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 FPGT-TNNI3K 100526835 hgsc.bcm.edu hg19 1 74905231 74905231 + Missense_Mutation SNP G G A novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . . NM_001199327 exon22 c.G2239A p.A747T ATCAAAGCAGATG . 95.0 36.0 92.0 0.0 . . . . . none . . PASS Atlas-SNP HIST2H2BE 8349 hgsc.bcm.edu hg19 1 149858172 149858172 + Missense_Mutation SNP A A T novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . HIST2H2BE NM_003528 exon1 c.T19A p.S7T GAGCGGATTTTGC . 154.0 58.0 159.0 0.0 . 33 . . . none . . PASS Atlas-SNP ECM1 1893 hgsc.bcm.edu hg19 1 150482014 150482014 + Silent SNP G G T rs200429908 bycluster;alternate_allele TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . ECM1 NM_022664 exon2 c.G78T p.T26T CTTCACGGCTACA . 97.0 36.0 83.0 0.0 . 96 . . . alt G|0.999;A|0.001 . PASS Atlas-SNP EFNA1 1942 hgsc.bcm.edu hg19 1 155104053 155104053 + Missense_Mutation SNP T T C novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . EFNA1 NM_182685 exon2 c.T331C p.F111L CAGCGCTTCACAC . 249.0 84.0 253.0 0.0 . 10 . . . none . . PASS Atlas-SNP GMCL1 64395 hgsc.bcm.edu hg19 2 70074701 70074701 + Missense_Mutation SNP G G A novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . GMCL1 NM_178439 exon7 c.G785A p.G262D TCATTGGTTCATC . 98.0 50.0 88.0 0.0 . 50 . . . none . . PASS Atlas-SNP PTCD3 55037 hgsc.bcm.edu hg19 2 86352186 86352186 + Missense_Mutation SNP T T C novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . PTCD3 NM_017952 exon10 c.T785C p.M262T GCACAATGATCCG . 109.0 36.0 88.0 0.0 . 51 . . . none . . PASS Atlas-SNP MPP4 58538 hgsc.bcm.edu hg19 2 202514863 202514863 + Nonsense_Mutation SNP G G T rs376163949 alternate_allele TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 MPP4_ENST00000409474,NS,carcinoma,0,1 MPP4 NM_033066 exon19 c.C1407A p.Y469X CATTTCGTAACTC . 104.0 6.0 94.0 0.0 . 93 . . . alt . . PASS Atlas-SNP LRRFIP2 9209 hgsc.bcm.edu hg19 3 37107344 37107344 + Missense_Mutation SNP C C A novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . LRRFIP2 NM_006309 exon24 c.G1656T p.Q552H AGCTTCCTGAGAC . 164.0 75.0 134.0 0.0 . 71 . . . none . . PASS Atlas-SNP DLEC1 9940 hgsc.bcm.edu hg19 3 38163861 38163861 + Missense_Mutation SNP A A G novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . DLEC1 NM_007337 exon36 c.A5102G p.K1701R GGGCCAAGGCTCC . 176.0 87.0 127.0 0.0 . 278 . . . none . . PASS Atlas-SNP XIRP1 165904 hgsc.bcm.edu hg19 3 39229398 39229398 + Missense_Mutation SNP C C A novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . XIRP1 NM_001198621 exon2 c.G1539T p.R513S CATCCACCTGTAG . 107.0 29.0 59.0 0.0 . 173 . . . none . . PASS Atlas-SNP BAP1 8314 hgsc.bcm.edu hg19 3 52439133 52439133 + Missense_Mutation SNP G G T novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . BAP1 NM_004656 exon11 c.C1109A p.P370H TGCATGGGGGACT . 152.0 39.0 119.0 0.0 . 371 . . . none . . PASS Atlas-SNP LRRIQ4 344657 hgsc.bcm.edu hg19 3 169539716 169539716 + Nonsense_Mutation SNP A A T novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . LRRIQ4 NM_001080460 exon1 c.A7T p.K3X ATGTCAAAAGACA . 433.0 237.0 354.0 1.0 . 68 . . . none . . PASS Atlas-SNP LEF1 51176 hgsc.bcm.edu hg19 4 108999439 108999439 + Silent SNP C C T rs375238109 TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . LEF1 NM_016269 exon8 c.G945A p.A315A GACATTCGCTCTC . 122.0 52.0 122.0 0.0 . 93 . . . weak . . PASS Atlas-SNP NDST4 64579 hgsc.bcm.edu hg19 4 115997318 115997318 + Missense_Mutation SNP G G A novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . NDST4 NM_022569 exon2 c.C875T p.S292L TTCCCTGACAAGA . 