Hugo_Symbol Entrez_Gene_Id Center NCBI_Build Chromosome Start_position End_position Strand Variant_Classification Variant_Type Reference_Allele Tumor_Seq_Allele1 Tumor_Seq_Allele2 dbSNP_RS dbSNP_Val_Status Tumor_Sample_Barcode Matched_Norm_Sample_Barcode Match_Norm_Seq_Allele1 Match_Norm_Seq_Allele2 Tumor_Validation_Allele1 Tumor_Validation_Allele2 Match_Norm_Validation_Allele1 Match_Norm_Validation_Allele2 Verification_Status Validation_Status Mutation_Status Sequencing_Phase Sequence_Source Validation_Method Score BAM_File Sequencer Tumor_Sample_UUID Matched_Norm_Sample_UUID COSMIC_Codon COSMIC_Gene Transcript_Id Exon ChromChange AAChange Genome_Plus_Minus_10_Bp Drug_Target TTotCov TVarCov NTotCov NVarCov dbSNPPopFreq COSMIC_Gene_Freq COSMIC_Site_Freq TVarRat NVarRat dbSNP_Strength dbSNP_AF dbSNP_PopFreq Confidence Algorithm WDTC1 23038 hgsc.bcm.edu hg19 1 27631607 27631607 + Nonsense_Mutation SNP C C T novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 WDTC1,NS,carcinoma,0,1 WDTC1 NM_001276252 exon15 c.C1759T p.Q587X TGCCTGCAGCCAC . 86.0 19.0 69.0 0.0 . 69 . . . none . . PASS Atlas-SNP PHACTR4 65979 hgsc.bcm.edu hg19 1 28792196 28792196 + Missense_Mutation SNP G G A novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . PHACTR4 NM_023923 exon4 c.G302A p.G101D TTGCAGGTGGTGA . 108.0 29.0 114.0 0.0 . 64 . . . none . . PASS Atlas-SNP CSMD2 114784 hgsc.bcm.edu hg19 1 34008360 34008360 + Silent SNP C C A rs199932348 alternate_allele TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . CSMD2 NM_052896 exon57 c.G8805T p.S2935S ATTGACCGAGCAG . 85.0 28.0 83.0 0.0 . 946 . . . alt C|0.999;T|0.001 . PASS Atlas-SNP EPS15 2060 hgsc.bcm.edu hg19 1 51929372 51929372 + Silent SNP A A T novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 .,1 EPS15 NM_001981 exon7 c.T474A p.S158S TAACTTAGAGTTG . 58.0 11.0 40.0 0.0 . 72 . . . none . . PASS Atlas-SNP TMED5 50999 hgsc.bcm.edu hg19 1 93621899 93621899 + Silent SNP A A G novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . TMED5 NM_001167830 exon3 c.T429C p.I143I GCCAGTAATATAT . 97.0 24.0 105.0 0.0 . 16 . . . none . . PASS Atlas-SNP FMO5 2330 hgsc.bcm.edu hg19 1 146658726 146658726 + Missense_Mutation SNP A A G novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . FMO5 NM_001461 exon9 c.T1355C p.L452P AAGGCCAGAGACA . 119.0 33.0 111.0 0.0 . 94 . . . none . . PASS Atlas-SNP ATP1B1 481 hgsc.bcm.edu hg19 1 169096621 169096621 + Missense_Mutation SNP A A G novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . ATP1B1 NM_001677 exon4 c.A542G p.N181S AGCTCAACCGAGT . 79.0 22.0 111.0 0.0 . 29 . . . none . . PASS Atlas-SNP PPP1R12B 4660 hgsc.bcm.edu hg19 1 202464697 202464697 + Splice_Site SNP G G C novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . PPP1R12B NM_002481 exon17 c.2336-1G>C . TGGCCAGAGAATG . 82.0 22.0 81.0 0.0 . 100 . . . none . . PASS Atlas-SNP FCAMR 83953 hgsc.bcm.edu hg19 1 207131928 207131928 + Missense_Mutation SNP A A T novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . FCAMR NM_001170631 exon8 c.T1667A p.M556K TGGAGCATCTTTC . 79.0 18.0 87.0 0.0 . 