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 Trna_tot Trna_ref Trna_var Trna_alt1 Trna_alt2 SNIP1 79753 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 1 38005993 38005993 + Missense_Mutation SNP C C G novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . SNIP1-227 NM_024700 exon3 c.G691C p.A231P GAAGTGCCCCAGA . 118 63 113 0 . 2 1 1 0 0 DBT 1629 ucsc.edu;bcgsc.ca 37 1 100676255 100676255 + Missense_Mutation SNP A A G novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . DBT-91 NM_001918 exon8 c.T1012C p.Y338H CCTTATATGTTAT . 351 166 353 3 . 0 0 0 0 0 CRTC2 200186 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 1 153926765 153926765 + Missense_Mutation SNP A A G novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . CRTC2-228 NM_181715 exon4 c.T400C p.Y134H ATAAGTAGGCAGG . 46 16 70 0 . 4 4 0 0 0 C1orf27 54953 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 1 186355194 186355194 + Silent SNP T T C novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . C1orf27-23 NM_001164245 exon4 c.T309C p.D103D AAATGATTTTCAA . 84 37 117 0 . 0 0 0 0 0 PHYHIPL 84457 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca 37 10 60936661 60936661 + Silent SNP C C A novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . PHYHIPL-90 NM_032439 exon1 c.C48A p.P16P CAGCCCCTGTGAG . 46 17 40 0 . 3 2 1 0 0 PALD1 27143 ucsc.edu 37 10 72289809 72289809 + Missense_Mutation SNP G G T novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . . NM_014431 exon4 c.G453T p.Q151H ACTCCAGAAGGAC . 38 4 35 0 . 0 0 0 0 0 PIPSL 266971 ucsc.edu 37 10 95718760 95718760 + RNA SNP G G A novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . . . . . . GTCCATGGCTGAG . 100 2 109 0 . 411 0 411 0 0 MCMBP 79892 broad.mit.edu 37 10 121591063 121591063 + Missense_Mutation SNP G G T novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . MCMBP-93 NM_024834 exon16 c.C1852A p.L618M CTCTCAGCCATCG . 81 4 81 1 . 27 27 0 0 0 INSC 387755 broad.mit.edu;bcgsc.ca 37 11 15197495 15197495 + Missense_Mutation SNP C C A novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . INSC-94 NM_001031853 exon3 c.C406A p.R136S GAGCTGCGCAGGA . 47 22 53 2 . 0 0 0 0 0 MRPL11 65003 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 11 66204727 66204727 + Missense_Mutation SNP C C G novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . MRPL11-90 NM_170739 exon4 c.G321C p.E107D TGCCACCTCTTTC . 41 22 38 0 . 0 0 0 0 0 MTL5 9633 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca 37 11 68518126 68518126 + Missense_Mutation SNP C C A novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . MTL5-155 NM_001039656 exon2 c.G3T p.M1I CTCCTCCATGGCG . 33 18 33 0 . 0 0 0 0 0 P2RY6 5031 broad.mit.edu;ucsc.edu;bcgsc.ca 37 11 73007583 73007583 + Missense_Mutation SNP C C A novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . P2RY6-501 NM_176796 exon4 c.C20A p.T7K ATGGCACAGGCCA . 60 24 80 1 . 2 2 0 0 0 MAML2 84441 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 11 95825407 95825407 + Silent SNP C C T rs61901862 TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . MAML2-850 NM_032427 exon2 c.G1788A p.Q596Q CTGCTGCTGCTGC . 88 10 63 0 C|0.250;T|0.750 913 904 9 0 0 SRGAP1 57522 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 12 64377795 64377795 + Missense_Mutation SNP C C T novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . SRGAP1-653 NM_020762 exon2 c.C136T p.L46F CAGCTTCTCCAGG . 59 24 84 0 . 