Atlas-SNP BPHL 670 hgsc.bcm.edu 37 6 3129402 3129402 + Missense_Mutation SNP G G A rs199698749 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 71.0 25.0 55.0 0.0 0.352113 0 G|1.000;A|0.000 0.000 strong . BPHL 32 . NM_004332 exon4 c.G502A p.V168I GCCTACGTCACTG . PASS Atlas-SNP RABEP2 79874 hgsc.bcm.edu 37 16 28925694 28925694 + Missense_Mutation SNP G G A rs200278634 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 112.0 57.0 116.0 0.0 0.508929 0 . . weak . RABEP2 48 . NM_024816 exon5 c.C757T p.R253C CCTGGCGGCTTTG . PASS Atlas-SNP FBXO39 162517 hgsc.bcm.edu 37 17 6684003 6684003 + Silent SNP C C G rs17731806 bycluster;byfrequency;byhapmap;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 49.0 28.0 42.0 0.0 0.571429 0 C|0.963;G|0.037 0.037 strong . FBXO39 50 . NM_153230 exon2 c.C816G p.S272S TATGTCCTGGGCC . PASS Atlas-SNP PON1 5444 hgsc.bcm.edu 37 7 94953765 94953765 + Missense_Mutation SNP G G C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 48.0 14.0 36.0 0.0 0.291667 0 . . none . PON1 55 . NM_000446 exon1 c.C23G p.T8S AAGAGGGTGAGCG . PASS Atlas-SNP EEFSEC 60678 hgsc.bcm.edu 37 3 128060346 128060346 + Missense_Mutation SNP C C T rs374389896 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 95.0 52.0 122.0 0.0 0.547368 0 . . weak . EEFSEC 53 . NM_021937 exon5 c.C1057T p.P353S TTCAGTCCTGCTC . PASS Atlas-SNP PTPRD 5789 hgsc.bcm.edu 37 9 8376067 8376067 + Missense_Mutation SNP T T G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 56.0 5.0 75.0 0.0 0.0892857 0 . . none . PTPRD 1348 . NM_002839 exon39 c.A4530C p.E1510D TCTCACTTCTCTC . PASS Atlas-SNP SECISBP2 79048 hgsc.bcm.edu 37 9 91954848 91954848 + Missense_Mutation SNP C C G rs45452691 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 43.0 19.0 61.0 0.0 0.44186 0 C|0.961;G|0.039 0.039 strong . SECISBP2 64 . NM_024077 exon9 c.C1282G p.Q428E AAATTTCAATCTA . PASS Atlas-SNP PCDHA13 56136 hgsc.bcm.edu 37 5 140263210 140263210 + Missense_Mutation SNP C C G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 72.0 6.0 75.0 0.0 0.0833333 0 . . none PCDHA13,NS,carcinoma,-2,1 PCDHA13 213 1 NM_031865 exon1 c.C1357G p.P453A AACGCGCCGGCGT . PASS Atlas-SNP HORMAD2 150280 hgsc.bcm.edu 37 22 30518155 30518155 + Silent SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 107.0 52.0 106.0 0.0 0.485981 0 . . none . HORMAD2 12 . NM_152510 exon10 c.C771T p.I257I TGAGATCGCCCAT . PASS Atlas-SNP CIT 11113 hgsc.bcm.edu 37 12 120222830 120222830 + Silent SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 91.0 25.0 107.0 0.0 0.274725 0 . . none . CIT 535 . NM_001206999 exon11 c.C1335T p.S445S CATGGAGCTAGTC . PASS Atlas-SNP C7orf72 100130988 hgsc.bcm.edu 37 7 50175760 50175760 + Missense_Mutation SNP T T G rs149326344 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 114.0 28.0 177.0 0.0 0.245614 0 T|0.999;G|0.001 0.001 strong . C7orf72 26 . NM_001161834 exon5 c.T934G p.F312V ATTAATTTGTAAG . PASS Atlas-SNP WDR90 197335 hgsc.bcm.edu 37 16 705344 705344 + Silent SNP C C A rs144704309 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 26.0 14.0 21.0 0.0 0.538462 0 C|0.999;A|0.001 0.001 strong . WDR90 107 . NM_145294 exon15 c.C1594A p.R532R CTCTGGCGGCTGC . PASS Atlas-SNP ACTG1 71 hgsc.bcm.edu 37 17 79479099 79479099 + Missense_Mutation SNP G G T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 