100.0 36.0 104.0 0.0 . 193 . . . none . . PASS Atlas-SNP FAM71B 153745 hgsc.bcm.edu hg19 5 156592638 156592638 + Missense_Mutation SNP C C G novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . FAM71B NM_130899 exon1 c.G542C p.S181T CAGTAACTCTCTA . 161.0 55.0 139.0 0.0 . 145 . . . none . . PASS Atlas-SNP CYFIP2 26999 hgsc.bcm.edu hg19 5 156738675 156738675 + Missense_Mutation SNP G G T novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . CYFIP2 NM_001037332 exon11 c.G996T p.W332C CAGGTGGACGTGC . 188.0 57.0 207.0 0.0 . 354 . . . none . . PASS Atlas-SNP LRFN2 57497 hgsc.bcm.edu hg19 6 40399746 40399746 + Silent SNP C C T novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . LRFN2 NM_020737 exon2 c.G1107A p.T369T CATGGCCGTGGCC . 57.0 20.0 50.0 0.0 . 133 . . . none . . PASS Atlas-SNP LCA5 167691 hgsc.bcm.edu hg19 6 80223369 80223369 + Missense_Mutation SNP G G A novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . LCA5 NM_001122769 exon3 c.C280T p.R94W CTTTCCGAAGTGG . 70.0 22.0 90.0 0.0 . 71 . . . none . . PASS Atlas-SNP GFRA2 2675 hgsc.bcm.edu hg19 8 21560336 21560336 + Missense_Mutation SNP G G C rs76990589 bycluster;alternate_allele TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . GFRA2 NM_001495 exon7 c.C1199G p.T400S CAGGTGGTGATGA . 83.0 30.0 107.0 0.0 . 23 . . . alt . . PASS Atlas-SNP NBN 4683 hgsc.bcm.edu hg19 8 90965471 90965471 + Splice_Site SNP C C T novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . NBN NM_002485 exon12 c.1845+1G>A . TACTTACAGATAT . 62.0 17.0 56.0 0.0 . 86 . . . none . . PASS Atlas-SNP VPS13B 157680 hgsc.bcm.edu hg19 8 100865879 100865879 + Missense_Mutation SNP A A G novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . VPS13B NM_017890 exon56 c.A10337G p.E3446G GTGTGGAGATCTG . 168.0 50.0 158.0 0.0 . 811 . . . none . . PASS Atlas-SNP C9orf66 157983 hgsc.bcm.edu hg19 9 214701 214701 + Nonsense_Mutation SNP G G T novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . C9orf66 NM_152569 exon1 c.C696A p.Y232X GCCCCAGTATCGG . 100.0 41.0 96.0 0.0 . 16 . . . none . . PASS Atlas-SNP DMRT3 58524 hgsc.bcm.edu hg19 9 990923 990923 + Nonsense_Mutation SNP C C G novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . DMRT3 NM_021240 exon2 c.C1337G p.S446X TTGTGTCAAAGCA . 99.0 35.0 108.0 0.0 . 83 . . . none . . PASS Atlas-SNP KCNV2 169522 hgsc.bcm.edu hg19 9 2718860 2718860 + Missense_Mutation SNP A A G novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . KCNV2 NM_133497 exon1 c.A1121G p.Q374R TGGGTCAGGTGTT . 61.0 23.0 55.0 0.0 . 72 . . . none . . PASS Atlas-SNP IFNK 56832 hgsc.bcm.edu hg19 9 27524419 27524419 + Missense_Mutation SNP G G T novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . IFNK NM_020124 exon1 c.G85T p.D29Y TCCCTGGACTGTA . 153.0 60.0 133.0 0.0 . 14 . . . none . . PASS Atlas-SNP NUDT2 318 hgsc.bcm.edu hg19 9 34343386 34343386 + Missense_Mutation SNP T T C rs368502630 TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . NUDT2 NM_147173 exon4 c.T392C p.M131T AGGAGATGAAGGC . 106.0 25.0 98.0 0.0 . 7 . . . weak . . PASS Atlas-SNP GNAQ 2776 hgsc.bcm.edu hg19 9 80537112 80537112 + Missense_Mutation SNP T T A novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 GNAQ,NS,carcinoma,0,2 GNAQ NM_002072 exon2 c.A286T p.T96S TGAGTGTGTCCAT . 49.0 5.0 46.0 0.0 . 