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 TranscriptID Exon ChromChange AAChange Genome_Plus_Minus_10_Bp Drug_Target TTotCov TVarCov NTotCov NVarCov dbSNPPopFreq COSMIC_Gene_Freq ABCD2 225 hgsc.bcm.edu;broad.mit.edu 37 12 40013265 40013266 + Frame_Shift_Ins INS - - T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . ABCD2 NM_005164 exon1 c.153_154insA p.K51fs TTTTTTCTTCCCG . 166.0 10.0 163.0 0.0 . 95 ACACB 32 hgsc.bcm.edu;ucsc.edu 37 12 109617830 109617830 + Nonsense_Mutation SNP C C T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . ACACB NM_001093 exon10 c.C1756T p.Q586X CGCTTGCAGGTGG . 157.0 49.0 152.0 0.0 . 98 ACPT 93650 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 19 51298214 51298214 + Silent SNP C C T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . ACPT NM_033068 exon10 c.C1158T p.I386I TGCCATCCCCCCA . 163.0 18.0 178.0 0.0 . 90 ACTN2 88 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 1 236891012 236891012 + Missense_Mutation SNP C C A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . ACTN2 NM_001103 exon6 c.C571A p.H191N CTCATCCACCGAC . 163.0 27.0 111.0 0.0 . 95 ADAM15 8751 hgsc.bcm.edu;broad.mit.edu 37 1 155029712 155029713 + Frame_Shift_Ins INS - - A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . ADAM15 NM_001261464 exon12 c.1227_1228insA p.E409fs CCTGGAGAAAGCC . 157.0 10.0 76.0 0.0 . 651 ADH1A 124 hgsc.bcm.edu;broad.mit.edu 37 4 100205756 100205757 + Frame_Shift_Ins INS - - C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . ADH1A NM_000667 exon5 c.367_368insG p.T123fs GCAGGGTCCCCTG . 181.0 12.0 210.0 0.0 . 227 ADORA3 140 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 1 112042806 112042806 + Silent SNP C C T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . ADORA3 NM_000677 exon2 c.G723A p.L241L CCATGACAGAGCA . 212.0 58.0 223.0 0.0 . 156 ADRA1B 147 hgsc.bcm.edu;ucsc.edu;bcgsc.ca 37 5 159398905 159398905 + Silent SNP G G A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . ADRA1B NM_000679 exon2 c.G969A p.L323L CACCCTGAAGCCC . 249.0 131.0 238.0 1.0 . 522 AFAP1L2 84632 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 10 116060312 116060312 + Silent SNP C C A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . AFAP1L2 NM_032550 exon14 c.G1680T p.P560P CAACGTCGGGGAG . 88.0 43.0 126.0 0.0 . 136 AGTPBP1 23287 hgsc.bcm.edu;broad.mit.edu 37 9 88247814 88247815 + Frame_Shift_Ins INS - - A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . AGTPBP1 NM_015239 exon14 c.1658_1659insT p.C553fs GTGCAGCAAAGCT . 163.0 13.0 199.0 0.0 . 158 AGXT2L2 85007 hgsc.bcm.edu;broad.mit.edu 37 5 177642304 177642305 + Frame_Shift_Ins INS - - T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . AGXT2L2 NM_153373 exon9 c.1055_1056insA p.I352fs TGTTTGATTTTTT . 246.0 17.0 215.0 0.0 . 91 AHCYL1 10768 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 1 110561690 110561690 + Missense_Mutation SNP G G C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . AHCYL1 NM_006621 exon14 c.G1335C p.L445F CAATTTGAGCTGC . 154.0 70.0 176.0 0.0 . 91 AK5 26289 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 1 77763544 77763544 + Missense_Mutation SNP A A G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . AK5 NM_174858 exon5 c.A611G p.Q204R TAAAGCAAAAATT . 155.0 50.0 156.0 0.0 . 227 ALS2CL 259173 ucsc.edu;bcgsc.ca;mdanderson.org 37 3 46722787 46722787 + Missense_Mutation SNP T T C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic . WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . ALS2CL NM_001190707 exon13 c.A1385G p.H462R TCCCAGTGGCCCG . 160.0 27.0 270.0 1.0 . 