37.0 10.0 74.0 0.0 0.27027 0 . . none . ACTG1 55 . NM_001614 exon3 c.C193A p.L65M GGGTCAGGATGCC . PASS Atlas-SNP TMEM108 66000 hgsc.bcm.edu 37 3 133098806 133098806 + Missense_Mutation SNP C C T rs34111099 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 109.0 55.0 125.0 0.0 0.504587 0 C|0.952;T|0.048 0.048 strong TMEM108,rectum,carcinoma,0,1 TMEM108 67 1 NM_023943 exon4 c.C251T p.P84L CAACACCGACACC . PASS Atlas-SNP NEFM 4741 hgsc.bcm.edu 37 8 24774646 24774646 + Missense_Mutation SNP C C G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 140.0 79.0 148.0 0.0 0.564286 0 . . none . NEFM 115 . NM_005382 exon3 c.C1278G p.H426Q TACACACCGACCC . PASS Atlas-SNP DOCK8 81704 hgsc.bcm.edu 37 9 399255 399255 + Missense_Mutation SNP G G A rs34627722 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 96.0 40.0 138.0 0.0 0.416667 0 G|0.945;A|0.055 0.055 strong . DOCK8 401 . NM_203447 exon26 c.G3230A p.S1077N ATTGCAGCCAGGT . PASS Atlas-SNP FGF5 2250 hgsc.bcm.edu 37 4 81188221 81188221 + Missense_Mutation SNP G G T rs112475347 bycluster;byfrequency TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 111.0 57.0 121.0 0.0 0.513514 0 G|0.998;T|0.002 0.002 strong . FGF5 49 . NM_004464 exon1 c.G243T p.W81C CCAGTGGAGCCCC . PASS Atlas-SNP FEZ2 9637 hgsc.bcm.edu 37 2 36818109 36818109 + Silent SNP T T C rs117617575 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 197.0 92.0 176.0 0.0 0.467005 0 T|0.998;C|0.002 0.002 strong . FEZ2 13 . NM_001042548 exon2 c.A312G p.V104V CCAGTCTACAGGC . PASS Atlas-SNP OR2C1 4993 hgsc.bcm.edu 37 16 3406651 3406651 + Silent SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 81.0 34.0 67.0 0.0 0.419753 0 . . none . OR2C1 38 . NM_012368 exon1 c.G711A p.A237A AAAGGCGTTCAAT . PASS Atlas-SNP SPATA16 83893 hgsc.bcm.edu 37 3 172835469 172835469 + Missense_Mutation SNP T T C rs115897458 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 210.0 92.0 231.0 1.0 0.438095 0.004329 T|0.996;C|0.004 0.004 strong . SPATA16 111 . NM_031955 exon2 c.A53G p.H18R TGATCATGATAGA . PASS Atlas-SNP TTC30A 92104 hgsc.bcm.edu 37 2 178482246 178482246 + Missense_Mutation SNP T T G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 246.0 31.0 241.0 0.0 0.126016 0 . . none . TTC30A 60 . NM_152275 exon1 c.A1184C p.K395T ACTTGCTTGGTGA . PASS Atlas-SNP FAT4 79633 hgsc.bcm.edu 37 4 126329944 126329944 + Missense_Mutation SNP A A T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 62.0 4.0 78.0 0.0 0.0645161 0 . . none . FAT4 1752 . NM_024582 exon4 c.A5915T p.D1972V ATGCAGATGATGG . PASS Atlas-SNP CEL 1056 hgsc.bcm.edu 37 9 135942008 135942008 + Silent SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 52.0 26.0 33.0 0.0 0.5 0 . . none . CEL 71 . NM_001807 exon5 c.C639T p.L213L CACGCTCTTCGGG . PASS Atlas-SNP OR4A47 403253 hgsc.bcm.edu 37 11 48511105 48511105 + Missense_Mutation SNP T T G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 106.0 8.0 89.0 0.0 0.0754717 0 . . none . OR4A47 72 . NM_001005512 exon1 c.T761G p.F254C GTATTTTTATGTA . PASS Atlas-SNP AP1M1 8907 hgsc.bcm.edu 37 19 16318904 16318904 + Silent SNP G G C rs143435975 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 112.0 58.0 109.0 0.0 0.517857 0 G|0.996;C|0.004 0.004 strong . AP1M1 48 . NM_001130524 exon4 c.G342C p.L114L GCTGCTGGACGAG . PASS Atlas-SNP FAT1 2195 