0 0 0 0 0 SCYL2 55681 broad.mit.edu;ucsc.edu;bcgsc.ca 37 12 100731225 100731225 + Silent SNP C C T novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . SCYL2-336 NM_017988 exon17 c.C2086T p.L696L CAGAAGCTGAAAA . 50 26 60 1 . 0 0 0 0 0 ARL1 400 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 12 101799660 101799660 + Missense_Mutation SNP T T C novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . ARL1-205 NM_001177 exon2 c.A104G p.Y35C AATCTGTACAAAA . 83 39 123 0 . 31 19 12 0 0 USP30 84749 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca 37 12 109490532 109490532 + Missense_Mutation SNP A A T novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . USP30-658 NM_032663 exon1 c.A49T p.I17F AGGGCCATCCAGC . 55 26 72 0 . 0 0 0 0 0 BRCA2 675 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 13 32972588 32972588 + Missense_Mutation SNP A A C novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . BRCA2-3153 NM_000059 exon27 c.A9938C p.K3313T CCATAAAGAAAAA . 125 51 104 0 . 0 0 0 0 0 SPRY2 10253 hgsc.bcm.edu;broad.mit.edu;ucsc.edu 37 13 80911824 80911824 + Missense_Mutation SNP T T C novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . SPRY2-659 NM_005842 exon2 c.A17G p.Q6R CCACTCTGAGCTC . 32 17 13 0 . 4 0 4 0 0 ITPK1 3705 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 14 93408247 93408247 + Missense_Mutation SNP A A T novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . ITPK1-115 NM_001142593 exon11 c.T904A p.Y302N CCTCGTAGCCTGG . 31 18 42 0 . 0 0 0 0 0 HSP90AA1 3320 broad.mit.edu;ucsc.edu 37 14 102548766 102548766 + Nonsense_Mutation SNP G G A novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . HSP90AA1-949 NM_001017963 exon11 c.C2137T p.R713X CCAATCGGTTTGA . 34 14 44 0 . 113 110 2 0 1 WDR20 91833 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 14 102675840 102675840 + Missense_Mutation SNP A A G novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . WDR20-90 NM_001242417 exon4 c.A1426G p.S476G GCTGGCAGCAAAA . 73 31 78 0 . 6 2 4 0 0 GLCE 26035 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 15 69548696 69548696 + Missense_Mutation SNP T T C novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . GLCE-92 NM_015554 exon3 c.T551C p.V184A TGGAAGTCCGAGA . 46 16 58 0 . 0 0 0 0 0 MYO9A 4649 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 15 72190184 72190184 + Missense_Mutation SNP C C G novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . MYO9A-93 NM_006901 exon25 c.G4660C p.V1554L TCTCTACTCTTTG . 93 42 76 0 . 1 0 1 0 0 TMEM202 338949 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 15 72698982 72698982 + Missense_Mutation SNP T T A novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . TMEM202-69 NM_001080462 exon3 c.T377A p.V126D TCTCTGTCTTTAC . 115 55 124 0 . 0 0 0 0 0 SCAMP5 192683 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 15 75309011 75309011 + Missense_Mutation SNP G G T novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . SCAMP5-23 NM_001178111 exon5 c.G214T p.G72C AACTTTGGCCTCG . 39 17 47 0 . 0 0 0 0 0 SMG1 23049 broad.mit.edu 37 16 18864921 18864921 + Silent SNP G G T rs188559863 byfrequency;alternate_allele TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . SMG1-1160 NM_015092 exon31 c.C4752A p.I1584I ACTCTCGATCCGA . 108 4 116 0 G|0.999;A|0.001 0 0 0 0 0 ITGAD 3681 broad.mit.edu;bcgsc.ca 37 16 31414858 31414858 + Missense_Mutation SNP A A C novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . ITGAD-226 NM_005353 exon7 c.A596C p.H199P AGATCCACTTCAC . 