384 . . . none . . PASS Atlas-SNP SPATA31D1 389763 hgsc.bcm.edu hg19 9 84607291 84607291 + Missense_Mutation SNP T T G rs201182137 bycluster TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 FAM75D4,NS,carcinoma,0,2 . NM_001001670 exon4 c.T1906G p.L636V GAAAGTTTGTGGG . 118.0 6.0 128.0 1.0 . . . . . weak . . PASS Atlas-SNP HABP4 22927 hgsc.bcm.edu hg19 9 99246828 99246828 + Silent SNP A A G novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . HABP4 NM_014282 exon6 c.A912G p.R304R GACCAGACCAAAG . 327.0 109.0 316.0 0.0 . 25 . . . none . . PASS Atlas-SNP TNC 3371 hgsc.bcm.edu hg19 9 117803252 117803252 + Missense_Mutation SNP T T C novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . TNC NM_002160 exon19 c.A5360G p.E1787G TCACTTTCCTCAA . 140.0 42.0 114.0 0.0 . 282 . . . none . . PASS Atlas-SNP CUBN 8029 hgsc.bcm.edu hg19 10 17107509 17107509 + Missense_Mutation SNP G G C novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . CUBN NM_001081 exon22 c.C3137G p.T1046R TTACCTGTTGCTG . 104.0 38.0 117.0 0.0 . 515 . . . none . . PASS Atlas-SNP ABCC2 1244 hgsc.bcm.edu hg19 10 101605502 101605502 + Missense_Mutation SNP T T C novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . ABCC2 NM_000392 exon29 c.T4109C p.L1370P TTGGGCTCCACGA . 127.0 36.0 107.0 0.0 . 160 . . . none . . PASS Atlas-SNP CPXM2 119587 hgsc.bcm.edu hg19 10 125521473 125521473 + Silent SNP G G A novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 CPXM2,colon,carcinoma,-2,1 CPXM2 NM_198148 exon11 c.C1692T p.D564D CCGGGCGTCTGTC . 65.0 22.0 72.0 0.0 . 120 . . . none . . PASS Atlas-SNP RNF17 56163 hgsc.bcm.edu hg19 13 25378553 25378553 + Missense_Mutation SNP T T A novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . RNF17 NM_001184993 exon15 c.T2077A p.F693I GGAGATTTCTATC . 92.0 34.0 99.0 0.0 . 259 . . . none . . PASS Atlas-SNP LMO7 4008 hgsc.bcm.edu hg19 13 76427487 76427487 + Missense_Mutation SNP C C T novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . LMO7 NM_015842 exon25 c.C3925T p.P1309S CATTCCCCTTCAG . 77.0 26.0 98.0 0.0 . 334 . . . none . . PASS Atlas-SNP SIPA1L1 26037 hgsc.bcm.edu hg19 14 72196928 72196928 + Missense_Mutation SNP G G T novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . SIPA1L1 NM_015556 exon18 c.G4834T p.D1612Y CCCAACGACGTCC . 121.0 43.0 132.0 0.0 . 219 . . . none . . PASS Atlas-SNP ABCC1 4363 hgsc.bcm.edu hg19 16 16215909 16215909 + Silent SNP C C T novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . ABCC1 NM_004996 exon24 c.C3468T p.N1156N TTTCAACGAGACC . 189.0 102.0 148.0 0.0 . 156 . . . none . . PASS Atlas-SNP SIAH1 6477 hgsc.bcm.edu hg19 16 48395959 48395959 + Silent SNP G G A novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . SIAH1 NM_001006610 exon2 c.C474T p.S158S CGGACAGGAATAA . 140.0 34.0 125.0 0.0 . 33 . . . none . . PASS Atlas-SNP SLC16A13 201232 hgsc.bcm.edu hg19 17 6941759 6941759 + Missense_Mutation SNP T T C novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . SLC16A13 NM_201566 exon3 c.T632C p.L211P CTCTCCTCCATCA . 111.0 63.0 79.0 0.0 . 28 . . . none . . PASS Atlas-SNP MYH13 8735 hgsc.bcm.edu hg19 17 10222337 10222337 + Missense_Mutation SNP T T C novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . MYH13 NM_003802 exon27 c.A3508G p.K1170E CCCTCTTCTTGTT . 211.0 115.0 118.0 0.0 . 533 . . . none . . PASS Atlas-SNP DNAH9 1770 hgsc.bcm.edu hg19 17 11845791 11845791 + Missense_Mutation SNP C C T novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . DNAH9 NM_001372 exon67 c.C12832T p.L4278F CTGGAGCTCGGCT . 109.0 36.0 99.0 0.0 . 