155 ANKRD12 23253 hgsc.bcm.edu;broad.mit.edu 37 18 9255075 9255076 + Frame_Shift_Ins INS - - A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . ANKRD12 NM_015208 exon9 c.1810_1811insA p.E604fs CATAAGGAAAAAA . 198.0 14.0 280.0 0.0 . 92 ANKRD26 22852 hgsc.bcm.edu;broad.mit.edu 37 10 27324037 27324038 + Frame_Shift_Ins INS - - T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . ANKRD26 NM_014915 exon24 c.3342_3343insA p.K1114fs TTGATACTTTTGT . 178.0 13.0 159.0 0.0 . 138 ANKRD6 22881 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 6 90333665 90333665 + Missense_Mutation SNP T T G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . ANKRD6 NM_001242809 exon12 c.T1107G p.N369K TCATAATCACCCT . 175.0 19.0 226.0 0.0 . 93 ANTXR1 84168 broad.mit.edu;bcgsc.ca 37 2 69472525 69472526 + Frame_Shift_Ins INS - - C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . . Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . ANTXR1 NM_032208 exon18 c.1603_1604insC p.S535fs ATCCCGTCCCCAC . 87.0 9.0 134.0 0.0 . 94 AP1B1 162 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 22 29736737 29736737 + Missense_Mutation SNP C C G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . AP1B1 NM_001127 exon14 c.G1906C p.D636H CGAGGTCCAGGTT . 97.0 11.0 92.0 0.0 . 92 AP3B1 8546 hgsc.bcm.edu;ucsc.edu;bcgsc.ca 37 5 77412060 77412060 + Splice_Site SNP T T C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . AP3B1 NM_003664 exon19 c.1969-2A>G . TTTGCCTGTTTAA . 208.0 22.0 155.0 0.0 . 90 APBB1 322 hgsc.bcm.edu;broad.mit.edu 37 11 6423899 6423900 + Frame_Shift_Ins INS - - G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . APBB1 NM_145689 exon7 c.1161_1162insC p.P387fs GCGTCCAGGGGCC . 185.0 11.0 275.0 0.0 . 136 APEX1 328 hgsc.bcm.edu;broad.mit.edu 37 14 20925388 20925389 + Frame_Shift_Ins INS - - A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . APEX1 NM_080648 exon5 c.678_679insA p.N226fs GGGGAACAAAAAG . 169.0 12.0 206.0 0.0 . 661 AQPEP 0 hgsc.bcm.edu;bcgsc.ca;mdanderson.org 37 5 115298764 115298764 + Missense_Mutation SNP C C G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . . NM_173800 exon1 c.C450G p.F150L CCTCTTCCAGGAC . 71.0 16.0 53.0 0.0 . . ARHGAP32 9743 hgsc.bcm.edu;broad.mit.edu 37 11 128842442 128842443 + Frame_Shift_Ins INS - - G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . ARHGAP32 NM_001142685 exon21 c.3917_3918insC p.L1306fs GGGGGAAGGGGAC . 169.0 11.0 227.0 0.0 . 231 ARHGEF28 64283 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 5 73153515 73153515 + Missense_Mutation SNP C C A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . . NM_001080479 exon15 c.C1825A p.P609T ATCATACCTGCCA . 340.0 113.0 300.0 0.0 . . ARID2 196528 hgsc.bcm.edu;broad.mit.edu 37 12 46246025 46246026 + Frame_Shift_Ins INS - - A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . ARID2 NM_152641 exon15 c.4119_4120insA p.S1373fs TTTAAGCAAAAAC . 198.0 12.0 165.0 0.0 . 100 ARMC9 80210 ucsc.edu;bcgsc.ca;mdanderson.org 37 2 232135735 232135735 + Missense_Mutation SNP T T G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic . WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . ARMC9 NM_025139 exon13 c.T1160G p.V387G ACGTGGTGCGGCA . 290.0 112.0 329.0 2.0 . 91 ATG14 22863 hgsc.bcm.edu;broad.mit.edu 37 14 55844624 55844625 + Splice_Site INS - - A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . ATG14 NM_014924 exon10 c.1087-2->T . ACATGCTAAAAAA . 197.0 13.0 202.0 0.0 . 90 ATP6V1D 51382 hgsc.bcm.edu;broad.mit.edu 37 14 67819690 67819691 + Frame_Shift_Ins INS - - T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . ATP6V1D NM_015994 exon2 c.109_110insA p.S37fs CATCAGATTTTTT . 