hgsc.bcm.edu 37 4 187541971 187541971 + Silent SNP G G A rs372720339 alternate_allele TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 119.0 62.0 135.0 0.0 0.521008 0 . . alt . FAT1 500 . NM_005245 exon10 c.C5769T p.I1923I CTCCCCGATGTTG . PASS Atlas-SNP ESR1 2099 hgsc.bcm.edu 37 6 152201863 152201863 + Silent SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 50.0 4.0 59.0 0.0 0.08 0 . . none . ESR1 94 . NM_000125 exon3 c.C717T p.A239A CCAGGCCTGCCGG . PASS Atlas-SNP DHX57 90957 hgsc.bcm.edu 37 2 39090515 39090515 + Missense_Mutation SNP T T G rs199537184 bycluster TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 58.0 30.0 46.0 0.0 0.517241 0 . . weak . DHX57 127 . NM_198963 exon3 c.A371C p.D124A CCAGCATCAGCAT . PASS Atlas-SNP KIAA1143 57456 hgsc.bcm.edu 37 3 44794955 44794955 + Missense_Mutation SNP T T C rs138479225 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 140.0 72.0 110.0 0.0 0.514286 0 T|0.997;C|0.003 0.003 strong . KIAA1143 10 . NM_020696 exon3 c.A343G p.S115G TTGAGCTTGCTGT . PASS Atlas-SNP GRIK2 2898 hgsc.bcm.edu 37 6 102074485 102074485 + Missense_Mutation SNP G G A rs201893729 bycluster TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 107.0 60.0 96.0 0.0 0.560748 0 G|0.999;A|0.001 0.001 weak GRIK2_ENST00000421544,NS,carcinoma,0,2 GRIK2 487 2 NM_021956 exon3 c.G514A p.V172I AAAACCGTCACGG . PASS Atlas-SNP ANKRD66 100287718 hgsc.bcm.edu 37 6 46721588 46721588 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 109.0 7.0 115.0 0.0 0.0642202 0 . . none . . . . NM_001162435 exon4 c.C458T p.A153V TCCATGCATTGCA . PASS Atlas-SNP KCNMB3 27094 hgsc.bcm.edu 37 3 178962370 178962370 + Silent SNP C C T rs139532669 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 197.0 97.0 177.0 0.0 0.492386 0 C|0.994;T|0.006 0.006 strong . KCNMB3 46 . NM_014407 exon3 c.G372A p.P124P AAGACACGGGTAC . PASS Atlas-SNP RNF123 63891 hgsc.bcm.edu 37 3 49749979 49749979 + Missense_Mutation SNP C C T rs201817210 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 110.0 45.0 126.0 0.0 0.409091 0 C|0.999;T|0.001 0.001 weak . RNF123 100 . NM_022064 exon27 c.C2564T p.T855I ATCGCACAGGGTC . PASS Atlas-SNP BRAT1 221927 hgsc.bcm.edu 37 7 2578924 2578924 + Silent SNP G G A rs61746940 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 162.0 70.0 122.0 0.0 0.432099 0 G|0.998;A|0.002 0.002 strong . BRAT1 57 . NM_152743 exon13 c.C1659T p.L553L CTGGAGGAGCTGC . PASS Atlas-SNP ACTG1 71 hgsc.bcm.edu 37 17 79479108 79479108 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 37.0 9.0 69.0 0.0 0.243243 0 . . none . ACTG1 55 . NM_001614 exon3 c.C184T p.R62C TGCCACGCTTGCT . PASS Atlas-SNP BCCIP 56647 hgsc.bcm.edu 37 10 127541743 127541743 + Silent SNP A A G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 61.0 28.0 79.0 0.0 0.459016 0 . . none . BCCIP 48 . NM_016567 exon8 c.A900G p.L300L TGGACTAATTCAA . PASS Atlas-SNP JAK1 3716 hgsc.bcm.edu 37 1 65313232 65313232 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 126.0 39.0 135.0 0.0 0.309524 0 . . none . JAK1 209 . NM_002227 exon13 c.C1882T p.H628Y CCCTGTGGCTGGG . PASS Atlas-SNP SGK1 6446 hgsc.bcm.edu 37 6 134494280 134494280 + Missense_Mutation SNP T T A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 96.0 20.0 96.0 0.0 0.208333 0 . . none . SGK1 387 . NM_001143676 exon8 c.A715T p.M239L CCGACATAATATG . PASS Atlas-SNP C5orf20 140947 hgsc.bcm.edu 37 5 134782396 134782396 + Missense_Mutation SNP T T A rs67187482 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 79.0 31.0 76.0 0.0 0.392405 0 T|0.905;A|0.095 0.095 strong . C5orf20 16 . NM_130848 exon1 c.A403T p.S135C TGAAACTACAAAC . PASS Atlas-SNP SYNE3 161176 hgsc.bcm.edu 37 14 95884294 95884294 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 81.0 7.0 98.0 0.0 0.0864198 0 . . none . SYNE3 130 . NM_152592 exon17 c.C2797T p.L933F GCAGAAGCAGCTG . PASS Atlas-SNP ARAP3 64411 hgsc.bcm.edu 37 5 141052986 141052986 + Missense_Mutation SNP C C T rs150744263 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 224.0 104.0 259.0 1.0 0.464286 0.003861 C|0.997;T|0.003 0.003 strong . ARAP3 139 . NM_022481 exon6 c.G954A p.M318I AAAGTACATCAGA . PASS Atlas-SNP KRTAP1-3 81850 hgsc.bcm.edu 37 17 39191027 39191027 + Missense_Mutation SNP G G A rs140428118 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 145.0 76.0 166.0 0.0 0.524138 0 G|0.997;A|0.003 0.003 strong . KRTAP1-3 18 . NM_030966 exon1 c.C47T p.T16I CCACTGGTGGAGC . PASS Atlas-SNP ZFYVE20 64145 hgsc.bcm.edu 37 3 15126313 15126313 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 123.0 58.0 119.0 0.0 0.471545 0 . . none . ZFYVE20 61 . NM_022340 exon8 c.G527A p.R176H TGGTGGCGGCGGT . PASS Atlas-SNP UHRF2 115426 hgsc.bcm.edu 37 9 6413643 6413643 + Silent SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 14.0 5.0 22.0 0.0 0.357143 0 . . none . UHRF2 50 . NM_152896 exon1 c.G153A p.Q51Q CAAGCAGGTGAGG . PASS Atlas-SNP TFDP3 51270 hgsc.bcm.edu 37 X 132352230 132352230 + Missense_Mutation SNP C C G rs28455963 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 134.0 52.0 66.0 0.0 0.38806 0 C|0.877;G|0.123 0.123 strong . TFDP3 92 . NM_016521 exon1 c.G58C p.E20Q GGTTCTCGTCCAT . PASS Atlas-SNP LDHAL6A 160287 hgsc.bcm.edu 37 11 18485611 18485611 + Missense_Mutation SNP T T C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 67.0 25.0 56.0 0.0 0.373134 0 . . none . LDHAL6A 35 . NM_144972 exon2 c.T230C p.I77T CAAATATTGTCTC . PASS Atlas-SNP HMCN1 83872 hgsc.bcm.edu 37 1 186121995 186121995 + Missense_Mutation SNP A A T rs114364265 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 169.0 72.0 158.0 0.0 0.426035 0 A|0.996;T|0.004 0.004 strong . HMCN1 797 . NM_031935 exon96 c.A15010T p.T5004S GAAGTCACTGTAA . PASS Atlas-SNP HCFC1 3054 hgsc.bcm.edu 37 X 153223257 153223257 + Silent SNP C C T rs3027888 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 98.0 22.0 66.0 0.0 0.22449 0 C|0.998;T|0.002 0.002 strong . HCFC1 284 . NM_005334 exon12 c.G2109A p.T703T AGGACCCGTGGAC . PASS Atlas-SNP RORA 6095 hgsc.bcm.edu 37 15 61521304 61521304 + Silent SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 45.0 18.0 49.0 0.0 0.4 0 . . none . RORA 114 . NM_134261 exon1 c.G114A p.K38K CTCGCTCTTGCGG . PASS Atlas-SNP TMEM155 132332 hgsc.bcm.edu 37 4 122682720 122682720 + Missense_Mutation SNP C C T rs138330999 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 243.0 125.0 261.0 0.0 0.514403 0 C|0.995;T|0.005 0.005 strong TMEM155,NS,carcinoma,0,1 TMEM155 17 1 NM_152399 exon5 c.G185A p.R62H TGCAAGCGAACCA . PASS Atlas-SNP ZNF577 84765 hgsc.bcm.edu 37 19 52375907 52375907 + Silent SNP T T G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 76.0 17.0 83.0 0.0 