695 . . . none . . PASS Atlas-SNP SMG8 55181 hgsc.bcm.edu hg19 17 57289014 57289014 + Silent SNP G G A novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . SMG8 NM_018149 exon1 c.G1602A p.V534V TCGAGTGTACAGT . 228.0 117.0 152.0 0.0 . 79 . . . none . . PASS Atlas-SNP ALPK2 115701 hgsc.bcm.edu hg19 18 56246259 56246259 + Silent SNP A A G novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . ALPK2 NM_052947 exon4 c.T1749C p.T583T GTGAGAAGTCTCT . 139.0 47.0 135.0 0.0 . 487 . . . none . . PASS Atlas-SNP ALPK2 115701 hgsc.bcm.edu hg19 18 56246453 56246453 + Missense_Mutation SNP T T C novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . ALPK2 NM_052947 exon4 c.A1555G p.R519G CCACTCTCTTGTC . 82.0 22.0 97.0 0.0 . 487 . . . none . . PASS Atlas-SNP ODF3L2 284451 hgsc.bcm.edu hg19 19 464231 464231 + Silent SNP A A G novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . ODF3L2 NM_182577 exon4 c.T483C p.P161P GGCATTAGGGGCA . 84.0 18.0 87.0 0.0 . 18 . . . none . . PASS Atlas-SNP UBXN6 80700 hgsc.bcm.edu hg19 19 4446696 4446696 + Missense_Mutation SNP C C T novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . UBXN6 NM_025241 exon8 c.G721A p.V241M TCAGCACGTAGAA . 114.0 46.0 108.0 0.0 . 27 . . . none . . PASS Atlas-SNP SMARCA4 6597 hgsc.bcm.edu hg19 19 11113759 11113759 + Nonsense_Mutation SNP G G T novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . SMARCA4 NM_003072 exon12 c.G1867T p.E623X CACGTGGAGAGTG . 90.0 38.0 111.0 0.0 . 502 . . . none . . PASS Atlas-SNP ELAVL3 1995 hgsc.bcm.edu hg19 19 11577519 11577519 + Missense_Mutation SNP A A G novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . ELAVL3 NM_032281 exon2 c.T133C p.Y45H GCAGGTAGTTGAC . 102.0 32.0 129.0 0.0 . 58 . . . none . . PASS Atlas-SNP ZBTB32 27033 hgsc.bcm.edu hg19 19 36205913 36205913 + Missense_Mutation SNP G G A novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . ZBTB32 NM_014383 exon2 c.G385A p.E129K CATCAGGAGGAGC . 173.0 17.0 147.0 0.0 . 33 . . . none . . PASS Atlas-SNP PPP1R15A 23645 hgsc.bcm.edu hg19 19 49376934 49376934 + Silent SNP A A T novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . PPP1R15A NM_014330 exon2 c.A444T p.I148I TCTGATAAGGACA . 136.0 48.0 112.0 0.0 . 48 . . . none . . PASS Atlas-SNP POFUT1 23509 hgsc.bcm.edu hg19 20 30803187 30803187 + Missense_Mutation SNP A A G novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . POFUT1 NM_172236 exon3 c.A362G p.K121R CTGAGAAGCGGGT . 141.0 57.0 135.0 0.0 . 52 . . . none . . PASS Atlas-SNP NEFH 4744 hgsc.bcm.edu hg19 22 29885848 29885848 + Missense_Mutation SNP T T A rs464517 byhapmap TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . NEFH NM_021076 exon4 c.T2219A p.V740E CCCCAGTGAAGGA . 279.0 46.0 193.0 0.0 . 178 . . . weak T|1.000;|0.000 . PASS Atlas-SNP EP300 2033 hgsc.bcm.edu hg19 22 41542756 41542756 + Silent SNP T T C novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . EP300 NM_001429 exon11 c.T2067C p.P689P TCTACCTGACCCA . 81.0 27.0 64.0 0.0 . 367 . . . none . . PASS Atlas-SNP USP11 8237 hgsc.bcm.edu hg19 X 47103934 47103934 + Missense_Mutation SNP G G A novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . USP11 NM_004651 exon14 c.G1957A p.D653N GAGGACGATGGGG . 103.0 71.0 109.0 0.0 . 93 . . . none . . PASS Atlas-SNP DGKQ 1609 hgsc.bcm.edu hg19 4 959714 959715 + Splice_Site INS - - C novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . DGKQ NM_001347 exon14 c.1579+2->G . . . 123.0 45.0 150.0 0.0 . 29 . 