64 32 51 1 . 0 0 0 0 0 LCAT 3931 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 16 67976796 67976796 + Missense_Mutation SNP G G T novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . LCAT-44 NM_000229 exon3 c.C395A p.S132Y TCCACAGAGTAGG . 29 12 40 0 . 10 8 2 0 0 KRTAP4-7 100132476 broad.mit.edu 37 17 39240627 39240627 + Missense_Mutation SNP T T C rs189343211 TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . . NM_033061 exon1 c.T169C p.S57P TGCCAGTCTGTGT . 69 13 40 2 . 0 0 0 0 0 FAM134C 162427 broad.mit.edu;ucsc.edu;bcgsc.ca 37 17 40734802 40734802 + Missense_Mutation SNP C C A novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . FAM134C-70 NM_178126 exon8 c.G833T p.R278M AATTCCCTGGCAA . 101 34 84 1 . 7 4 3 0 0 HEXIM1 10614 broad.mit.edu 37 17 43226748 43226748 + Missense_Mutation SNP A A G novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . HEXIM1-23 NM_006460 exon1 c.A191G p.E64G AGGGGGAAGGGAG . 182 7 154 0 . 54 54 0 0 0 PPP1R9B 84687 broad.mit.edu;ucsc.edu;bcgsc.ca 37 17 48221032 48221032 + Missense_Mutation SNP A A G novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . PPP1R9B-90 . . . . AGGCCCATGTCTG . 58 35 61 0 . 18 11 7 0 0 TMEM104 54868 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 17 72781730 72781730 + Missense_Mutation SNP T T A novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . TMEM104-90 NM_017728 exon3 c.T155A p.L52Q TGTTCCTGGGCTT . 60 34 52 0 . 0 0 0 0 0 ACER1 125981 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 19 6312214 6312214 + Missense_Mutation SNP C C T novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . ACER1-90 NM_133492 exon3 c.G296A p.G99D CTATAGCCACTGC . 68 24 87 0 . 0 0 0 0 0 SNRNP70 6625 ucsc.edu 37 19 49604725 49604725 + Missense_Mutation SNP C C T novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . SNRNP70-90 NM_003089 exon7 c.C472T p.H158Y GACATGCACTGTG . 32 4 46 0 . 0 0 0 0 0 UBE2S 27338 broad.mit.edu 37 19 55913035 55913035 + Silent SNP A A G novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . UBE2S-226 NM_014501 exon4 c.T438C p.A146A GGCCCGAGCCGCA . 103 17 92 3 . 85 85 0 0 0 ZNF71 58491 broad.mit.edu;ucsc.edu;bcgsc.ca 37 19 57133380 57133380 + Missense_Mutation SNP A A T novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . ZNF71-91 NM_021216 exon3 c.A725T p.Y242F AGCCCTACGCGTG . 76 30 120 1 . 4 1 3 0 0 DNAJC27 51277 broad.mit.edu;ucsc.edu;bcgsc.ca 37 2 25180723 25180723 + Missense_Mutation SNP G G T novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . DNAJC27-228 NM_016544 exon4 c.C361A p.H121N TTCCATGAGGTCC . 134 56 156 1 . 0 0 0 0 0 SLC3A1 6519 broad.mit.edu;ucsc.edu;bcgsc.ca 37 2 44547379 44547379 + Silent SNP A A G novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . SLC3A1-90 NM_000341 exon10 c.A1659G p.Q553Q ATATCAAGATTTA . 112 38 117 1 . 348 182 166 0 0 RGPD3 653489 broad.mit.edu 37 2 107049632 107049632 + Missense_Mutation SNP G G A novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . RGPD3-23 NM_001144013 exon16 c.C2315T p.A772V GAATCCGCATTTC . 656 7 725 1 . 0 0 0 0 0 ERCC3 2071 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca 37 2 128051097 128051097 + Missense_Mutation SNP G G T novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . ERCC3-723 NM_000122 exon2 c.C226A p.L76I CCCAGAGGGGCCT . 51 18 59 0 . 