0.223684 0 . . none ZNF577,colon,carcinoma,+1,1 ZNF577 63 1 NM_032679 exon7 c.A1336C p.R446R GATTTCTTGGAAA . PASS Atlas-SNP HIST1H2AD 3013 hgsc.bcm.edu 37 6 26199193 26199193 + Silent SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 164.0 31.0 182.0 0.0 0.189024 0 . . none HIST1H2AD,NS,lymphoid_neoplasm,0,1 HIST1H2AD 20 1 NM_021065 exon1 c.G279A p.E93E GTTTAGCTCCTCG . PASS Atlas-SNP PLEKHG1 57480 hgsc.bcm.edu 37 6 151152250 151152250 + Missense_Mutation SNP A A G rs148178393 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 71.0 35.0 55.0 0.0 0.492958 0 A|0.991;G|0.009 0.009 strong . PLEKHG1 97 . NM_001029884 exon16 c.A2003G p.D668G ATGAGGACTTAAA . PASS Atlas-SNP GPR128 84873 hgsc.bcm.edu 37 3 100328750 100328750 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 254.0 113.0 225.0 0.0 0.444882 0 . . none . GPR128 126 . NM_032787 exon1 c.G50A p.C17Y TCGTGTGTGGACT . PASS Atlas-SNP PRKAA1 5562 hgsc.bcm.edu 37 5 40798278 40798278 + Missense_Mutation SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 117.0 22.0 83.0 0.0 0.188034 0 . . none . PRKAA1 27 . NM_006251 exon1 c.G14A p.S5N CAGGAACTGAGTC . PASS Atlas-SNP PLP2 5355 hgsc.bcm.edu 37 X 49029758 49029758 + Silent SNP G G A rs145837656 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 60.0 24.0 38.0 0.0 0.4 0 G|1.000;A|0.000 0.000 weak . PLP2 25 . NM_002668 exon3 c.G273A p.A91A CATAGCGGCAATC . PASS Atlas-SNP LY6G5C 80741 hgsc.bcm.edu 37 6 31647044 31647044 + Silent SNP A A G rs143778717 bycluster;byfrequency TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 69.0 18.0 80.0 0.0 0.26087 0 A|0.999;G|0.001 0.001 strong . LY6G5C 8 . NM_025262 exon2 c.T123C p.G41G AAACTTACCTAGA . PASS Atlas-SNP C9orf114 51490 hgsc.bcm.edu 37 9 131585086 131585086 + Silent SNP G G C rs35677895 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 119.0 63.0 97.0 0.0 0.529412 0 G|0.990;C|0.010 0.010 strong . C9orf114 28 . NM_016390 exon12 c.C1089G p.A363A CTGCAGGGCGGCC . PASS Atlas-SNP DHX33 56919 hgsc.bcm.edu 37 17 5364393 5364393 + Missense_Mutation SNP A A G rs141223137 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 70.0 28.0 61.0 0.0 0.4 0 A|0.996;G|0.004 0.004 strong DHX33,NS,carcinoma,+2,3 DHX33 41 3 NM_020162 exon4 c.T715C p.F239L GAGAGAACAGGTC . PASS Atlas-SNP SPATA31D1 389763 hgsc.bcm.edu 37 9 84610059 84610059 + Silent SNP T T C rs200816660 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 18.0 11.0 29.0 0.0 0.611111 0 T|0.999;C|0.001 0.001 strong . . . . NM_001001670 exon4 c.T4674C p.T1558T CCTAACTGGACAG . PASS Atlas-SNP DUSP8 1850 hgsc.bcm.edu 37 11 1580172 1580172 + Missense_Mutation SNP T T A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 121.0 34.0 119.0 0.0 0.280992 0 . . none . DUSP8 22 . NM_004420 exon4 c.A484T p.T162S TGCGGGTCAGGCC . PASS Atlas-SNP EGFR 1956 hgsc.bcm.edu 37 7 55238874 55238874 + Silent SNP T T A rs2227984 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 40.0 14.0 59.0 0.0 0.35 0 T|0.645;A|0.355 0.355 strong . EGFR 20426 . NM_005228 exon16 c.T1887A p.T629T ATGCACTGGGCCA . PASS Atlas-SNP CYP26A1 1592 hgsc.bcm.edu 37 10 94835624 94835624 + Silent SNP C C T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 94.0 4.0 75.0 0.0 0.0425532 0 . . none . CYP26A1 59 . NM_000783 exon5 c.C906T p.H302H AGGACACGAAACC . PASS Atlas-SNP TNK2 10188 hgsc.bcm.edu 37 3 