0.365854 0 none . . PASS Atlas-Indel,Pindel NHLRC2 374354 hgsc.bcm.edu hg19 10 115636691 115636691 + Frame_Shift_Del DEL T T - novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 NHLRC2,NS,carcinoma,0,1 NHLRC2 NM_198514 exon3 c.742delA p.I248fs . . 62.0 16.0 63.0 0.0 . 56 . 0.258065 0 none . . PASS Atlas-Indel,Pindel C16orf86 388284 hgsc.bcm.edu hg19 16 67702481 67702482 + Frame_Shift_Ins INS - - T novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . C16orf86 NM_001012984 exon4 c.932_933insT p.P311fs . . 114.0 57.0 80.0 0.0 . 20 . 0.5 0 none . . PASS Atlas-Indel,Pindel TIGD6 81789 hgsc.bcm.edu hg19 5 149375126 149375127 + Frame_Shift_Ins INS - - T novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . TIGD6 NM_001243253 exon2 c.786_787insA p.N262fs . . 166.0 59.0 164.0 0.0 . 29 . 0.355422 0 none . . PASS Atlas-Indel,Pindel DPCD 25911 hgsc.bcm.edu hg19 10 103360511 103360512 + Frame_Shift_Ins INS - - A novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . DPCD NM_015448 exon3 c.162_163insA p.V54fs . . 103.0 30.0 99.0 0.0 . 15 . 0.291262 0 none . . PASS Atlas-Indel,Pindel NEFH 4744 hgsc.bcm.edu hg19 22 29885853 29885858 + In_Frame_Del DEL GAAGAA GAAGAA - rs377642315 TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 GAAGAA GAAGAA . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . NEFH NM_021076 exon4 c.2223_2228del p.741_743del . . 290.0 20.0 326.0 0.0 . 178 . 0.0689655 0 weak . . PASS Atlas-INDEL NAT9 26151 hgsc.bcm.edu hg19 17 72767943 72767946 + Frame_Shift_Del DEL ACTC ACTC - novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 ACTC ACTC . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . NAT9 NM_015654 exon7 c.542_545del p.181_182del . . 115.0 56.0 78.0 0.0 . 16 . 0.486957 0 none . . PASS Atlas-Indel,Pindel NRDE2 55051 hgsc.bcm.edu hg19 14 90769166 90769166 + Frame_Shift_Del DEL T T - novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . . NM_017970 exon6 c.1310delT p.I437fs . . 99.0 32.0 88.0 0.0 . . . 0.323232 0 none . . PASS Atlas-Indel,Pindel ANK1 286 hgsc.bcm.edu hg19 8 41551435 41551438 + Frame_Shift_Del DEL GCGC GCGC - novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 GCGC GCGC . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . ANK1 NM_001142446 exon30 c.3634_3637del p.1212_1213del . . 251.0 81.0 216.0 0.0 . 497 . 0.322709 0 none . . PASS Atlas-Indel,Pindel LDLR 3949 hgsc.bcm.edu hg19 19 11217362 11217363 + Frame_Shift_Del DEL TG TG - novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 TG TG . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . LDLR NM_001195798 exon5 c.815_816del p.272_272del . . 120.0 48.0 148.0 0.0 . 72 . 0.4 0 none . . PASS Atlas-Indel,Pindel ENTPD4 9583 hgsc.bcm.edu hg19 8 23306313 23306313 + Frame_Shift_Del DEL A A - novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . ENTPD4 NM_004901 exon3 c.149delC p.S50fs . . 116.0 41.0 119.0 0.0 . 56 . 0.353448 0 none . . PASS Atlas-Indel,Pindel NAALADL2 254827 hgsc.bcm.edu hg19 3 175184939 175184939 + Frame_Shift_Del DEL T T - novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . NAALADL2 NM_207015 exon8 c.1499delC p.A500fs . . 190.0 71.0 162.0 0.0 . 86 . 0.374 . none . . PASS Pindel DR1 1810 hgsc.bcm.edu hg19 1 93812241 93812241 + Frame_Shift_Del DEL C C - novel TCGA-UZ-A9PK-01A-11D-A382-10 TCGA-UZ-A9PK-10A-01D-A385-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 9cb79cdb-d48d-4fd8-bdce-1f969be4a55f 36e67294-52d8-43b6-a9c0-0ed08f740cb3 . DR1 NM_001938 exon1 c.38delT p.I13fs . . 110.0 30.0 137.0 0.0 . 10 . 0.273 . none . . PASS Pindel