184.0 11.0 202.0 0.0 . 659 ATXN3 4287 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 14 92548653 92548653 + Missense_Mutation SNP T T G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . ATXN3 NM_004993 exon8 c.A766C p.S256R GCATACTTAGCTG . 149.0 27.0 169.0 0.0 . 522 AUTS2 26053 hgsc.bcm.edu;bcgsc.ca 37 7 70255627 70255627 + Frame_Shift_Del DEL A A - novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . AUTS2 NM_015570 exon19 c.3425delA p.E1142fs GGCGGGAGCACGA . 58.0 13.0 66.0 0.0 . 92 AXDND1 126859 hgsc.bcm.edu;broad.mit.edu 37 1 179437688 179437689 + Frame_Shift_Ins INS - - A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . AXDND1 NM_144696 exon17 c.1909_1910insA p.E637fs ATAGATGAAAAAA . 221.0 15.0 149.0 0.0 . 93 B4GALT3 8703 hgsc.bcm.edu;broad.mit.edu 37 1 161143503 161143504 + Frame_Shift_Ins INS - - G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . B4GALT3 NM_001199873 exon6 c.695_696insC p.Q232fs AAGTACTGGGGGT . 147.0 11.0 130.0 0.0 . 90 BICD1 636 hgsc.bcm.edu;ucsc.edu;bcgsc.ca 37 12 32490708 32490708 + Missense_Mutation SNP A A T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . BICD1 NM_001714 exon7 c.A2528T p.Q843L GCCCACAGACACC . 105.0 16.0 98.0 0.0 . 153 BRCA1 672 hgsc.bcm.edu;ucsc.edu;bcgsc.ca 37 17 41223109 41223109 + Missense_Mutation SNP C C T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . BRCA1 NM_007300 exon16 c.G4885A p.A1629T ATTCTGCAACTTT . 262.0 40.0 195.0 0.0 . 3415 BRD2 6046 hgsc.bcm.edu;ucsc.edu 37 6 32948467 32948467 + Nonsense_Mutation SNP C C A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . BRD2 NM_001199455 exon13 c.C2483A p.S828X CGTCTTCAGACAC . 93.0 27.0 136.0 0.0 . 398 BZRAP1 9256 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 17 56389687 56389687 + Missense_Mutation SNP C C T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . BZRAP1 NM_004758 exon17 c.G2495A p.R832Q GCCTGTCGCAGCT . 85.0 15.0 92.0 0.0 . 229 C11orf57 55216 hgsc.bcm.edu;broad.mit.edu 37 11 111953315 111953316 + Frame_Shift_Ins INS - - A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . C11orf57 NM_001082969 exon6 c.501_502insA p.H167fs GTCACACAAAAAA . 242.0 15.0 305.0 0.0 . 155 C11orf86 254439 hgsc.bcm.edu;broad.mit.edu 37 11 66742903 66742904 + Frame_Shift_Ins INS - - G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . C11orf86 NM_001136485 exon1 c.70_71insG p.W24fs GAGCCCTGGGGGA . 178.0 11.0 125.0 0.0 . 68 C2orf42 54980 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 2 70408519 70408519 + Missense_Mutation SNP C C T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . C2orf42 NM_017880 exon3 c.G599A p.S200N CCCAAACTGTGCT . 123.0 19.0 150.0 0.0 . 90 C4BPA 722 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 1 207318042 207318042 + Missense_Mutation SNP A A T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . C4BPA NM_000715 exon12 c.A1774T p.T592S CAATCCACTTTGG . 150.0 15.0 84.0 0.0 . 154 C6orf141 135398 broad.mit.edu;bcgsc.ca 37 6 49519124 49519125 + Frame_Shift_Ins INS - - G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . . Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . . NM_001145652 exon1 c.619_620insG p.W207fs GAACGCTGGGGCC . 55.0 7.0 78.0 0.0 . . CAND2 23066 hgsc.bcm.edu;ucsc.edu;bcgsc.ca 37 3 12854821 12854821 + Missense_Mutation SNP T T G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . CAND2 NM_001162499 exon7 c.T940G p.Y314D CCCAACTACAACT . 171.0 62.0 250.0 0.0 . 72 CAPN3 825 hgsc.bcm.edu;bcgsc.ca;mdanderson.org 37 15 42703132 42703132 + Missense_Mutation SNP G G A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . CAPN3 NM_000070 exon22 c.G2314A p.D772N TACGCAGACAAAC . 