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 TNFRSF18 8784 hgsc.bcm.edu hg19 1 1141898 1141898 + Silent SNP C C A novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . TNFRSF18 NM_148902 exon1 c.G54T p.L18L GCACAGCAGCGCC . 98.0 48.0 106.0 0.0 . 13 . . . none . . PASS Atlas-SNP PTCHD2 57540 hgsc.bcm.edu hg19 1 11562062 11562062 + Missense_Mutation SNP C C T novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . PTCHD2 NM_020780 exon2 c.C1013T p.S338L CCAGCTCGCTCAT . 102.0 45.0 133.0 0.0 . 193 . . . none . . PASS Atlas-SNP PTCHD2 57540 hgsc.bcm.edu hg19 1 11585336 11585336 + Silent SNP G G T novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . PTCHD2 NM_020780 exon12 c.G2580T p.V860V GGCTGTGTCGCCT . 84.0 30.0 95.0 0.0 . 193 . . . none . . PASS Atlas-SNP VPS13D 55187 hgsc.bcm.edu hg19 1 12318000 12318000 + Missense_Mutation SNP A A T novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . VPS13D NM_015378 exon10 c.A950T p.E317V GCCGAGAATGGTG . 82.0 32.0 110.0 0.0 . 316 . . . none . . PASS Atlas-SNP MAP3K6 9064 hgsc.bcm.edu hg19 1 27685320 27685320 + Missense_Mutation SNP C C A novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . MAP3K6 NM_004672 exon19 c.G2463T p.Q821H TGGGCCCTGGTCA . 69.0 33.0 73.0 0.0 . 134 . . . none . . PASS Atlas-SNP SFPQ 6421 hgsc.bcm.edu hg19 1 35657092 35657092 + Silent SNP T T C novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . SFPQ NM_005066 exon2 c.A867G p.G289G TTTCTCTCCAGGC . 125.0 49.0 136.0 0.0 . 51 . . . none . . PASS Atlas-SNP AKIRIN1 79647 hgsc.bcm.edu hg19 1 39469081 39469081 + Missense_Mutation SNP C C A novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . AKIRIN1 NM_024595 exon4 c.C559A p.P187T ACAAGGCCAACAA . 44.0 16.0 73.0 0.0 . 7 . . . none . . PASS Atlas-SNP USP24 23358 hgsc.bcm.edu hg19 1 55604356 55604356 + Silent SNP A A G novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . USP24 NM_015306 exon26 c.T2853C p.H951H GGCACCATGAGGT . 92.0 46.0 144.0 0.0 . 323 . . . none . . PASS Atlas-SNP ZRANB2 9406 hgsc.bcm.edu hg19 1 71532486 71532486 + Missense_Mutation SNP C C G novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . ZRANB2 NM_005455 exon9 c.G902C p.R301T GTTCGTCTTTTTT . 176.0 59.0 139.0 0.0 . 75 . . . none . . PASS Atlas-SNP ATP8B2 57198 hgsc.bcm.edu hg19 1 154315937 154315937 + Missense_Mutation SNP C C G novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . ATP8B2 NM_020452 exon17 c.C1750G p.P584A CGGAATCCAGAGG . 66.0 28.0 64.0 0.0 . 158 . . . none . . PASS Atlas-SNP ADI1 55256 hgsc.bcm.edu hg19 2 3523139 3523139 + Silent SNP C C T novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . ADI1 NM_018269 exon1 c.G120A p.K40K GCGTACCTTCCAG . 59.0 28.0 51.0 0.0 . 12 . . . none . . PASS Atlas-SNP PPP1R21 129285 hgsc.bcm.edu hg19 2 48738524 48738524 + Missense_Mutation SNP A A C novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . PPP1R21 NM_001135629 exon21 c.A2230C p.M744L TTAAGTATGATGA . 134.0 58.0 143.0 0.0 . 47 . . . none . . PASS Atlas-SNP USP34 9736 hgsc.bcm.edu hg19 2 61417473 61417473 + Missense_Mutation SNP T T G novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . USP34 NM_014709 exon78 c.A9806C p.Y3269S TTCTGATACTGGC . 143.0 63.0 137.0 0.0 . 334 . . . none . . PASS Atlas-SNP TTN 7273 hgsc.bcm.edu hg19 2 179391818 179391818 + Missense_Mutation SNP C C A novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . TTN NM_001267550 exon363 c.G107897T p.G35966V AGTCCACCATCTT . 100.0 46.0 106.0 0.0 . 18412 . . . none . . PASS Atlas-SNP SLC23A3 151295 hgsc.bcm.edu hg19 2 220027074 220027074 + Missense_Mutation SNP T T C novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . SLC23A3 NM_001144890 exon11 c.A1508G p.Q503R ATGGGCTGTGTCA . 62.0 30.0 65.0 0.0 . 60 . . . none . . PASS Atlas-SNP PPARG 5468 hgsc.bcm.edu hg19 3 12447494 12447494 + Missense_Mutation SNP C C T novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . PPARG NM_015869 exon5 c.C733T p.H245Y GCAAAACATTTGT . 137.0 32.0 126.0 0.0 . 49 . . . none . . PASS Atlas-SNP MYD88 4615 hgsc.bcm.edu hg19 3 38180443 38180443 + Silent SNP C C A novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . MYD88 NM_002468 exon1 c.C291A p.A97A TGGCGCCTCTGTA . 98.0 24.0 54.0 0.0 . 