125 . . . none . . PASS Atlas-SNP CDC42BPA 8476 hgsc.bcm.edu hg19 1 227182594 227182594 + Nonsense_Mutation SNP G G T novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 CDC42BPA_ENST00000366769,NS,carcinoma,0,3 CDC42BPA NM_003607 exon35 c.C4958A p.S1653X CCCTCTGACGGGG . 40.0 9.0 59.0 0.0 . 528 . . . none . . PASS Atlas-SNP OBSCN 84033 hgsc.bcm.edu hg19 1 228482711 228482711 + Missense_Mutation SNP C C A novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . OBSCN NM_001271223 exon48 c.C12913A p.Q4305K TGCGGGCAGGAGA . 117.0 29.0 161.0 0.0 . 2142 . . . none . . PASS Atlas-SNP AAK1 22848 hgsc.bcm.edu hg19 2 69732772 69732772 + Missense_Mutation SNP T T A novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . AAK1 NM_014911 exon16 c.A2198T p.E733V AAACTCTCAGCTG . 87.0 29.0 85.0 0.0 . 121 . . . none . . PASS Atlas-SNP FAM136A 84908 hgsc.bcm.edu hg19 2 70529069 70529069 + Missense_Mutation SNP G G C novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . FAM136A NM_032822 exon1 c.C75G p.I25M CTTCCGGATGTTC . 102.0 25.0 95.0 0.0 . 14 . . . none . . PASS Atlas-SNP RTKN 6242 hgsc.bcm.edu hg19 2 74657138 74657138 + Missense_Mutation SNP A A G novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . RTKN NM_001015055 exon6 c.T572C p.L191P AACCGCAGTTCAA . 128.0 32.0 131.0 0.0 . 80 . . . none . . PASS Atlas-SNP TTN 7273 hgsc.bcm.edu hg19 2 179482094 179482094 + Missense_Mutation SNP C C G novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . TTN NM_001267550 exon254 c.G47718C p.W15906C ACGAATCCAATTA . 115.0 23.0 140.0 0.0 . 18412 . . . none . . PASS Atlas-SNP DNAH12 201625 hgsc.bcm.edu hg19 3 57419487 57419487 + Missense_Mutation SNP G G A novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . DNAH12 NM_178504 exon31 c.C4655T p.T1552I ATTAAAGTTAGCG . 78.0 16.0 75.0 0.0 . 182 . . . none . . PASS Atlas-SNP DNAJC13 23317 hgsc.bcm.edu hg19 3 132165336 132165336 + Missense_Mutation SNP C C T novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . DNAJC13 NM_015268 exon3 c.C86T p.S29L TCTTTTCAGTTGG . 93.0 26.0 77.0 0.0 . 253 . . . none . . PASS Atlas-SNP PSMD2 5708 hgsc.bcm.edu hg19 3 184020504 184020504 + Missense_Mutation SNP C C A novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 PSMD2,NS,carcinoma,0,1 PSMD2 NM_002808 exon7 c.C901A p.H301N GGCCGGCATGGGG . 69.0 17.0 97.0 0.0 . 56 . . . none . . PASS Atlas-SNP KNG1 3827 hgsc.bcm.edu hg19 3 186459563 186459563 + Missense_Mutation SNP G G T novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . KNG1 NM_001102416 exon10 c.G1378T p.G460C GGACATGGCCTTG . 177.0 45.0 214.0 0.0 . 129 . . . none . . PASS Atlas-SNP FBXL5 26234 hgsc.bcm.edu hg19 4 15638133 15638133 + Silent SNP A A G novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . FBXL5 NM_012161 exon5 c.T750C p.P250P ATGAACAGGGTAA . 121.0 28.0 91.0 0.0 . 52 . . . none . . PASS Atlas-SNP SLC34A2 10568 hgsc.bcm.edu hg19 4 25667838 25667838 + Missense_Mutation SNP G G C novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . SLC34A2 NM_006424 exon5 c.G468C p.L156F CGTCTTGGTGCAG . 71.0 28.0 52.0 0.0 . 93 . . . none . . PASS Atlas-SNP RNF150 57484 hgsc.bcm.edu hg19 4 141868823 141868823 + Missense_Mutation SNP C C T novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . RNF150 NM_020724 exon4 c.G875A p.R292Q AGGATCCGGACAA . 337.0 62.0 274.0 0.0 . 