1 1 0 0 0 WDR33 55339 ucsc.edu;bcgsc.ca 37 2 128522273 128522273 + Missense_Mutation SNP G G A novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . WDR33-90 NM_001006622 exon6 c.C755T p.T252I AATATTGTGTTTA . 248 121 303 2 . 6 2 4 0 0 NEB 4703 broad.mit.edu 37 2 152359325 152359325 + Missense_Mutation SNP A A T novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . NEB-145 NM_001271208 exon168 c.T24015A p.N8005K CTCTTGATTGCGT . 82 6 94 2 . 0 0 0 0 0 SSFA2 6744 broad.mit.edu;ucsc.edu;bcgsc.ca 37 2 182780851 182780851 + Silent SNP T T C novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . SSFA2-153 NM_001130445 exon11 c.T2484C p.T828T AAGGACTCCTACC . 100 44 81 1 . 2 2 0 0 0 C21orf2 755 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 21 45750162 45750162 + Missense_Mutation SNP C C A novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . C21orf2-90 NM_001271441 exon7 c.G1047T p.E349D CAGCCCCTCTGCA . 55 23 46 0 . 189 104 85 0 0 MN1 4330 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 22 28192976 28192976 + Missense_Mutation SNP C C T novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . MN1-993 NM_002430 exon1 c.G3556A p.A1186T CGACGGCGCACTC . 35 16 26 0 . 0 0 0 0 0 CSNK1E 1454 ucsc.edu 37 22 38690182 38690182 + Missense_Mutation SNP G G A rs200745813 TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . CSNK1E-1193 NM_001894 exon9 c.C1151T p.A384V GCGGGCGCACCCC . 39 4 41 0 G|1.000;A|0.000 11 11 0 0 0 CHL1 10752 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 3 383612 383612 + Missense_Mutation SNP C C A novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . CHL1-583 NM_001253388 exon5 c.C526A p.Q176K ATCGAACAAGATG . 190 89 199 0 . 0 0 0 0 0 FYCO1 79443 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 3 46000087 46000087 + Nonsense_Mutation SNP G G C novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . FYCO1-91 NM_024513 exon13 c.C3612G p.Y1204X GCAGTAGTAACAG . 117 62 146 0 . 1 1 0 0 0 CELSR3 1951 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca 37 3 48699894 48699894 + Silent SNP G G A novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . CELSR3-523 NM_001407 exon1 c.C174T p.G58G GGCTCCGCCACCG . 36 17 61 0 . 0 0 0 0 0 FRMD4B 23150 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca 37 3 69230503 69230503 + Missense_Mutation SNP G G A novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . FRMD4B-72 NM_015123 exon21 c.C2398T p.P800S AAGACGGTGGCTC . 102 6 72 0 . 1 1 0 0 0 SERPINI2 5276 bcgsc.ca 37 3 167189527 167189527 + Missense_Mutation SNP A A T novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 A A - - - - Unknown Untested Somatic Phase_1 WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . SERPINI2-228 NM_001012303 exon3 c.T126A p.D42E ATAAAGATCCACT . 76 35 85 0 . 0 0 0 0 0 TP63 8626 broad.mit.edu;ucsc.edu;bcgsc.ca 37 3 189612036 189612036 + Silent SNP G G C rs148577576 byfrequency;alternate_allele TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . TP63-421 NM_003722 exon14 c.G1788C p.A596A ACATGCGATCTGG . 75 30 85 0 G|0.998;A|0.002 0 0 0 0 0 AFAP1 60312 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 4 7783233 7783233 + Missense_Mutation SNP G G T novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . AFAP1-90 NM_001134647 exon13 c.C1652A p.P551H TCAGCAGGAGAGT . 106 40 121 0 . 0 0 0 0 0 UGT2B17 7367 broad.mit.edu 37 4 69403575 69403575 + Missense_Mutation SNP G G T novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . UGT2B17-91 NM_001077 exon6 c.C1361A p.P454Q TTCACCGGTTGAT . 