900 . . . none . . PASS Atlas-SNP TPRA1 131601 hgsc.bcm.edu hg19 3 127298938 127298938 + Missense_Mutation SNP G G A novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . TPRA1 NM_001142646 exon2 c.C52T p.P18S GGGGTGGGGGTAG . 69.0 23.0 64.0 0.0 . 21 . . . none . . PASS Atlas-SNP HGFAC 3083 hgsc.bcm.edu hg19 4 3443800 3443800 + Silent SNP G G C rs372137428 TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . HGFAC NM_001528 exon1 c.G72C p.L24L CCTCCTGCTGCTG . 54.0 4.0 56.0 0.0 . 69 . . . weak . . PASS Atlas-SNP AASDH 132949 hgsc.bcm.edu hg19 4 57215435 57215435 + Missense_Mutation SNP C C T novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . AASDH NM_181806 exon11 c.G2482A p.V828M CCACCACAATAAA . 91.0 43.0 122.0 0.0 . 101 . . . none . . PASS Atlas-SNP NKX6-1 4825 hgsc.bcm.edu hg19 4 85418816 85418816 + Missense_Mutation SNP C C T novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . NKX6-1 NM_006168 exon1 c.G566A p.R189Q GGGTACCGGCCCA . 80.0 34.0 82.0 0.0 . 38 . . . none . . PASS Atlas-SNP EDIL3 10085 hgsc.bcm.edu hg19 5 83402477 83402477 + Missense_Mutation SNP G G A novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . EDIL3 NM_005711 exon6 c.C641T p.P214L ATCCACGGCCATC . 93.0 39.0 113.0 0.0 . 94 . . . none . . PASS Atlas-SNP COMMD10 51397 hgsc.bcm.edu hg19 5 115428295 115428295 + Silent SNP T T A novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . COMMD10 NM_016144 exon4 c.T297A p.I99I GAACATTCATCTT . 85.0 42.0 67.0 0.0 . 18 . . . none . . PASS Atlas-SNP PCDHGA2 56113 hgsc.bcm.edu hg19 5 140719649 140719649 + Missense_Mutation SNP G G A novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . PCDHGA2 NM_018915 exon1 c.G1111A p.V371I TTTAATGTACATG . 86.0 41.0 79.0 0.0 . 205 . . . none . . PASS Atlas-SNP SPARC 6678 hgsc.bcm.edu hg19 5 151043688 151043688 + Silent SNP G G T novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . SPARC NM_003118 exon9 c.C843A p.I281I CAGGGCGATGTAC . 84.0 4.0 87.0 0.0 . 38 . . . none . . PASS Atlas-SNP BTN2A1 11120 hgsc.bcm.edu hg19 6 26459730 26459730 + Missense_Mutation SNP C C A novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . BTN2A1 NM_001197234 exon3 c.C104A p.P35H TGGGGCCCACTGA . 87.0 39.0 132.0 0.0 . 118 . . . none . . PASS Atlas-SNP TREML1 340205 hgsc.bcm.edu hg19 6 41119115 41119115 + Missense_Mutation SNP T T A novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . TREML1 NM_178174 exon3 c.A384T p.E128D CTCTTCTTCTTCC . 75.0 35.0 87.0 0.0 . 20 . . . none . . PASS Atlas-SNP PKHD1 5314 hgsc.bcm.edu hg19 6 51890829 51890829 + Missense_Mutation SNP G G A rs112182862 TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . PKHD1 NM_170724 exon32 c.C3779T p.A1260V GCGCCCGCATCGG . 77.0 25.0 105.0 0.0 . 927 . . . weak G|0.500;A|0.500 0.500 PASS Atlas-SNP PNRC1 10957 hgsc.bcm.edu hg19 6 89793815 89793815 + Missense_Mutation SNP A A T novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . PNRC1 NM_006813 exon2 c.A884T p.K295M TTCCAAAGCCTCC . 251.0 105.0 321.0 1.0 . 17 . . . none . . PASS Atlas-SNP SESN1 27244 hgsc.bcm.edu hg19 6 109315799 109315799 + Missense_Mutation SNP A A G novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . SESN1 NM_014454 exon6 c.T986C p.F329S TCAAAGAAAGAAT . 66.0 26.0 91.0 0.0 . 29 . . . none . . PASS Atlas-SNP KIAA1244 57221 hgsc.bcm.edu hg19 6 138657620 138657620 + Silent SNP G G T novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . KIAA1244 NM_020340 exon34 c.G6531T p.V2177V CATTGTGTAGCCG . 75.0 27.0 113.0 0.0 . 236 . . . none . . PASS Atlas-SNP SP8 221833 hgsc.bcm.edu hg19 7 20824956 20824956 + Silent SNP C C G rs201180283 TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . SP8 NM_182700 exon2 c.G480C p.G160G GCCGCCCCCGCCG . 154.0 13.0 85.0 0.0 . 43 . . . weak . . PASS Atlas-SNP CYP51A1 1595 hgsc.bcm.edu hg19 7 91761140 91761140 + Missense_Mutation SNP G G T novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . CYP51A1 NM_000786 exon2 c.C239A p.A80D GCTATGGCATGCC . 569.0 183.0 446.0 1.0 . 30 . . . none . . PASS Atlas-SNP LAMB4 22798 hgsc.bcm.edu hg19 7 107746348 107746348 + Missense_Mutation SNP G G A novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c LAMB4,colon,carcinoma,0,3 LAMB4 NM_007356 exon8 c.C784T p.R262W TTCCCCGAACAAT . 127.0 78.0 100.0 0.0 . 