94 . . . none . . PASS Atlas-SNP FAT1 2195 hgsc.bcm.edu hg19 4 187509944 187509944 + Nonsense_Mutation SNP A A T novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . FAT1 NM_005245 exon27 c.T13569A p.Y4523X TCTTTGATACCCT . 154.0 29.0 134.0 0.0 . 500 . . . none . . PASS Atlas-SNP CDH12 1010 hgsc.bcm.edu hg19 5 22078621 22078621 + Silent SNP G G A novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . CDH12 NM_004061 exon5 c.C165T p.G55G TACCCAGCCACGT . 141.0 47.0 150.0 0.0 . 238 . . . none . . PASS Atlas-SNP AP3B1 8546 hgsc.bcm.edu hg19 5 77536710 77536710 + Missense_Mutation SNP C C A novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . AP3B1 NM_003664 exon3 c.G255T p.K85N CACATTCTTCACA . 612.0 150.0 661.0 0.0 . 94 . . . none . . PASS Atlas-SNP PRDM6 93166 hgsc.bcm.edu hg19 5 122435363 122435363 + Missense_Mutation SNP G G A novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . PRDM6 NM_001136239 exon3 c.G607A p.A203T ATGTGCGCGGACA . 79.0 23.0 96.0 0.0 . 26 . . . none . . PASS Atlas-SNP MEGF10 84466 hgsc.bcm.edu hg19 5 126705644 126705644 + Missense_Mutation SNP C C G novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . MEGF10 NM_032446 exon6 c.C362G p.P121R TTGCTCCAAACAC . 51.0 16.0 52.0 0.0 . 152 . . . none . . PASS Atlas-SNP KDM3B 51780 hgsc.bcm.edu hg19 5 137760025 137760025 + Missense_Mutation SNP G G C novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . KDM3B NM_016604 exon16 c.G4234C p.G1412R AAGCAAGGTCAGG . 99.0 25.0 107.0 0.0 . 177 . . . none . . PASS Atlas-SNP FAM71B 153745 hgsc.bcm.edu hg19 5 156590429 156590429 + Missense_Mutation SNP C C T novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . FAM71B NM_130899 exon2 c.G847A p.A283T CTATTGCCACATC . 53.0 15.0 55.0 0.0 . 145 . . . none . . PASS Atlas-SNP ECI2 10455 hgsc.bcm.edu hg19 6 4131018 4131018 + Missense_Mutation SNP G G A novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . ECI2 NM_206836 exon3 c.C295T p.L99F TGCCAAGGGCATT . 91.0 25.0 104.0 0.0 . 59 . . . none . . PASS Atlas-SNP MRS2 57380 hgsc.bcm.edu hg19 6 24405466 24405466 + Silent SNP T T C novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . MRS2 NM_020662 exon2 c.T261C p.T87T ATTTACTGTGGTG . 43.0 12.0 64.0 0.0 . 31 . . . none . . PASS Atlas-SNP SLC25A27 9481 hgsc.bcm.edu hg19 6 46626712 46626712 + Silent SNP T T A novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . SLC25A27 NM_001204051 exon3 c.T312A p.G104G TGGAGGTCGAATG . 128.0 31.0 140.0 0.0 . 22 . . . none . . PASS Atlas-SNP CASP8AP2 9994 hgsc.bcm.edu hg19 6 90571848 90571848 + Silent SNP G G A novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . CASP8AP2 NM_001137667 exon7 c.G420A p.L140L TAGATTGTCTGAG . 86.0 22.0 102.0 0.0 . 108 . . . none . . PASS Atlas-SNP L3MBTL3 84456 hgsc.bcm.edu hg19 6 130415502 130415502 + Missense_Mutation SNP G G A novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . L3MBTL3 NM_032438 exon18 c.G1726A p.G576S CATCTGGGCCCTC . 95.0 23.0 91.0 0.0 . 99 . . . none . . PASS Atlas-SNP ZMIZ2 83637 hgsc.bcm.edu hg19 7 44801088 44801088 + Silent SNP G G A novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . ZMIZ2 NM_031449 exon10 c.G1281A p.V427V CCCTGTGCGCGAT . 37.0 10.0 58.0 0.0 . 