195594931 195594931 + Silent SNP C C T rs200272067 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 45.0 21.0 50.0 0.0 0.466667 0 C|0.997;T|0.003 0.003 strong . TNK2 246 . NM_001010938 exon13 c.G2427A p.P809P ACCCCCCGGGCTG . PASS Atlas-SNP TMPRSS15 5651 hgsc.bcm.edu 37 21 19704490 19704490 + Missense_Mutation SNP G G A rs146718638 bycluster TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 84.0 36.0 62.0 0.0 0.428571 0 G|1.000;A|0.000 0.000 weak . TMPRSS15 189 . NM_002772 exon14 c.C1565T p.T522M CAGTCCGCTGAAA . PASS Atlas-SNP CHMP1A 5119 hgsc.bcm.edu 37 16 89715813 89715813 + Missense_Mutation SNP C C T rs201479143 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 80.0 44.0 92.0 0.0 0.55 0 C|0.999;T|0.001 0.001 strong . CHMP1A 15 . NM_001083314 exon3 c.G178A p.V60I GCGGGACGCCATC . PASS Atlas-SNP SCAF8 22828 hgsc.bcm.edu 37 6 155114112 155114112 + Splice_Site SNP T T A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 61.0 26.0 84.0 0.0 0.42623 0 . . none . SCAF8 122 . NM_014892 exon5 c.475+2T>A . TCCAGGTATGTTG . PASS Atlas-SNP KRTAP9-2 83899 hgsc.bcm.edu 37 17 39383217 39383217 + Missense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 132.0 42.0 148.0 0.0 0.318182 0 . . none . KRTAP9-2 24 . NM_031961 exon1 c.G311A p.S104N GGTCCAGCTGTGG . PASS Atlas-SNP DNMT3L 29947 hgsc.bcm.edu 37 21 45670790 45670790 + Missense_Mutation SNP C C T rs113593938 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 159.0 88.0 110.0 0.0 0.553459 0 C|0.996;T|0.004 0.004 strong . DNMT3L 33 . NM_013369 exon10 c.G812A p.R271Q TTGGGCCGTGCGT . PASS Atlas-SNP MAML2 84441 hgsc.bcm.edu 37 11 95713077 95713077 + Missense_Mutation SNP C C T rs34520053 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 191.0 37.0 149.0 0.0 0.193717 0 C|0.986;T|0.014 0.014 strong . MAML2 94 . NM_032427 exon5 c.G2506A p.V836I TTGAAACTGGGTT . PASS Atlas-SNP SERPINA10 51156 hgsc.bcm.edu 37 14 94750408 94750408 + Missense_Mutation SNP A A C rs117152910 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 86.0 42.0 60.0 0.0 0.488372 0 A|0.993;C|0.007 0.007 strong SERPINA10,caecum,carcinoma,+1,1 SERPINA10 83 1 NM_001100607 exon5 c.T1229G p.M410R GGAGGCATGGAAT . PASS Atlas-SNP GPR20 2843 hgsc.bcm.edu 37 8 142367087 142367087 + Missense_Mutation SNP C C T rs34591516 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 80.0 36.0 103.0 0.0 0.45 0 C|0.934;T|0.066 0.066 strong . GPR20 43 . NM_005293 exon2 c.G937A p.G313S GCTGGCCGAAGAG . PASS Atlas-SNP DMRT3 58524 hgsc.bcm.edu 37 9 990235 990235 + Missense_Mutation SNP C C T rs61737966 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 29.0 16.0 35.0 0.0 0.551724 0 C|0.995;T|0.005 0.005 strong . DMRT3 83 . NM_021240 exon2 c.C649T p.R217C GAGAGCCGCCCTG . PASS Atlas-SNP NBEAL2 23218 hgsc.bcm.edu 37 3 47046485 47046485 + Silent SNP C C T rs141569354 bycluster;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 86.0 39.0 84.0 0.0 0.453488 0 C|0.995;T|0.005 0.005 strong . NBEAL2 267 . NM_015175 exon39 c.C6318T p.Y2106Y GGACTACGTGTCC . PASS Atlas-SNP FEM1A 55527 hgsc.bcm.edu 37 19 4793128 4793128 + Missense_Mutation SNP A A C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 52.0 20.0 43.0 0.0 0.384615 0 . . none . FEM1A 41 . NM_018708 exon1 c.A1262C p.Q421P TGCAACAGAGCAA . PASS Atlas-SNP PIEZO1 9780 hgsc.bcm.edu 37 16 88782777 88782777 + Silent SNP G G A rs34352064 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 56.0 24.0 45.0 0.0 0.428571 0 G|0.995;A|0.005 0.005 strong . PIEZO1 79 . NM_001142864 exon48 c.C7041T p.D2347D AGACTGGTCCGAG . PASS Atlas-SNP PCSK5 5125 hgsc.bcm.edu 37 9 78789900 78789900 + Splice_Site SNP A A C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 153.0 10.0 164.0 0.0 0.0653595 0 . . none PCSK5_ENST00000545128,NS,carcinoma,0,3 PCSK5 329 3 NM_001190482 exon14 c.1757-2A>C . TTCTCAAGGTAAA . PASS Atlas-SNP UBAP2 55833 hgsc.bcm.edu 37 9 33998847 33998847 + Missense_Mutation SNP T T C rs149441020 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 16.0 11.0 25.0 0.0 0.6875 0 T|0.999;C|0.001 0.001 strong . UBAP2 82 . NM_018449 exon3 c.A115G p.M39V GACGCATCTGTTC . PASS Atlas-SNP OR7G3 390883 hgsc.bcm.edu 37 19 9237554 9237554 + Missense_Mutation SNP G G A rs138008445 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 132.0 62.0 113.0 0.0 0.469697 0 G|0.995;A|0.005 0.005 strong . OR7G3 41 . NM_001001958 exon1 c.C73T p.P25S GGATGGGCTGCAG . PASS Atlas-SNP FOXO1 2308 hgsc.bcm.edu 37 13 41240299 41240299 + Silent SNP C C A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 11.0 5.0 3.0 0.0 0.454545 0 . . none . FOXO1 110 . NM_002015 exon1 c.G51T p.L17L CCGGGGCAGCGGC . PASS Atlas-SNP ALG14 199857 hgsc.bcm.edu 37 1 95538342 95538342 + Missense_Mutation SNP C C A rs139521179 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 61.0 29.0 58.0 0.0 0.47541 0 C|0.997;A|0.003 0.003 strong . ALG14 13 . NM_144988 exon1 c.G113T p.S38I AAGATACTGAGAG . PASS Atlas-SNP ME2 4200 hgsc.bcm.edu 37 18 48447462 48447462 + Missense_Mutation SNP A A C rs59409558 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 108.0 47.0 82.0 0.0 0.435185 0 A|0.991;C|0.009 0.009 strong . ME2 49 . NM_001168335 exon10 c.A961C p.N321H ATTGCAAATCTTA . PASS Atlas-SNP COL24A1 255631 hgsc.bcm.edu 37 1 86591014 86591014 + Silent SNP T T C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 183.0 12.0 207.0 0.0 0.0655738 0 . . none . COL24A1 202 . NM_152890 exon3 c.A1005G p.K335K CATTTCTTTGGCC . PASS Atlas-SNP HGSNAT 138050 hgsc.bcm.edu 37 8 43053062 43053062 + Missense_Mutation SNP G G C rs148632988 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 236.0 123.0 209.0 0.0 0.521186 0 G|0.995;C|0.005 0.005 strong . HGSNAT 85 . NM_152419 exon17 c.G1693C p.G565R GTGAAGGGGCTGT . PASS Atlas-SNP ARSI 340075 hgsc.bcm.edu 37 5 149677635 149677635 + Silent SNP G G A rs139203947 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 47.0 23.0 44.0 0.0 0.489362 0 G|0.999;A|0.001 0.001 strong . ARSI 65 . NM_001012301 exon2 c.C852T p.Y284Y GAAACCGTAGCGC . PASS Atlas-SNP WASF3 10810 hgsc.bcm.edu 37 13 27250805 27250805 + Missense_Mutation SNP G G T rs139779405 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 69.0 34.0 72.0 0.0 0.492754 0 A|0.000;G|0.999;T|0.001 0.001 strong . WASF3 68 . NM_006646 exon7 c.G660T p.L220F CAGGTTGTCTCAG . PASS Atlas-SNP C12orf77 196415 hgsc.bcm.edu 37 12 25148824 25148824 + Missense_Mutation SNP G G T novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 209.0 58.0 178.0 0.0 0.277512 0 . . none . C12orf77 18 . NM_001101339 exon3 c.C324A p.N108K TTCCGTGTTCATA . PASS Atlas-SNP SGK1 6446 hgsc.bcm.edu 37 6 134495683 134495683 + Missense_Mutation SNP G G C novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 46.0 16.0 70.0 0.0 0.347826 0 . . none SGK1_ENST00000367858,NS,lymphoid_neoplasm,0,2 SGK1 387 2 NM_001143676 exon4 c.C403G p.Q135E TCTTCTGAATAAA . PASS Atlas-SNP CLCC1 23155 hgsc.bcm.edu 37 1 109477406 109477406 + Silent SNP C C T rs150029224 byfrequency TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 203.0 102.0 228.0 1.0 0.502463 0.00438596 C|1.000;T|0.000 0.000 strong . CLCC1 55 . NM_001048210 exon11 c.G1542A p.K514K CTGGGCCTTTTCC . PASS Atlas-SNP LAMA4 3910 hgsc.bcm.edu 37 6 112493894 112493894 + Missense_Mutation SNP T T A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 100.0 41.0 109.0 0.0 0.41 0 . . none . LAMA4 227 . NM_001105206 exon12 c.A1470T p.E490D AAGTGCTTCCTGG . PASS Atlas-SNP MBOAT7 79143 hgsc.bcm.edu 37 19 54687453 54687453 + Silent SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 121.0 40.0 121.0 0.0 0.330579 0 . . none . MBOAT7 37 . NM_001146082 exon5 c.C444T p.S148S CATCAGGGAGGGC . PASS Atlas-SNP GRM6 2916 hgsc.bcm.edu 37 5 178415983 178415983 + Missense_Mutation SNP G G A rs5019554 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 122.0 49.0 163.0 0.0 0.401639 0 A|0.008;G|0.992 0.008 strong . GRM6 149 . NM_000843 exon6 c.C1307T p.T436I CCATCAGTGGGTT . PASS Atlas-SNP SYNGAP1 8831 hgsc.bcm.edu 37 6 33409006 33409006 + Nonsense_Mutation SNP G G A novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 118.0 11.0 70.0 0.0 0.0932203 0 . . none . SYNGAP1 202 . NM_006772 exon12 c.G1970A p.W657X TGGAATGGGGTTC . PASS Atlas-SNP TMEM135 65084 hgsc.bcm.edu 37 11 87020670 87020670 + Missense_Mutation SNP T T G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 70.0 20.0 65.0 0.0 0.285714 0 . . none . TMEM135 40 . NM_022918 exon10 c.T892G p.F298V GAAAACTTCCAGC . PASS Atlas-SNP WDR49 151790 hgsc.bcm.edu 37 3 167240215 167240215 + Missense_Mutation SNP C C T rs202225646 bycluster TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 72.0 39.0 47.0 0.0 0.541667 0 . . weak . WDR49 188 . NM_178824 exon12 c.G1606A p.V536M TTTCCACTAAATT . PASS Atlas-SNP SASH1 23328 hgsc.bcm.edu 37 6 148840980 148840980 + Missense_Mutation SNP C C T rs116958992 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 16.0 6.0 21.0 0.0 0.375 0 C|0.994;T|0.006 0.006 strong . SASH1 123 . NM_015278 exon10 c.C1160T p.S387F CCCGCTCCCTCAC . PASS Atlas-SNP WNT7B 7477 hgsc.bcm.edu 37 22 46319203 46319203 + Missense_Mutation SNP G G A rs147287645 TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 66.0 18.0 63.0 0.0 0.272727 0 G|1.000;A|0.000 0.000 weak . WNT7B 45 . NM_058238 exon4 c.C583T p.R195W GCATCCGGTCCTC . PASS Atlas-SNP BAZ1B 9031 hgsc.bcm.edu 37 7 72883898 72883898 + Missense_Mutation SNP G G A rs145043036 bycluster;byfrequency;by1000genomes TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 117.0 59.0 136.0 0.0 0.504274 0 G|0.999;A|0.001 0.001 strong . BAZ1B 147 . NM_032408 exon9 c.C2815T p.H939Y AGTGATGGTTGAA . PASS Atlas-SNP IZUMO1 284359 hgsc.bcm.edu 37 19 49245518 49245518 + Missense_Mutation SNP T T G novel TCGA-GR-7351-01A-11D-2210-10 TCGA-GR-7351-10A-01D-2210-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq dff37268-b20d-4489-a9af-6238d218ebcf 60d6b362-2bad-47dd-99c9-ad7df3203fd6 129.0 31.0 134.0 0.0 0.24031 0 . . none . IZUMO1 30 . NM_182575 exon7 c.A548C p.E183A TTTAACTCACAGT . PASS Atlas-SNP