253 . . . none . . PASS Atlas-SNP DNAJB9 4189 hgsc.bcm.edu hg19 7 108213747 108213747 + Nonsense_Mutation SNP C C T novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . DNAJB9 NM_012328 exon3 c.C622T p.Q208X GTCACTCAACGAA . 83.0 20.0 62.0 0.0 . 25 . . . none . . PASS Atlas-SNP LUC7L2 51631 hgsc.bcm.edu hg19 7 139056209 139056209 + Nonsense_Mutation SNP G G T novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . LUC7L2 NM_001244585 exon2 c.G52T p.G18X AGAATGGGTAAAG . 109.0 31.0 87.0 0.0 . 49 . . . none . . PASS Atlas-SNP SLC10A5 347051 hgsc.bcm.edu hg19 8 82606176 82606176 + Silent SNP A A G novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . SLC10A5 NM_001010893 exon1 c.T1032C p.P344P CAAAGCAGGAACT . 68.0 36.0 112.0 0.0 . 35 . . . none . . PASS Atlas-SNP ZFAT 57623 hgsc.bcm.edu hg19 8 135614212 135614212 + Missense_Mutation SNP A A G novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . ZFAT NM_020863 exon6 c.T1750C p.S584P CTGAGGAGGAGAC . 62.0 35.0 46.0 0.0 . 265 . . . none . . PASS Atlas-SNP CCDC166 100130274 hgsc.bcm.edu hg19 8 144790026 144790026 + Missense_Mutation SNP T T C novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . CCDC166 NM_001162914 exon1 c.A254G p.Q85R CAGCGCTGGGCGC . 30.0 15.0 51.0 0.0 . 1 . . . none . . PASS Atlas-SNP CCDC166 100130274 hgsc.bcm.edu hg19 8 144790027 144790027 + Missense_Mutation SNP G G T novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . CCDC166 NM_001162914 exon1 c.C253A p.Q85K AGCGCTGGGCGCG . 31.0 16.0 50.0 0.0 . 1 . . . none . . PASS Atlas-SNP EPPK1 83481 hgsc.bcm.edu hg19 8 144947044 144947044 + Nonsense_Mutation SNP G G T rs377574983 alternate_allele TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c EPPK1,bladder,carcinoma,0,1 EPPK1 NM_031308 exon1 c.C378A p.Y126X ACCGCCGTAGGGG . 139.0 60.0 136.0 0.0 . 199 . . . alt . . PASS Atlas-SNP DDX58 23586 hgsc.bcm.edu hg19 9 32467857 32467857 + Silent SNP G G A novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . DDX58 NM_014314 exon15 c.C2088T p.A696A TGAGGTGGCAATC . 136.0 61.0 107.0 0.0 . 82 . . . none . . PASS Atlas-SNP RUSC2 9853 hgsc.bcm.edu hg19 9 35548396 35548396 + Missense_Mutation SNP C C A novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . RUSC2 NM_014806 exon2 c.C1878A p.H626Q ACCCCACTCCAGT . 47.0 17.0 57.0 0.0 . 88 . . . none . . PASS Atlas-SNP CEL 1056 hgsc.bcm.edu hg19 9 135939799 135939799 + Silent SNP C C T novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . CEL NM_001807 exon2 c.C84T p.A28A GGGCGCCGTGTAC . 74.0 5.0 66.0 0.0 . 71 . . . none . . PASS Atlas-SNP CACNA1B 774 hgsc.bcm.edu hg19 9 141016005 141016005 + Nonsense_Mutation SNP C C T novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . CACNA1B NM_000718 exon46 c.C6574T p.Q2192X CTCCCCCAGACGC . 73.0 34.0 93.0 0.0 . 266 . . . none . . PASS Atlas-SNP PITRM1 10531 hgsc.bcm.edu hg19 10 3193438 3193438 + Splice_Site SNP C C G novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . PITRM1 NM_014889 exon16 c.1738+1G>C . CAGTGACCTGTCA . 121.0 60.0 145.0 0.0 . 109 . . . none . . PASS Atlas-SNP C10orf68 79741 hgsc.bcm.edu hg19 10 33017895 33017895 + Missense_Mutation SNP C C G novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . C10orf68 NM_024688 exon9 c.C670G p.Q224E AAGAAACAAATAA . 304.0 31.0 348.0 0.0 . 75 . . . none . . PASS Atlas-SNP FAM21C 253725 hgsc.bcm.edu hg19 10 46264959 46264959 + Missense_Mutation SNP A A T novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c FAM21C,NS,carcinoma,0,1 FAM21C NM_015262 exon20 c.A1932T p.E644D AGGAGAACCCAGG . 474.0 168.0 546.0 0.0 . 68 . . . none . . PASS Atlas-SNP CDK1 983 hgsc.bcm.edu hg19 10 62551998 62551998 + Missense_Mutation SNP T T C novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . CDK1 NM_001786 exon7 c.T746C p.L249P GAAGCCTAGCATC . 103.0 39.0 107.0 0.0 . 24 . . . none . . PASS Atlas-SNP NEUROG3 50674 hgsc.bcm.edu hg19 10 71332599 71332599 + Silent SNP T T C novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . NEUROG3 NM_020999 exon2 c.A201G p.G67G GCTGCGTCCCCCG . 78.0 4.0 57.0 0.0 . 33 . . . none . . PASS Atlas-SNP PHRF1 57661 hgsc.bcm.edu hg19 11 605692 605692 + Silent SNP C C T rs374393458 TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . PHRF1 NM_020901 exon12 c.C1419T p.P473P CCAGCCCGTGGCC . 51.0 21.0 37.0 0.0 . 