204.0 51.0 240.0 0.0 . 514 CASP8AP2 9994 hgsc.bcm.edu;broad.mit.edu 37 6 90577003 90577004 + Frame_Shift_Ins INS - - A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . CASP8AP2 NM_012115 exon8 c.3994_3995insA p.E1332fs TGTACTGAAAAAA . 168.0 10.0 145.0 0.0 . 24 CBX4 8535 hgsc.bcm.edu;broad.mit.edu 37 17 77808830 77808831 + Frame_Shift_Ins INS - - C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . CBX4 NM_003655 exon5 c.611_612insG p.A204fs CCTTTGGCCCCCG . 206.0 12.0 78.0 0.0 . 228 CCDC141 285025 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca 37 2 179702272 179702272 + Missense_Mutation SNP G G A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . CCDC141 NM_173648 exon23 c.C3674T p.S1225F AGAGGGGACTCAG . 103.0 14.0 111.0 0.0 . 78 CCDC146 57639 broad.mit.edu;bcgsc.ca 37 7 76889333 76889334 + Frame_Shift_Ins INS - - A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . . Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . CCDC146 NM_020879 exon8 c.766_767insA p.E256fs GAAATGGAAAAGA . 91.0 9.0 123.0 0.0 . 70 CCDC168 643677 hgsc.bcm.edu;broad.mit.edu 37 13 103396690 103396691 + Frame_Shift_Ins INS - - T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . . NM_001146197 exon4 c.6357_6358insA p.N2119fs TTGTAAGTTTTTT . 155.0 10.0 177.0 0.0 . . CCDC168 643677 hgsc.bcm.edu;broad.mit.edu 37 13 103397069 103397070 + Frame_Shift_Ins INS - - T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . . NM_001146197 exon4 c.5978_5979insA p.M1993fs GTTAACATTTTTT . 188.0 15.0 220.0 0.0 . . CCR2 729230 ucsc.edu;bcgsc.ca 37 3 46399449 46399449 + Missense_Mutation SNP A A G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic . WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . CCR2 NM_001123041 exon2 c.A431G p.H144R TTGTCCATGCTGT . 387.0 75.0 501.0 1.0 . 568 CDC37L1 55664 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 9 4706065 4706065 + Missense_Mutation SNP G G A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . CDC37L1 NM_017913 exon7 c.G967A p.V323M AACTCGGTGGTAC . 269.0 58.0 291.0 0.0 . 90 CDK12 51755 hgsc.bcm.edu;ucsc.edu;bcgsc.ca 37 17 37627327 37627327 + Missense_Mutation SNP G G C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . CDK12 NM_016507 exon2 c.G1242C p.K414N AGCAAAGATGGAT . 174.0 26.0 119.0 0.0 . 1055 CDK12 51755 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 17 37687306 37687306 + Missense_Mutation SNP C C T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . CDK12 NM_016507 exon14 c.C4210T p.R1404C GACCTCCGTTTTG . 112.0 13.0 138.0 0.0 . 1055 CELSR1 9620 hgsc.bcm.edu;broad.mit.edu 37 22 46930690 46930691 + Frame_Shift_Ins INS - - G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . CELSR1 NM_014246 exon1 c.2378_2379insC p.H793fs GTGTAATGGGAGC . 167.0 10.0 139.0 0.0 . 525 CEP85L 387119 hgsc.bcm.edu;broad.mit.edu 37 6 118886846 118886847 + Frame_Shift_Ins INS - - A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . . NM_001178035 exon4 c.875_876insT p.P292fs TGAATGGGAACTC . 300.0 27.0 287.0 0.0 . . CFTR 1080 broad.mit.edu;bcgsc.ca 37 7 117232304 117232305 + Frame_Shift_Ins INS - - A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . . Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . CFTR NM_000492 exon14 c.2083_2084insA p.E695fs TTTGGGGAAAAAA . 79.0 9.0 67.0 0.0 . 518 CLASP2 23122 ucsc.edu;bcgsc.ca 37 3 33626378 33626378 + Silent SNP C C G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic . WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . CLASP2 NM_015097 exon22 c.G2106C p.L702L TGTGGTCAGAACT . 194.0 47.0 204.0 1.0 . 