135 5 151 0 . 0 0 0 0 0 ANXA10 11199 bcgsc.ca 37 4 169108558 169108558 + Silent SNP C C A novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 C C - - - - Unknown Untested Somatic Phase_1 WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . ANXA10-90 NM_007193 exon12 c.C948A p.I316I TGCCATCTGTGCT . 360 148 435 4 . 0 0 0 0 0 CTNND2 1501 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 5 10992734 10992734 + Missense_Mutation SNP C C T novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . CTNND2-293 NM_001332 exon19 c.G3140A p.R1047Q CTTTGCCGGTCCC . 49 25 47 0 . 1 0 1 0 0 ADAMTS12 81792 broad.mit.edu 37 5 33891915 33891915 + Missense_Mutation SNP G G T novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . ADAMTS12-232 NM_030955 exon1 c.C47A p.A16D AGCTGAGCCACCA . 244 5 303 0 . 0 0 0 0 0 BPHL 670 broad.mit.edu;ucsc.edu;bcgsc.ca 37 6 3137663 3137663 + Silent SNP C C T novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . BPHL-90 NM_004332 exon5 c.C600T p.D200D GTATGACTACTTT . 132 54 178 1 . 13 10 3 0 0 BMP6 654 broad.mit.edu;bcgsc.ca 37 6 7727541 7727541 + Missense_Mutation SNP A A T novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . BMP6-578 NM_001718 exon1 c.A353T p.Q118L AGCAGCAGCTGCC . 75 5 58 0 . 0 0 0 0 0 PHACTR1 221692 bcgsc.ca 37 6 13228185 13228185 + Missense_Mutation SNP A A G novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 A A - - - - Unknown Untested Somatic Phase_1 WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . . NM_030948 exon9 c.A1124G p.N375S ATGACAATAAAGA . 80 38 94 2 . 1 0 1 0 0 SYNE1 23345 broad.mit.edu;ucsc.edu;bcgsc.ca 37 6 152453307 152453307 + Missense_Mutation SNP C C A rs201664645 alternate_allele TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . SYNE1-607 NM_182961 exon144 c.G26044T p.G8682W CAGACCCTGAGGT . 111 46 121 1 C|1.000;G|0.000 18 7 11 0 0 HGC6.3 0 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca 37 6 168377288 168377288 + Silent SNP T T C novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . . NM_001129895 exon1 c.A45G p.G15G GGTCATTCCCCCT . 129 34 164 0 . 0 0 0 0 0 MEOX2 4223 hgsc.bcm.edu 37 7 15725797 15725797 + Silent SNP A A G novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . MEOX2-515 NM_005924 exon1 c.T231C p.H77H GTGGTGATGGTGG . 69 7 41 0 . 0 0 0 0 0 MEOX2 4223 hgsc.bcm.edu 37 7 15725800 15725800 + Silent SNP G G A novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . MEOX2-515 NM_005924 exon1 c.C228T p.H76H GTGATGGTGGTGG . 35 9 11 0 . 0 0 0 0 0 DFNA5 1687 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 7 24784199 24784199 + Missense_Mutation SNP A A T novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . DFNA5-91 NM_001127453 exon3 c.T386A p.I129N TCTCTGATGAGCT . 66 12 70 0 . 13 8 5 0 0 HOXA9 3205 broad.mit.edu;bcgsc.ca 37 7 27203455 27203455 + Missense_Mutation SNP G G T novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . HOXA9-1082 NM_152739 exon2 c.C586A p.P196T CTGCTGGGTTATC . 76 19 43 1 . 1 1 0 0 0 HECW1 23072 broad.mit.edu;bcgsc.ca 37 7 43490498 43490498 + Missense_Mutation SNP T T C novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . HECW1-669 NM_015052 exon12 c.T2470C p.Y824H CATCACTACCCAA . 67 37 46 1 . 0 0 0 0 0 POR 5447 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 7 75615290 75615290 + Silent SNP T T C novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . POR-23 NM_000941 exon14 c.T1719C p.D573D CTCGGATGAGGAC . 