188 . . . weak . . PASS Atlas-SNP OSBPL5 114879 hgsc.bcm.edu hg19 11 3111822 3111822 + Silent SNP G G C novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . OSBPL5 NM_020896 exon20 c.C2364G p.L788L GTCTGAGAGCTCT . 204.0 109.0 178.0 0.0 . 78 . . . none . . PASS Atlas-SNP MRGPRG 386746 hgsc.bcm.edu hg19 11 3239681 3239681 + Silent SNP G G A novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . MRGPRG NM_001164377 exon1 c.C363T p.A121A GGCCGAGGCGTGT . 80.0 38.0 76.0 0.0 . 6 . . . none . . PASS Atlas-SNP RRM1 6240 hgsc.bcm.edu hg19 11 4143450 4143450 + Missense_Mutation SNP G G C novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . RRM1 NM_001033 exon11 c.G1118C p.S373T ATGCAAGGTATGG . 72.0 28.0 79.0 0.0 . 31 . . . none . . PASS Atlas-SNP TCP11L1 55346 hgsc.bcm.edu hg19 11 33083259 33083259 + Missense_Mutation SNP G G T novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . TCP11L1 NM_001145541 exon7 c.G959T p.R320M TCCAGAGGCCGTT . 155.0 68.0 151.0 0.0 . 40 . . . none . . PASS Atlas-SNP MMP27 64066 hgsc.bcm.edu hg19 11 102562558 102562558 + Missense_Mutation SNP C C G novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . MMP27 NM_022122 exon10 c.G1481C p.S494T CTTAAACTCTTAT . 107.0 17.0 136.0 0.0 . 84 . . . none . . PASS Atlas-SNP IFT46 56912 hgsc.bcm.edu hg19 11 118416523 118416523 + Missense_Mutation SNP T T G novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . IFT46 NM_020153 exon11 c.A871C p.I291L TGTCAATGTACTC . 112.0 8.0 125.0 0.0 . 19 . . . none . . PASS Atlas-SNP CAND1 55832 hgsc.bcm.edu hg19 12 67696393 67696393 + Missense_Mutation SNP C C A novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . CAND1 NM_018448 exon8 c.C1291A p.Q431K CAGAGTCAGGTGG . 99.0 39.0 119.0 0.0 . 100 . . . none . . PASS Atlas-SNP NAV3 89795 hgsc.bcm.edu hg19 12 78593299 78593299 + Missense_Mutation SNP G G T novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . NAV3 NM_014903 exon36 c.G6637T p.D2213Y TCTTCTGACGTTA . 128.0 47.0 178.0 0.0 . 506 . . . none . . PASS Atlas-SNP RBM19 9904 hgsc.bcm.edu hg19 12 114377884 114377884 + Missense_Mutation SNP A A T novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . RBM19 NM_001146699 exon15 c.T1819A p.F607I GGCCGAAGGTCTC . 78.0 11.0 86.0 0.0 . 117 . . . none . . PASS Atlas-SNP KNTC1 9735 hgsc.bcm.edu hg19 12 123052914 123052914 + Missense_Mutation SNP C C T novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . KNTC1 NM_014708 exon21 c.C1711T p.H571Y CTTCGACATCGGG . 158.0 73.0 212.0 0.0 . 182 . . . none . . PASS Atlas-SNP HSPH1 10808 hgsc.bcm.edu hg19 13 31728852 31728852 + Missense_Mutation SNP T T C novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . HSPH1 NM_006644 exon4 c.A347G p.Q116R GTTATCTGCTCCA . 77.0 37.0 92.0 0.0 . 65 . . . none . . PASS Atlas-SNP HNRNPC 3183 hgsc.bcm.edu hg19 14 21679430 21679430 + Missense_Mutation SNP C C A novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . HNRNPC NM_031314 exon9 c.G873T p.E291D TCCTTCCTCAGCC . 102.0 42.0 124.0 0.0 . 31 . . . none . . PASS Atlas-SNP WDR20 91833 hgsc.bcm.edu hg19 14 102675867 102675867 + Missense_Mutation SNP A A G rs374240865 TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . WDR20 NM_001242417 exon4 c.A1453G p.I485V GGGGCCATTGCTT . 126.0 70.0 134.0 0.0 . 35 . . . weak . . PASS Atlas-SNP AQR 9716 hgsc.bcm.edu hg19 15 35196623 35196623 + Missense_Mutation SNP T T G novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . AQR NM_014691 exon19 c.A1915C p.T639P TATTGGTCATATC . 138.0 70.0 181.0 0.0 . 139 . . . none . . PASS Atlas-SNP RTF1 23168 hgsc.bcm.edu hg19 15 41709461 41709461 + Missense_Mutation SNP G G C novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . RTF1 NM_015138 exon1 c.G148C p.V50L CGCGTCGTGATCG . 172.0 78.0 243.0 0.0 . 76 . . . none . . PASS Atlas-SNP CA12 771 hgsc.bcm.edu hg19 15 63632589 63632589 + Silent SNP G G A novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c CA12,NS,carcinoma,0,1 CA12 NM_206925 exon7 c.C645T p.T215T TTCAGCGGTCCTC . 138.0 33.0 160.0 0.0 . 33 . . . none . . PASS Atlas-SNP SLC24A1 9187 hgsc.bcm.edu hg19 15 65943145 65943145 + Silent SNP G G A novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . SLC24A1 NM_004727 exon7 c.G2658A p.E886E GGAGGAGGAAGAG . 84.0 4.0 77.0 0.0 . 