93 CMIP 80790 hgsc.bcm.edu;ucsc.edu;bcgsc.ca 37 16 81736275 81736275 + Splice_Site SNP G G A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . . NM_198390 exon17 c.1944+1G>A . TCCACAGTGAGTT . 722.0 368.0 934.0 2.0 . . CMTM1 113540 hgsc.bcm.edu;broad.mit.edu 37 16 66600574 66600575 + Frame_Shift_Ins INS - - C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . CMTM1 NM_181268 exon1 c.158_159insC p.H53fs GGAAGCACCCCGC . 139.0 10.0 209.0 0.0 . 90 CNTLN 54875 broad.mit.edu;ucsc.edu 37 9 17457520 17457520 + Splice_Site SNP A A G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 A A . . . . . Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . CNTLN NM_017738 exon19 c.3115-2A>G . AAAAAAAGAAGCT . 81.0 5.0 81.0 0.0 . 91 COL14A1 7373 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 8 121326235 121326235 + Missense_Mutation SNP G G A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . COL14A1 NM_021110 exon38 c.G4520A p.G1507E CTCAAGGACCAAG . 204.0 86.0 263.0 1.0 . 543 COL7A1 1294 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 3 48608550 48608550 + Missense_Mutation SNP C C T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . COL7A1 NM_000094 exon93 c.G7148A p.G2383D GGAGGGCCAGGAG . 99.0 24.0 125.0 0.0 . 160 CPEB3 22849 hgsc.bcm.edu;bcgsc.ca;mdanderson.org 37 10 93999727 93999727 + Silent SNP G G A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . CPEB3 NM_014912 exon2 c.C381T p.I127I TGGGGTGATCCCC . 71.0 18.0 76.0 0.0 . 90 CPNE5 57699 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca 37 6 36710124 36710124 + Frame_Shift_Del DEL G G - novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . CPNE5 NM_020939 exon21 c.1703delC p.P568fs GCGGGTGGGGGAC . 93.0 23.0 111.0 0.0 . 91 CTBP1 1487 bcgsc.ca;mdanderson.org 37 4 1206151 1206151 + Silent SNP G G A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_1 WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . CTBP1 NM_001328 exon9 c.C1200T p.I400I GGGGACGATACCT . 57.0 11.0 92.0 2.0 . 91 CUBN 8029 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 10 17169924 17169924 + Splice_Site SNP C C G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . CUBN NM_001081 exon4 c.253-1G>C . CTGGATCTAATTT . 104.0 23.0 104.0 0.0 . 166 CYFIP2 26999 hgsc.bcm.edu;ucsc.edu;bcgsc.ca 37 5 156714055 156714055 + Missense_Mutation SNP A A G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . CYFIP2 NM_001037332 exon3 c.A145G p.R49G GAGGACAGGAATG . 182.0 104.0 102.0 0.0 . 22 CYLC1 1538 hgsc.bcm.edu;broad.mit.edu 37 X 83128980 83128981 + Frame_Shift_Ins INS - - A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef CYLC1,NS,malignant_melanoma,0 CYLC1 NM_021118 exon4 c.1264_1265insA p.E422fs AAAGATGAAAAAA . 149.0 10.0 136.0 0.0 . 112 CYLC2 1539 hgsc.bcm.edu;broad.mit.edu 37 9 105767323 105767324 + Frame_Shift_Ins INS - - A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . CYLC2 NM_001340 exon5 c.410_411insA p.G137fs AACAAGGAAAAAA . 208.0 13.0 244.0 0.0 . 91 CYP2A7 1549 hgsc.bcm.edu;ucsc.edu;bcgsc.ca 37 19 41387943 41387943 + Missense_Mutation SNP A A G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . CYP2A7 NM_000764 exon1 c.T173C p.I58T TTCATGATGGAGT . 375.0 179.0 409.0 1.0 . 93 DCAF5 8816 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 14 69584924 69584924 + Missense_Mutation SNP T T C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . DCAF5 NM_003861 exon4 c.A467G p.N156S AAAATGTTGTCAT . 90.0 16.0 125.0 0.0 . 91 DCHS2 54798 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca 37 4 155157446 155157447 + Frame_Shift_Del DEL AG AG - novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 AG AG . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . DCHS2 NM_017639 exon25 c.6992_6993del p.2331_2331del TATGGTAGAGGAA . 227.0 0.0 191.0 0.0 . 94 DDN 23109 broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 12 49391730 49391730 + Missense_Mutation SNP C C G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . . Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . DDN NM_015086 exon2 c.G929C p.G310A CCCTTGCCGGGCT . 100.0 16.0 101.0 0.0 . 90 DGKG 1608 hgsc.bcm.edu;ucsc.edu;bcgsc.ca 37 3 185969660 185969660 + Missense_Mutation SNP C C T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . DGKG NM_001346 exon19 c.G1649A p.S550N AAGGGGCTCTGCT . 145.0 28.0 220.0 0.0 . 714 DLAT 1737 broad.mit.edu;bcgsc.ca 37 11 111896425 111896426 + Frame_Shift_Ins INS - - T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . . Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . DLAT NM_001931 exon1 c.229_230insT p.L77fs CTGCAGCTTTTGG . 93.0 9.0 114.0 0.0 . 226 DLK2 65989 hgsc.bcm.edu;broad.mit.edu 37 6 43418412 43418413 + Frame_Shift_Ins INS - - G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . DLK2 NM_206539 exon6 c.1017_1018insC p.P339fs GGGTCCAGGGGGG . 143.0 11.0 182.0 0.0 . 68 DNAH2 146754 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 17 7701533 7701533 + Silent SNP C C T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . DNAH2 NM_020877 exon53 c.C8289T p.I2763I GGGTATCGGGGGC . 46.0 30.0 86.0 0.0 . 102 DNAH5 1767 hgsc.bcm.edu;ucsc.edu;bcgsc.ca 37 5 13727745 13727745 + Missense_Mutation SNP C C T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . DNAH5 NM_001369 exon70 c.G11904A p.M3968I TTTCCACATTTTC . 354.0 118.0 320.0 0.0 . 182 DNAH6 1768 hgsc.bcm.edu;ucsc.edu;mdanderson.org 37 2 84774640 84774640 + Nonsense_Mutation SNP C C T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . DNAH6 NM_001370 exon7 c.C1090T p.R364X GAATTTCGAAATG . 358.0 149.0 353.0 1.0 . 69 DOT1L 84444 hgsc.bcm.edu;ucsc.edu;bcgsc.ca 37 19 2202716 2202716 + Missense_Mutation SNP A A G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . DOT1L NM_032482 exon9 c.A725G p.N242S TGAATAATTTTGC . 288.0 198.0 346.0 0.0 . 132 DPM2 8818 broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 9 130699764 130699764 + Silent SNP G G A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . . Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . DPM2 NM_003863 exon2 c.C42T p.V14V AACGGCGACGAGG . 129.0 59.0 147.0 1.0 . 90 DPY19L1 23333 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 7 35050986 35050986 + Missense_Mutation SNP G G A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . DPY19L1 NM_015283 exon5 c.C407T p.T136M GTAACCGTCCAAC . 367.0 69.0 364.0 0.0 . 68 DRD5 1816 hgsc.bcm.edu;bcgsc.ca;mdanderson.org 37 4 9784569 9784569 + Missense_Mutation SNP G G A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . DRD5 NM_000798 exon1 c.G916A p.V306M GTCTTCGTGTGTT . 49.0 8.0 66.0 0.0 . 91 DYNC1LI2 1783 broad.mit.edu;bcgsc.ca 37 16 66761590 66761591 + Splice_Site INS - - T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . . Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . DYNC1LI2 NM_006141 exon12 c.1261+1->A . TACATACTTTTGA . 65.0 7.0 80.0 0.0 . 93 EBLN2 55096 hgsc.bcm.edu;broad.mit.edu 37 3 73111508 73111509 + Frame_Shift_Ins INS - - C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . . NM_018029 exon1 c.276_277insC p.E92fs ATTGGAACCCCAA . 148.0 11.0 151.0 0.0 . . EBLN2 55096 hgsc.bcm.edu;broad.mit.edu 37 3 73111541 73111542 + Frame_Shift_Ins INS - - A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . . NM_018029 exon1 c.309_310insA p.I103fs GGACATTAAAAAA . 