82 . . . none . . PASS Atlas-SNP PKD1L1 168507 hgsc.bcm.edu hg19 7 47832364 47832364 + Nonsense_Mutation SNP A A T novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . PKD1L1 NM_138295 exon56 c.T8387A p.L2796X TCGTCTAACAGAT . 92.0 26.0 83.0 0.0 . 328 . . . none . . PASS Atlas-SNP CADPS2 93664 hgsc.bcm.edu hg19 7 121960313 121960313 + Missense_Mutation SNP C C T novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . CADPS2 NM_001167940 exon30 c.G3809A p.R1270H GTTAAACGTCTGT . 93.0 20.0 76.0 0.0 . 116 . . . none . . PASS Atlas-SNP TRPV5 56302 hgsc.bcm.edu hg19 7 142609899 142609899 + Missense_Mutation SNP G G T novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . TRPV5 NM_019841 exon13 c.C1537A p.Q513K CTGTCTGGAAAAT . 96.0 25.0 113.0 0.0 . 164 . . . none . . PASS Atlas-SNP SLC7A2 6542 hgsc.bcm.edu hg19 8 17419548 17419548 + Missense_Mutation SNP C C A novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . SLC7A2 NM_001164771 exon10 c.C1720A p.L574I CTGTTTCTTGTTC . 40.0 15.0 39.0 0.0 . 157 . . . none . . PASS Atlas-SNP ANXA13 312 hgsc.bcm.edu hg19 8 124705533 124705533 + Silent SNP C C T novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . ANXA13 NM_001003954 exon9 c.G669A p.G223G GCCTTCCCCTGCC . 123.0 36.0 109.0 0.0 . 38 . . . none . . PASS Atlas-SNP IZUMO3 100129669 hgsc.bcm.edu hg19 9 24544202 24544202 + Missense_Mutation SNP C C T novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . . NM_001271706 exon4 c.G469A p.G157R TACCTCCACAATA . 77.0 21.0 101.0 0.0 . . . . . none . . PASS Atlas-SNP SMC5 23137 hgsc.bcm.edu hg19 9 72961521 72961521 + Missense_Mutation SNP C C A novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . SMC5 NM_015110 exon19 c.C2524A p.Q842K ATTCAGCAAGTAC . 138.0 38.0 144.0 0.0 . 96 . . . none . . PASS Atlas-SNP C9orf84 158401 hgsc.bcm.edu hg19 9 114500784 114500784 + Missense_Mutation SNP G G A novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . C9orf84 NM_173521 exon10 c.C1001T p.P334L CTGTGGGGCTCTT . 56.0 12.0 52.0 0.0 . 207 . . . none . . PASS Atlas-SNP HSDL2 84263 hgsc.bcm.edu hg19 9 115179215 115179215 + Nonsense_Mutation SNP C C T novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . HSDL2 NM_032303 exon5 c.C490T p.Q164X TTCAAACAGCACT . 57.0 19.0 70.0 0.0 . 24 . . . none . . PASS Atlas-SNP DENND1A 57706 hgsc.bcm.edu hg19 9 126144822 126144822 + Missense_Mutation SNP C C G novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . DENND1A NM_020946 exon22 c.G1919C p.S640T CCCAGGCTCCAGA . 53.0 13.0 85.0 0.0 . 112 . . . none . . PASS Atlas-SNP NOTCH1 4851 hgsc.bcm.edu hg19 9 139409835 139409835 + Missense_Mutation SNP T T A novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . NOTCH1 NM_017617 exon12 c.A1921T p.N641Y CCAGGTTGATCTC . 82.0 18.0 81.0 0.0 . 1980 . . . none . . PASS Atlas-SNP ITGA8 8516 hgsc.bcm.edu hg19 10 15688924 15688924 + Silent SNP G G A novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 ITGA8,colon,carcinoma,0,1 ITGA8 NM_003638 exon12 c.C1128T p.I376I AGTGAGGATCTGG . 126.0 29.0 123.0 0.0 . 230 . . . none . . PASS Atlas-SNP FZD8 8325 hgsc.bcm.edu hg19 10 35929628 35929628 + Nonsense_Mutation SNP C C A novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . FZD8 NM_031866 exon1 c.G730T p.E244X GGCGCTCGCTGGA . 