58 . . . none . . PASS Atlas-SNP GNG13 51764 hgsc.bcm.edu hg19 16 849062 849062 + Missense_Mutation SNP C C T novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . GNG13 NM_016541 exon2 c.G16A p.V6M GTGGCACGTCCCA . 58.0 33.0 30.0 0.0 . 8 . . . none . . PASS Atlas-SNP NLRC3 197358 hgsc.bcm.edu hg19 16 3594306 3594306 + Missense_Mutation SNP T T C novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . NLRC3 NM_178844 exon17 c.A2795G p.D932G CCGTCATCCCCGA . 113.0 69.0 87.0 0.0 . 103 . . . none . . PASS Atlas-SNP C16orf96 342346 hgsc.bcm.edu hg19 16 4637082 4637082 + Missense_Mutation SNP A A T novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . C16orf96 NM_001145011 exon8 c.A2395T p.N799Y AAGGTGAATAAGA . 144.0 91.0 101.0 0.0 . 28 . . . none . . PASS Atlas-SNP C16orf72 29035 hgsc.bcm.edu hg19 16 9196862 9196862 + Missense_Mutation SNP G G A novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . C16orf72 NM_014117 exon3 c.G329A p.R110Q ATCAACGAAGTTT . 153.0 51.0 86.0 0.0 . 26 . . . none . . PASS Atlas-SNP SNX29 92017 hgsc.bcm.edu hg19 16 12571579 12571579 + Missense_Mutation SNP T T A novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . SNX29 NM_032167 exon19 c.T2041A p.Y681N CAGGTCTACATCC . 295.0 173.0 273.0 1.0 . 60 . . . none . . PASS Atlas-SNP APOBR 55911 hgsc.bcm.edu hg19 16 28507402 28507402 + Missense_Mutation SNP C C T rs62034314 TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . APOBR NM_018690 exon2 c.C1040T p.T347I CTGGGACAGCCTC . 40.0 6.0 27.0 0.0 . 89 . . . weak C|0.500;T|0.500 0.500 PASS Atlas-SNP SPAG7 9552 hgsc.bcm.edu hg19 17 4871090 4871090 + Silent SNP G G A novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . SPAG7 NM_004890 exon1 c.C10T p.L4L CCAGTAGGTCCGC . 74.0 20.0 45.0 0.0 . 22 . . . none . . PASS Atlas-SNP MYH10 4628 hgsc.bcm.edu hg19 17 8404183 8404183 + Silent SNP G G T novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . MYH10 NM_001256012 exon29 c.C3705A p.A1235A CTCCAGGGCTGTT . 42.0 15.0 39.0 0.0 . 148 . . . none . . PASS Atlas-SNP DNAH9 1770 hgsc.bcm.edu hg19 17 11672607 11672607 + Missense_Mutation SNP G G C rs61744697 bycluster;byfrequency;by1000genomes;alternate_allele TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . DNAH9 NM_001372 exon38 c.G7513C p.V2505L AAAAACGTGCCAT . 98.0 58.0 74.0 0.0 . 695 . . . alt G|0.901;T|0.099 . PASS Atlas-SNP NF1 4763 hgsc.bcm.edu hg19 17 29654742 29654742 + Missense_Mutation SNP G G A novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . NF1 NM_001042492 exon38 c.G5494A p.E1832K CGCTGGGAACTGT . 262.0 70.0 159.0 0.0 . 1586 . . . none . . PASS Atlas-SNP KRTAP4-3 85290 hgsc.bcm.edu hg19 17 39324382 39324382 + Missense_Mutation SNP A A T novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c KRTAP4-3,colon,carcinoma,0,1 KRTAP4-3 NM_033187 exon1 c.T43A p.C15S GACCACAGCTCTG . 152.0 106.0 109.0 0.0 . 40 . . . none . . PASS Atlas-SNP ATP6V0A1 535 hgsc.bcm.edu hg19 17 40629677 40629677 + Missense_Mutation SNP G G T novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . ATP6V0A1 NM_001130020 exon6 c.G444T p.Q148H TCAGCAGATGGCG . 139.0 77.0 98.0 0.0 . 67 . . . none . . PASS Atlas-SNP RNF213 57674 hgsc.bcm.edu hg19 17 78356798 78356798 + Silent SNP A A G novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . RNF213 NM_001256071 exon58 c.A13998G p.T4666T TGACACAGAATTG . 161.0 99.0 97.0 0.0 . 766 . . . none . . PASS Atlas-SNP SERPINB3 6317 hgsc.bcm.edu hg19 18 61324647 61324647 + Splice_Site SNP C C T novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . SERPINB3 NM_006919 exon7 c.470-1G>A . TTTTTTCTGCAAG . 291.0 105.0 359.0 0.0 . 90 . . . none . . PASS Atlas-SNP ARID3A 1820 hgsc.bcm.edu hg19 19 932539 932539 + Missense_Mutation SNP C C T novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . ARID3A NM_005224 exon3 c.C490T p.P164S CCAGGCCCTGCCA . 128.0 62.0 114.0 0.0 . 35 . . . none . . PASS Atlas-SNP TLE2 7089 hgsc.bcm.edu hg19 19 3019295 3019295 + Missense_Mutation SNP G G T novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . TLE2 NM_001144761 exon8 c.C578A p.A193D CCCTCGGCCTCCA . 43.0 19.0 66.0 0.0 . 35 . . . none . . PASS Atlas-SNP DPP9 91039 hgsc.bcm.edu hg19 19 4700253 4700253 + Missense_Mutation SNP T T G novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . DPP9 NM_139159 exon10 c.A1049C p.E350A TGGAACTCAGCCA . 67.0 32.0 87.0 0.0 . 