81 18 58 0 . 161 107 54 0 0 ATP5J2-PTCD1 100526740 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 7 99022430 99022430 + Silent SNP G G A novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . . NM_001198879 exon7 c.C1872T p.L624L GTCTGTGAGAAGC . 30 9 35 0 . 0 0 0 0 0 MET 4233 ucsc.edu;bcgsc.ca 37 7 116423413 116423413 + Missense_Mutation SNP T T C rs121913247 TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . MET-5874 NM_001127500 exon19 c.T3742C p.Y1248H GACATGTATGATA . 151 89 117 2 . 4 1 3 0 0 POT1 25913 broad.mit.edu;ucsc.edu;bcgsc.ca 37 7 124503439 124503439 + Missense_Mutation SNP T T C novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . POT1-227 NM_015450 exon8 c.A511G p.K171E CTGCTTTGCCCAA . 176 49 116 1 . 0 0 0 0 0 MLL3 58508 broad.mit.edu;ucsc.edu;bcgsc.ca 37 7 151884405 151884405 + Silent SNP A A T novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . MLL3-1398 NM_170606 exon33 c.T4950A p.T1650T GGCAACAGTTGCC . 138 38 102 1 . 0 0 0 0 0 CTSB 1508 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 8 11705226 11705226 + Missense_Mutation SNP G G T novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . CTSB-90 NM_147780 exon9 c.C638A p.P213H TAGCCAGGCTCAC . 53 24 62 0 . 186 96 90 0 0 TRPA1 8989 ucsc.edu 37 8 72958841 72958841 + Silent SNP G G A novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . TRPA1-230 NM_007332 exon17 c.C1968T p.I656I ATACTCGATCTGT . 39 4 66 0 . 0 0 0 0 0 LRRCC1 85444 ucsc.edu;bcgsc.ca 37 8 86027335 86027335 + Missense_Mutation SNP G G A novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . LRRCC1-90 NM_033402 exon5 c.G545A p.G182E TCCAAGGGTACAG . 116 52 153 2 . 0 0 0 0 0 DCAF4L2 138009 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 8 88885869 88885869 + Missense_Mutation SNP C C G novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . DCAF4L2-91 NM_152418 exon1 c.G331C p.E111Q GGAGCTCAGGGGT . 85 32 88 0 . 0 0 0 0 0 PKHD1L1 93035 broad.mit.edu;ucsc.edu;bcgsc.ca 37 8 110488892 110488892 + Nonsense_Mutation SNP C C G novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . PKHD1L1-145 NM_177531 exon52 c.C8913G p.Y2971X ATATTACTTGGGT . 123 50 142 1 . 0 0 0 0 0 OTC 5009 broad.mit.edu 37 X 38260574 38260574 + Missense_Mutation SNP C C A novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 C C . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . OTC-172 NM_000531 exon5 c.C433A p.Q145K TATAAACAATCAG . 88 12 125 8 . 0 0 0 0 0 MID1IP1 58526 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 X 38664368 38664368 + Missense_Mutation SNP G G T novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . MID1IP1-130 NM_021242 exon2 c.G169T p.G57C GAGGTAGGCGGCA . 151 74 151 0 . 53 2 51 0 0 RPA4 29935 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 X 96139635 96139635 + Missense_Mutation SNP G G A novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . RPA4-227 NM_013347 exon1 c.G326A p.G109D GGTTTGGTAGAGA . 61 33 70 0 . 0 0 0 0 0 RBMX2 51634 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 X 129546641 129546641 + Missense_Mutation SNP A A T novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . RBMX2-134 NM_016024 exon6 c.A788T p.K263M AAGAAAAGACCAG . 201 91 233 1 . 53 53 0 0 0 FCGR1B 2210 broad.mit.edu 37 1 120927211 120927212 + Frame_Shift_Del DEL GC GC - novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 GC GC . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . . NM_001017986 exon5 c.768_769del p.256_257del ATTTCAGCTCTTC . 511 66 618 0 . 0 0 0 0 0 FCGR1A 2209 broad.mit.edu 37 1 149762998 149762999 + Frame_Shift_Del DEL GC GC - novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 GC GC . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . FCGR1A-23 NM_000566 exon6 c.1050_1051del p.350_351del AGAAGAGCTGAAA . 420 26 433 0 . 0 0 0 0 0 BCL6B 255877 hgsc.bcm.edu 37 17 6928020 6928031 + In_Frame_Del DEL CAGCAGCAGCAG CAGCAGCAGCAG - rs66978918 alternate_allele TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 CAGCAGCAGCAG CAGCAGCAGCAG . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . BCL6B-227 NM_181844 exon4 c.702_713del p.234_238del . . 67 23 64 0 . 0 0 0 0 0 ACSBG2 81616 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca 37 19 6165945 6165945 + Frame_Shift_Del DEL G G - novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . ACSBG2-23 NM_030924 exon7 c.657delG p.Q219fs . . 56 18 70 0 . 0 0 0 0 0 BARD1 580 hgsc.bcm.edu;bcgsc.ca 37 2 215610468 215610468 + Frame_Shift_Del DEL T T - novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . BARD1-415 NM_000465 exon8 c.1788delA p.K596fs . . 75 23 81 0 . 0 0 0 0 0 SERPINI2 5276 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca 37 3 167189524 167189526 + In_Frame_Del DEL AAG AAG - novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 AAG AAG . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . SERPINI2-228 NM_001012303 exon3 c.127_129del p.43_43del . . 75 35 89 0 . 0 0 0 0 0 SERPINI2 5276 hgsc.bcm.edu 37 3 167189524 167189527 + Frame_Shift_Del DEL AAGA AAGA - novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 AAGA AAGA . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . SERPINI2-228 NM_001012303 exon3 c.126_129del p.42_43del . . 79 30 87 0 . 0 0 0 0 0 ADD1 118 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca 37 4 2930230 2930232 + In_Frame_Del DEL AAG AAG - novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 AAG AAG . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . ADD1-92 NM_014189 exon15 c.2287_2289del p.763_763del . . 117 50 157 0 . 0 0 0 0 0 LARS 51520 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca 37 5 145547749 145547751 + In_Frame_Del DEL TCC TCC - novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 TCC TCC . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . LARS-90 NM_020117 exon5 c.372_374del p.124_125del . . 88 28 105 0 . 0 0 0 0 0 RPS2 6187 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca 37 16 2014483 2014484 + In_Frame_Ins INS - - CGGCCT novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . RPS2-90 NM_002952 exon2 c.144_145insAGGCCG p.R48delinsRGR . . 59 19 55 0 . 0 0 0 0 0 COIL 8161 broad.mit.edu 37 17 55028117 55028118 + Frame_Shift_Ins INS - - T novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 - - . . . . Unknown Untested Somatic Phase_I WXS none Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . COIL-91 NM_004645 exon2 c.486_487insA p.N162fs TCTCTTGTTTTTT . 122 7 95 0 . 0 0 0 0 0 PCDHGC5 56097 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca 37 5 140870632 140870633 + Frame_Shift_Ins INS - - T novel TCGA-B1-A654-01A-11D-A31X-10 TCGA-B1-A654-10A-01D-A31X-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq de661caf-c510-4b30-860a-a6b90ce03bdb d5f5011d-91bc-4ca2-b4ff-2b456e1e1cbb . PCDHGC5-25 NM_018929 exon1 c.1825_1826insT p.L609fs . . 38 19 40 0 . 0 0 0 0 0