39.0 12.0 45.0 0.0 . 41 . . . none . . PASS Atlas-SNP KAT6B 23522 hgsc.bcm.edu hg19 10 76789888 76789888 + Missense_Mutation SNP G G A novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . . NM_012330 exon18 c.G5306A p.C1769Y CTCAGTGCAGCAT . 69.0 13.0 86.0 0.0 . . . . . none . . PASS Atlas-SNP CRTAC1 55118 hgsc.bcm.edu hg19 10 99656744 99656744 + Missense_Mutation SNP T T G novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . CRTAC1 NM_001206528 exon9 c.A1138C p.I380L TACGGATGACGCT . 33.0 10.0 54.0 0.0 . 86 . . . none . . PASS Atlas-SNP OR51I2 390064 hgsc.bcm.edu hg19 11 5475536 5475536 + Missense_Mutation SNP A A G novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . OR51I2 NM_001004754 exon1 c.A818G p.H273R ACATACATGTCCT . 47.0 14.0 77.0 0.0 . 76 . . . none . . PASS Atlas-SNP DNHD1 144132 hgsc.bcm.edu hg19 11 6588531 6588531 + Missense_Mutation SNP T T A novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . DNHD1 NM_144666 exon36 c.T11792A p.V3931E CCCAAGTACCCTT . 76.0 21.0 78.0 0.0 . 198 . . . none . . PASS Atlas-SNP CKAP5 9793 hgsc.bcm.edu hg19 11 46832664 46832664 + Missense_Mutation SNP A A G novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . CKAP5 NM_001008938 exon5 c.T523C p.S175P CTCGAGACTCAAA . 120.0 39.0 128.0 0.0 . 134 . . . none . . PASS Atlas-SNP PPP1CA 5499 hgsc.bcm.edu hg19 11 67168588 67168588 + Silent SNP A A G novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . PPP1CA NM_001008709 exon2 c.T171C p.F57F GCTCAGAAAAATC . 100.0 26.0 102.0 0.0 . 83 . . . none . . PASS Atlas-SNP ARHGEF17 9828 hgsc.bcm.edu hg19 11 73022203 73022203 + Silent SNP T T A novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . ARHGEF17 NM_014786 exon1 c.T2520A p.P840P TGGGCCTGGATTC . 121.0 47.0 146.0 0.0 . 117 . . . none . . PASS Atlas-SNP TXNRD1 7296 hgsc.bcm.edu hg19 12 104681125 104681125 + Splice_Site SNP G G T novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . TXNRD1 NM_003330 exon1 c.10+1G>T . CATGTGGTAGGTG . 53.0 14.0 65.0 0.0 . 77 . . . none . . PASS Atlas-SNP WDR66 144406 hgsc.bcm.edu hg19 12 122389412 122389412 + Silent SNP C C T novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . WDR66 NM_001178003 exon9 c.C1296T p.H432H GGCTCACAGTGCC . 97.0 24.0 102.0 0.0 . 143 . . . none . . PASS Atlas-SNP DIAPH3 81624 hgsc.bcm.edu hg19 13 60384950 60384950 + Silent SNP C C T novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 DIAPH3,right_lower_lobe,carcinoma,0,1 DIAPH3 NM_001042517 exon25 c.G3135A p.K1045K CTTTTTCTTTTGT . 69.0 16.0 73.0 0.0 . 139 . . . none . . PASS Atlas-SNP BCL2L2-PABPN1 100529063 hgsc.bcm.edu hg19 14 23792661 23792661 + Missense_Mutation SNP C C A rs145369012 alternate_allele TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . . NM_001199864 exon6 c.C691A p.L231M ACCATACTGTGTG . 58.0 12.0 47.0 0.0 . . . . . alt C|1.000;T|0.000 . PASS Atlas-SNP DOC2A 8448 hgsc.bcm.edu hg19 16 30021517 30021517 + Missense_Mutation SNP C C T novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . DOC2A NM_003586 exon2 c.G27A p.M9I GATGGTCATGCGA . 70.0 8.0 113.0 0.0 . 