59 . . . none . . PASS Atlas-SNP MYO1F 4542 hgsc.bcm.edu hg19 19 8615148 8615148 + Missense_Mutation SNP G G C novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c MYO1F,NS,carcinoma,0,1 MYO1F NM_012335 exon10 c.C997G p.R333G CGCTGCGCCCGCC . 87.0 36.0 90.0 2.0 . 128 . . . none . . PASS Atlas-SNP FCHO1 23149 hgsc.bcm.edu hg19 19 17881335 17881335 + Missense_Mutation SNP G G C novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . FCHO1 NM_001161358 exon7 c.G438C p.M146I TTGCATGGACCAG . 68.0 28.0 78.0 0.0 . 69 . . . none . . PASS Atlas-SNP ZNF146 7705 hgsc.bcm.edu hg19 19 36727964 36727964 + Missense_Mutation SNP G G T novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . ZNF146 NM_001099638 exon3 c.G622T p.G208C CATTCAGGTGATA . 90.0 32.0 94.0 0.0 . 32 . . . none . . PASS Atlas-SNP BTBD3 22903 hgsc.bcm.edu hg19 20 11898938 11898938 + Missense_Mutation SNP G G T novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . BTBD3 NM_014962 exon1 c.G15T p.K5N TGACAAGGAAAAG . 64.0 9.0 42.0 0.0 . 92 . . . none . . PASS Atlas-SNP KCNQ2 3785 hgsc.bcm.edu hg19 20 62038497 62038497 + Missense_Mutation SNP C C T novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c KCNQ2,colon,carcinoma,0,2 KCNQ2 NM_172107 exon17 c.G2119A p.A707T GGGGCGCGGCCGG . 372.0 45.0 280.0 0.0 . 201 . . . none . . PASS Atlas-SNP KRTAP10-7 386675 hgsc.bcm.edu hg19 21 46021419 46021419 + Missense_Mutation SNP C C T novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . KRTAP10-7 NM_198689 exon2 c.C883T p.P295S TGCCAGCCGGCTT . 23.0 14.0 46.0 0.0 . 41 . . . none . . PASS Atlas-SNP LZTR1 8216 hgsc.bcm.edu hg19 22 21348913 21348913 + Missense_Mutation SNP G G A novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . LZTR1 NM_006767 exon15 c.G1682A p.R561H TGTGCCGCCTGGA . 29.0 6.0 42.0 0.0 . 99 . . . none . . PASS Atlas-SNP KDELR3 11015 hgsc.bcm.edu hg19 22 38877266 38877266 + Missense_Mutation SNP A A T novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . KDELR3 NM_016657 exon4 c.A401T p.Q134L TGCCCCAGCTCTT . 83.0 49.0 118.0 0.0 . 39 . . . none . . PASS Atlas-SNP KDELR3 11015 hgsc.bcm.edu hg19 22 38877267 38877267 + Silent SNP G G A novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . KDELR3 NM_016657 exon4 c.G402A p.Q134Q GCCCCAGCTCTTC . 83.0 49.0 117.0 0.0 . 39 . . . none . . PASS Atlas-SNP MED14 9282 hgsc.bcm.edu hg19 X 40526005 40526005 + Missense_Mutation SNP T T C novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . MED14 NM_004229 exon24 c.A3232G p.I1078V GTCCTATTGAGAT . 138.0 14.0 195.0 0.0 . 108 . . . none . . PASS Atlas-SNP PCGF2 7703 hgsc.bcm.edu hg19 17 36891478 36891482 + Frame_Shift_Del DEL AAGTT AAGTT - novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 AAGTT AAGTT . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . PCGF2 NM_007144 exon11 c.1030_1034del p.344_345del . . 225.0 54.0 137.0 0.0 . 24 . 0.24 0 none . . PASS Atlas-Indel,Pindel DMC1 11144 hgsc.bcm.edu hg19 22 38958351 38958351 + Frame_Shift_Del DEL A A - novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . DMC1 NM_007068 exon5 c.268delG p.E90fs . . 122.0 54.0 116.0 0.0 . 33 . 0.442623 0 none . . PASS Atlas-Indel,Pindel CYP2C18 1562 hgsc.bcm.edu hg19 10 96447962 96447962 + Frame_Shift_Del DEL A A - novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . CYP2C18 NM_000772 exon3 c.411delG p.G137fs . . 182.0 70.0 202.0 0.0 . 79 . 0.384615 0 none . . PASS Atlas-INDEL YTHDC2 64848 hgsc.bcm.edu hg19 5 112851004 112851005 + Frame_Shift_Del DEL AG AG - novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 AG AG . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . YTHDC2 NM_022828 exon2 c.222_223del p.74_75del . . 99.0 45.0 137.0 0.0 . 118 . 0.454545 0 none . . PASS Atlas-Indel,Pindel HELQ 113510 hgsc.bcm.edu hg19 4 84376623 84376624 + Frame_Shift_Ins INS - - G novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . HELQ NM_133636 exon1 c.224_225insC p.L75fs . . 146.0 61.0 165.0 0.0 . 95 . 0.417808 0 none . . PASS Atlas-Indel,Pindel TRPM8 79054 hgsc.bcm.edu hg19 2 234890560 234890561 + Splice_Site INS - - TTT novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . TRPM8 NM_024080 exon19 c.2589+1->TTT . . . 111.0 54.0 122.0 0.0 . 146 . 0.486486 0 none . . PASS Atlas-Indel,Pindel ACTR8 93973 hgsc.bcm.edu hg19 3 53914042 53914049 + Frame_Shift_Del DEL TGAGGAAT TGAGGAAT - novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 TGAGGAAT TGAGGAAT . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . ACTR8 NM_022899 exon2 c.212_219del p.71_73del . . 161.0 33.0 118.0 0.0 . 56 . 0.204969 0 none . . PASS Atlas-INDEL NOP2 4839 hgsc.bcm.edu hg19 12 6672800 6672803 + Frame_Shift_Del DEL GGGG GGGG - novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 GGGG GGGG . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . NOP2 NM_001258309 exon8 c.765_768del p.255_256del . . 79.0 33.0 81.0 0.0 . 44 . 0.417722 0 none . . PASS Atlas-Indel,Pindel CCSER1 401145 hgsc.bcm.edu hg19 4 91229870 91229871 + Frame_Shift_Ins INS - - A novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c FAM190A_ENST00000509176,rectum,carcinoma,0,1 . NM_207491 exon2 c.435_436insA p.K145fs . . 157.0 63.0 197.0 0.0 . . . 0.401274 0 none . . PASS Atlas-Indel,Pindel CNNM2 54805 hgsc.bcm.edu hg19 10 104679232 104679232 + Frame_Shift_Del DEL T T - novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . CNNM2 NM_199076 exon1 c.994delA p.I332fs . . 40.0 20.0 36.0 0.0 . 119 . 0.5 0 none . . PASS Atlas-Indel,Pindel RD3 343035 hgsc.bcm.edu hg19 1 211654560 211654576 + Frame_Shift_Del DEL TGTGCTGGCCAGCCAGC TGTGCTGGCCAGCCAGC - novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 TGTGCTGGCCAGCCAGC TGTGCTGGCCAGCCAGC . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . RD3 NM_183059 exon2 c.183_199del p.61_67del . . 154.0 43.0 154.0 0.0 . 26 . 0.279221 0 none . . PASS Atlas-Indel,Pindel ACTR8 93973 hgsc.bcm.edu hg19 3 53914039 53914040 + Frame_Shift_Del DEL AC AC - novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 AC AC . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . ACTR8 NM_022899 exon2 c.221_222del p.74_74del . . 161.0 33.0 122.0 0.0 . 56 . 0.204969 0 none . . PASS Atlas-INDEL BRE 9577 hgsc.bcm.edu hg19 2 28460154 28460155 + In_Frame_Ins INS - - TGCTCACCA novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . BRE NM_199191 exon8 c.766_767insTGCTCACCA p.L256delinsLLTM . . 29.0 11.0 29.0 0.0 . 164 . 0.37931 0 none . . PASS Atlas-Indel,Pindel MAN1B1 11253 hgsc.bcm.edu hg19 9 139996055 139996055 + Frame_Shift_Del DEL G G - novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . MAN1B1 NM_016219 exon8 c.1184delT p.V395fs . . 81.0 32.0 87.0 0.0 . 40 . 0.395062 0 none . . PASS Atlas-Indel,Pindel UBN1 29855 hgsc.bcm.edu hg19 16 4927063 4927068 + In_Frame_Del DEL CATCGT CATCGT - novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 CATCGT CATCGT . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . UBN1 NM_001079514 exon16 c.3215_3220del p.1072_1074del . . 82.0 35.0 73.0 0.0 . 88 . 0.426829 0 none . . PASS Atlas-Indel,Pindel MPND 84954 hgsc.bcm.edu hg19 19 4357350 4357351 + Frame_Shift_Del DEL AG AG - novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 AG AG . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . MPND NM_032868 exon9 c.1096_1097del p.366_366del . . 92.0 33.0 76.0 0.0 . 28 . 0.358696 0 none . . PASS Atlas-INDEL CPNE2 221184 hgsc.bcm.edu hg19 16 57147302 57147317 + Frame_Shift_Del DEL CTCTTTGACCAGGACA CTCTTTGACCAGGACA - novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 CTCTTTGACCAGGACA CTCTTTGACCAGGACA . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . CPNE2 NM_152727 exon3 c.282_297del p.94_99del . . 126.0 15.0 99.0 0.0 . 48 . 0.119048 0 none . . PASS Atlas-Indel,Pindel CHST2 9435 hgsc.bcm.edu hg19 3 142840750 142840750 + Frame_Shift_Del DEL C C - novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . CHST2 NM_004267 exon2 c.1091delA p.H364fs . . 120.0 38.0 72.0 0.0 . 67 . 0.316667 0 none . . PASS Atlas-Indel,Pindel TRIP12 9320 hgsc.bcm.edu hg19 2 230656737 230656737 + Frame_Shift_Del DEL C C - novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . TRIP12 NM_004238 exon28 c.4036delT p.F1346fs . . 205.0 79.0 235.0 0.0 . 207 . 0.385366 0 none . . PASS Atlas-Indel,Pindel PER3 8863 hgsc.bcm.edu hg19 1 7845028 7845028 + Frame_Shift_Del DEL T T - novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . PER3 NM_016831 exon1 c.90delG p.E30fs . . 209.0 96.0 221.0 0.0 . 95 . 0.45933 0 none . . PASS Atlas-Indel,Pindel KCNJ15 3772 hgsc.bcm.edu hg19 21 39671467 39671468 + Frame_Shift_Ins INS - - A novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . KCNJ15 NM_170736 exon3 c.284_285insA p.I95fs . . 