40 . . . none . . PASS Atlas-SNP SLC5A2 6524 hgsc.bcm.edu hg19 16 31500225 31500225 + Silent SNP A A T novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . SLC5A2 NM_003041 exon11 c.A1305T p.V435V CGTGGTAGTGTCG . 40.0 11.0 46.0 0.0 . 58 . . . none . . PASS Atlas-SNP BRD7 29117 hgsc.bcm.edu hg19 16 50373920 50373920 + Silent SNP C C T rs150219867 TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . BRD7 NM_013263 exon6 c.G669A p.K223K CAACAGCTTCTTT . 165.0 45.0 156.0 0.0 . 61 . . . weak C|1.000;T|0.000 0.000 PASS Atlas-SNP IST1 9798 hgsc.bcm.edu hg19 16 71950997 71950997 + Missense_Mutation SNP C C A novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . . NM_001270976 exon5 c.C356A p.A119D TCTGGGCTGCTCC . 50.0 11.0 56.0 0.0 . . . . . none . . PASS Atlas-SNP C16orf46 123775 hgsc.bcm.edu hg19 16 81094893 81094893 + Missense_Mutation SNP A A T novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . C16orf46 NM_001100873 exon3 c.T1061A p.V354D GGGAGAACATGCT . 94.0 26.0 87.0 0.0 . 57 . . . none . . PASS Atlas-SNP MED11 400569 hgsc.bcm.edu hg19 17 4636405 4636405 + Missense_Mutation SNP G G A rs376931968 TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . MED11 NM_001001683 exon3 c.G277A p.A93T CAGATGGCTCTGA . 69.0 31.0 92.0 0.0 . 5 . . . weak . . PASS Atlas-SNP NLRP1 22861 hgsc.bcm.edu hg19 17 5461748 5461748 + Silent SNP G G A novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . NLRP1 NM_033007 exon4 c.C2268T p.F756F AATGCAGAAAGTG . 65.0 24.0 134.0 0.0 . 358 . . . none . . PASS Atlas-SNP FLCN 201163 hgsc.bcm.edu hg19 17 17117172 17117172 + Splice_Site SNP T T G novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . FLCN NM_144997 exon15 c.1539-2A>C . CTTTGCTGAAGAA . 33.0 10.0 37.0 0.0 . 87 . . . none . . PASS Atlas-SNP MED1 5469 hgsc.bcm.edu hg19 17 37566430 37566430 + Missense_Mutation SNP A A T novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . MED1 NM_004774 exon17 c.T2044A p.S682T TCCCCGAGCATAT . 122.0 69.0 122.0 0.0 . 123 . . . none . . PASS Atlas-SNP KRT24 192666 hgsc.bcm.edu hg19 17 38858105 38858105 + Silent SNP C C A novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . KRT24 NM_019016 exon2 c.G696T p.L232L TTACTTCAGTCTG . 524.0 88.0 381.0 0.0 . 60 . . . none . . PASS Atlas-SNP CCR10 2826 hgsc.bcm.edu hg19 17 40831918 40831918 + Missense_Mutation SNP C C G novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . CCR10 NM_016602 exon2 c.G742C p.V248L CCACGACGCGCAG . 67.0 32.0 42.0 0.0 . 7 . . . none . . PASS Atlas-SNP LGALS3BP 3959 hgsc.bcm.edu hg19 17 76972059 76972059 + Missense_Mutation SNP C C A novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . LGALS3BP NM_005567 exon3 c.G232T p.A78S CGAAGGCAGCTCT . 115.0 25.0 109.0 0.0 . 47 . . . none . . PASS Atlas-SNP ILVBL 10994 hgsc.bcm.edu hg19 19 15230035 15230035 + Silent SNP G G C rs372631950 alternate_allele TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . ILVBL NM_006844 exon9 c.C993G p.L331L GATGTGGAGGGGG . 95.0 24.0 114.0 0.0 . 54 . . . alt . . PASS Atlas-SNP OCEL1 79629 hgsc.bcm.edu hg19 19 17338767 17338767 + Missense_Mutation SNP A A G novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . OCEL1 NM_024578 exon4 c.A571G p.R191G AAGCTCAGGCAGC . 66.0 16.0 90.0 0.0 . 