50.0 30.0 90.0 0.0 . 43 . 0.6 0 none . . PASS Atlas-Indel,Pindel C10orf71 118461 hgsc.bcm.edu hg19 10 50532215 50532217 + In_Frame_Del DEL TCA TCA - novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 TCA TCA . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . C10orf71 NM_001135196 exon3 c.1624_1626del p.542_542del . . 109.0 41.0 150.0 0.0 . 179 . 0.376147 0 none . . PASS Atlas-Indel,Pindel PPCDC 60490 hgsc.bcm.edu hg19 15 75341008 75341009 + Frame_Shift_Del DEL TT TT - novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 TT TT . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . PPCDC NM_021823 exon5 c.474_475del p.158_159del . . 62.0 22.0 129.0 0.0 . 12 . 0.354839 0 none . . PASS Atlas-Indel,Pindel CYP2C18 1562 hgsc.bcm.edu hg19 10 96447965 96447965 + Frame_Shift_Del DEL A A - novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . CYP2C18 NM_000772 exon3 c.414delG p.K138fs . . 180.0 71.0 206.0 0.0 . 79 . 0.394444 0 none . . PASS Atlas-INDEL MPND 84954 hgsc.bcm.edu hg19 19 4357354 4357354 + Frame_Shift_Del DEL G G - novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . MPND NM_032868 exon9 c.1100delT p.M367fs . . 88.0 34.0 77.0 0.0 . 28 . 0.386364 0 none . . PASS Atlas-INDEL IKBKAP 8518 hgsc.bcm.edu hg19 9 111642434 111642434 + Frame_Shift_Del DEL A A - novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . IKBKAP NM_003640 exon32 c.3359delA p.Y1120fs . . 105.0 49.0 110.0 0.0 . 122 . 0.466667 0 none . . PASS Atlas-Indel,Pindel MPND 84954 hgsc.bcm.edu hg19 19 4357351 4357354 + Frame_Shift_Del DEL GATG GATG - novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 GATG GATG . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . MPND NM_032868 exon9 c.1097_1100del p.366_367del . . 92.0 25.0 77.0 0.0 . 28 . 0.272 . none . . PASS Pindel CYP2C18 1562 hgsc.bcm.edu hg19 10 96447963 96447965 + In_Frame_Del DEL AGA AGA - novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 AGA AGA . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . CYP2C18 NM_000772 exon3 c.412_414del p.138_138del . . 182.0 54.0 207.0 0.0 . 79 . 0.297 . none . . PASS Pindel TMEM242 729515 hgsc.bcm.edu hg19 6 157739882 157739887 + In_Frame_Del DEL AGCCCC AGCCCC - novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 AGCCCC AGCCCC . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . . NM_018452 exon3 c.255_260del p.85_87del . . 228.0 67.0 237.0 0.0 . . . 0.294 . none . . PASS Pindel ABCC5 10057 hgsc.bcm.edu hg19 3 183695342 183695342 + Frame_Shift_Del DEL G G - novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . ABCC5 NM_005688 exon10 c.1368delC p.S456fs . . 163.0 21.0 134.0 0.0 . 142 . 0.129 . none . . PASS Pindel CMBL 134147 hgsc.bcm.edu hg19 5 10286542 10286543 + Frame_Shift_Del DEL TC TC - novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 TC TC . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . CMBL NM_138809 exon4 c.390_391del p.130_131del . . 63.0 23.0 91.0 0.0 . 24 . 0.365 . none . . PASS Pindel ANO8 57719 hgsc.bcm.edu hg19 19 17440636 17440637 + Frame_Shift_Del DEL TG TG - novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 TG TG . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . ANO8 NM_020959 exon12 c.1334_1335del p.445_445del . . 129.0 36.0 133.0 0.0 . 67 . 0.279 . none . . PASS Pindel SNX7 51375 hgsc.bcm.edu hg19 1 99127306 99127307 + Frame_Shift_Ins INS - - C novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . SNX7 NM_015976 exon1 c.19_20insC p.A7fs . . 35.0 10.0 36.0 0.0 . 76 . 0.286 . none . . PASS Pindel RIMBP3C 150221 hgsc.bcm.edu hg19 22 21741340 21741341 + In_Frame_Ins INS - - TGCAGG novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . RIMBP3C NM_001128633 exon1 c.3193_3194insTGCAGG p.L1065delinsLQV . . 19.0 19.0 0.0 0.0 . 6 . 1.000 . none . . PASS Pindel ACTR8 93973 hgsc.bcm.edu hg19 3 53914039 53914049 + Frame_Shift_Del DEL ACGTGAGGAAT ACGTGAGGAAT - novel TCGA-5P-A9JY-01A-11D-A42J-10 TCGA-5P-A9JY-10A-01D-A42M-10 ACGTGAGGAAT ACGTGAGGAAT . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq d3702abb-947d-4b7c-93d3-30102121f09b f6bea4da-a48b-4082-b9aa-e19d3af1ac5c . ACTR8 NM_022899 exon2 c.212_222del p.71_74del . . 170.0 31.0 121.0 0.0 . 56 . 0.182 . none . . PASS Pindel