20 . . . none . . PASS Atlas-SNP ZNF302 55900 hgsc.bcm.edu hg19 19 35175271 35175271 + Missense_Mutation SNP C C T novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . ZNF302 NM_018443 exon5 c.C329T p.S110L AATTTTCAAATTC . 579.0 137.0 638.0 1.0 . 27 . . . none . . PASS Atlas-SNP DBP 1628 hgsc.bcm.edu hg19 19 49136816 49136816 + Missense_Mutation SNP C C T novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . DBP NM_001352 exon3 c.G647A p.S216N GGAATGCTTGATA . 71.0 20.0 69.0 0.0 . 16 . . . none . . PASS Atlas-SNP ZNF615 284370 hgsc.bcm.edu hg19 19 52496921 52496921 + Missense_Mutation SNP C C G novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . ZNF615 NM_001199324 exon7 c.G1441C p.D481H TGAGGTCACTCTT . 117.0 35.0 104.0 0.0 . 111 . . . none . . PASS Atlas-SNP GPCPD1 56261 hgsc.bcm.edu hg19 20 5528358 5528358 + Missense_Mutation SNP C C A novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . GPCPD1 NM_019593 exon20 c.G1968T p.E656D ATCAGACTCCCCA . 200.0 88.0 173.0 0.0 . 52 . . . none . . PASS Atlas-SNP MYT1 4661 hgsc.bcm.edu hg19 20 62839660 62839660 + Missense_Mutation SNP G G A novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . MYT1 NM_004535 exon7 c.G1111A p.D371N ATGCAGGACATGA . 219.0 92.0 197.0 0.0 . 152 . . . none . . PASS Atlas-SNP MRPL39 54148 hgsc.bcm.edu hg19 21 26979768 26979768 + Missense_Mutation SNP C C T rs115649519 bycluster;byfrequency;by1000genomes;alternate_allele TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . MRPL39 NM_017446 exon1 c.G20A p.G7D CGGGAACCCATGG . 27.0 5.0 33.0 0.0 . 61 . . . alt C|0.999;A|0.001 . PASS Atlas-SNP TUBA8 51807 hgsc.bcm.edu hg19 22 18609451 18609451 + Missense_Mutation SNP T T C novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . TUBA8 NM_018943 exon4 c.T706C p.S236P ATTGTGTCCTCAA . 99.0 35.0 87.0 0.0 . 36 . . . none . . PASS Atlas-SNP LZTR1 8216 hgsc.bcm.edu hg19 22 21340180 21340180 + Missense_Mutation SNP G G T novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 LZTR1,NS,carcinoma,0,1 LZTR1 NM_006767 exon3 c.G314T p.W105L GCTCCTGGTGCAG . 54.0 19.0 50.0 0.0 . 99 . . . none . . PASS Atlas-SNP CACNG2 10369 hgsc.bcm.edu hg19 22 37098524 37098524 + Missense_Mutation SNP C C G novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . CACNG2 NM_006078 exon1 c.G98C p.W33S TAGAGCCAATAGT . 115.0 37.0 135.0 0.0 . 43 . . . none . . PASS Atlas-SNP UPK3A 7380 hgsc.bcm.edu hg19 22 45689097 45689097 + Missense_Mutation SNP C C T rs200899354 by1000genomes;alternate_allele TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . UPK3A NM_006953 exon5 c.C607T p.R203W CCAGGCCGGCGGA . 63.0 14.0 51.0 0.0 . 14 . . . alt C|1.000;A|0.000 . PASS Atlas-SNP MXRA5 25878 hgsc.bcm.edu hg19 X 3242168 3242168 + Missense_Mutation SNP T T C novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . MXRA5 NM_015419 exon5 c.A1558G p.I520V TCAGGATGGAGCC . 167.0 29.0 114.0 0.0 . 815 . . . none . . PASS Atlas-SNP P2RY10 27334 hgsc.bcm.edu hg19 X 78216602 78216602 + Silent SNP G G A novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . P2RY10 NM_198333 exon2 c.G585A p.L195L TGCGTTGGTCGGG . 150.0 48.0 94.0 0.0 . 99 . . . none . . PASS Atlas-SNP FRMD7 90167 hgsc.bcm.edu hg19 X 131212370 131212370 + Missense_Mutation SNP C C T rs140383991 bycluster TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . FRMD7 NM_194277 exon12 c.G1675A p.G559S TCCTACCGCTAGT . 150.0 25.0 126.0 0.0 . 69 . . . weak C|1.000;T|0.000 0.000 PASS Atlas-SNP COX2 5743 hgsc.bcm.edu hg19 MT 7958 7958 + Missense_Mutation SNP C C T novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . . ENST00000361739 exon1 c.C373T p.P125S CTTCCCCCATTAT . 89.0 11.0 29.0 0.0 . . . . . none . . PASS Atlas-SNP TNPO1 3842 hgsc.bcm.edu hg19 5 72192967 72192968 + Frame_Shift_Ins INS - - AG novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . TNPO1 NM_002270 exon20 c.2327_2328insAG p.L776fs . . 226.0 51.0 228.0 0.0 . 90 . 0.225664 0 none . . PASS Atlas-Indel,Pindel UGT1A5 54579 hgsc.bcm.edu hg19 2 234675730 234675741 + In_Frame_Del DEL CTCTTTGGGATC CTCTTTGGGATC - novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 CTCTTTGGGATC CTCTTTGGGATC . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . UGT1A5 NM_019078 exon2 c.917_928del p.306_310del . . 109.0 30.0 93.0 0.0 . 66 . 0.275229 0 none . . PASS Atlas-Indel,Pindel PRAMEF1 65121 hgsc.bcm.edu hg19 1 12854245 12854246 + Frame_Shift_Ins INS - - AA novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . PRAMEF1 NM_023013 exon3 c.469_470insAA p.E157fs . . 168.0 12.0 165.0 0.0 . 78 . 0.0714286 0 none . . PASS Atlas-Indel,Pindel MAP3K4 4216 hgsc.bcm.edu hg19 6 161470102 161470103 + Frame_Shift_Del DEL AG AG - novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 AG AG . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . MAP3K4 NM_006724 exon3 c.797_798del p.266_266del . . 187.0 57.0 233.0 0.0 . 364 . 0.304813 0 none . . PASS Atlas-Indel,Pindel PON2 5445 hgsc.bcm.edu hg19 7 95064242 95064247 + In_Frame_Del DEL CCACAG CCACAG - novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 CCACAG CCACAG . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . PON2 NM_000305 exon1 c.18_23del p.6_8del . . 101.0 18.0 101.0 0.0 . 32 . 0.178218 0 none . . PASS Atlas-Indel,Pindel SCNN1B 6338 hgsc.bcm.edu hg19 16 23391419 23391421 + In_Frame_Del DEL GGA GGA - novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 GGA GGA . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . SCNN1B NM_000336 exon12 c.1470_1472del p.490_491del . . 128.0 38.0 144.0 0.0 . 81 . 0.296875 0 none . . PASS Atlas-Indel,Pindel GAPVD1 26130 hgsc.bcm.edu hg19 9 128104522 128104522 + Frame_Shift_Del DEL A A - novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . GAPVD1 NM_015635 exon18 c.3070delG p.E1024fs . . 66.0 26.0 43.0 0.0 . 124 . 0.393939 0 none . . PASS Atlas-Indel,Pindel BIRC6 57448 hgsc.bcm.edu hg19 2 32740159 32740160 + Frame_Shift_Ins INS - - TC novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . BIRC6 NM_016252 exon55 c.10671_10672insTC p.F3557fs . . 74.0 15.0 87.0 0.0 . 838 . 0.202703 0 none . . PASS Atlas-Indel,Pindel PRAMEF13 400736 hgsc.bcm.edu hg19 1 13449601 13449601 + Frame_Shift_Del DEL T T - novel TCGA-WN-AB4C-01A-11D-A42J-10 TCGA-WN-AB4C-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4f3eeaa4-6cb3-4b92-bdcb-4a9da48af742 b00bdf7f-b2b2-4333-add6-643ac5104d48 . PRAMEF13 NM_001024661 exon3 c.826delT p.L276X . . 135.0 20.0 144.0 0.0 . 10 . 0.148148 0 none . . PASS Atlas-Indel,Pindel