195.0 13.0 231.0 0.0 . . ELF1 1997 hgsc.bcm.edu;broad.mit.edu 37 13 41507921 41507922 + Frame_Shift_Ins INS - - C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . ELF1 NM_172373 exon9 c.1500_1501insG p.G500fs GGCAGGGCCCAAG . 179.0 11.0 207.0 0.0 . 227 ELN 2006 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org 37 7 73459566 73459566 + Missense_Mutation SNP G G T rs139718810 alternate_allele TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . ELN NM_001081753 exon10 c.G499T p.G167C TTCCCCGGTGTGG . 59.0 21.0 48.0 0.0 G|1.000;A|0.000 95 EPG5 57724 hgsc.bcm.edu;bcgsc.ca;mdanderson.org 37 18 43458391 43458391 + Silent SNP T T C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . EPG5 NM_020964 exon34 c.A5892G p.V1964V AATGATTACTGAA . 113.0 12.0 80.0 0.0 . 580 ERAP1 51752 hgsc.bcm.edu;broad.mit.edu 37 5 96132948 96132949 + In_Frame_Ins INS - - TCATCTTCA novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . ERAP1 NM_001198541 exon4 c.728_729insTGAAGATGA p.S243delinsMKMS TAGGTGCTCATCT . 239.0 20.0 281.0 0.0 . 70 ERI2 112479 hgsc.bcm.edu;ucsc.edu;bcgsc.ca 37 16 20810230 20810230 + Missense_Mutation SNP T T C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . ERI2 NM_001142725 exon9 c.A892G p.I298V CACAAATTGACTT . 605.0 189.0 427.0 0.0 . 153 ERMAP 114625 hgsc.bcm.edu;broad.mit.edu 37 1 43304572 43304573 + Frame_Shift_Ins INS - - A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . ERMAP NM_018538 exon7 c.617_618insA p.G206fs TTTTAGGAAAACT . 182.0 12.0 186.0 0.0 . 91 ESCO1 114799 hgsc.bcm.edu;ucsc.edu;bcgsc.ca 37 18 19112484 19112484 + Silent SNP G G A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . ESCO1 NM_052911 exon11 c.C2325T p.F775F CATGCTGAATACC . 229.0 155.0 285.0 0.0 . 90 ETV3L 440695 hgsc.bcm.edu;broad.mit.edu 37 1 157067713 157067714 + Frame_Shift_Ins INS - - G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . ETV3L NM_001004341 exon4 c.554_555insC p.R185fs GGCCCTCGGGGGG . 184.0 11.0 169.0 0.0 . 228 EVPL 2125 broad.mit.edu;bcgsc.ca 37 17 74003866 74003867 + Frame_Shift_Ins INS - - G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . . Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . EVPL NM_001988 exon22 c.5420_5421insC p.Q1807fs GTGCTCTGGGGGG . 131.0 13.0 133.0 0.0 . 93 EZH1 2145 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 17 40871173 40871173 + Silent SNP T T C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . EZH1 NM_001991 exon8 c.A717G p.A239A GGCAATTGCACTG . 325.0 45.0 266.0 0.0 . 229 F13A1 2162 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 6 6145912 6145912 + Silent SNP G G A rs200672690 TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . F13A1 NM_000129 exon15 c.C2139T p.D713D CAGGGAGTCACTG . 144.0 61.0 171.0 0.0 G|0.999;A|0.001 519 F8 2157 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 X 154158684 154158684 + Missense_Mutation SNP C C G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . F8 NM_000132 exon14 c.G3381C p.W1127C TTGTATCCACCTT . 165.0 28.0 149.0 0.0 . 182 FADS6 283985 broad.mit.edu;mdanderson.org 37 17 72889516 72889516 + Missense_Mutation SNP C C T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . . Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . FADS6 NM_178128 exon1 c.G178A p.A60T GCAAGGCGAAGAG . 32.0 6.0 25.0 0.0 . 22 FAM107B 83641 hgsc.bcm.edu;ucsc.edu;mdanderson.org 37 10 14563197 14563197 + Nonsense_Mutation SNP C C A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . FAM107B NM_031453 exon5 c.G913T p.E305X AGGACTCCTGGGC . 140.0 30.0 200.0 0.0 . 156 FAM160A2 84067 hgsc.bcm.edu;broad.mit.edu 37 11 6238840 6238841 + Frame_Shift_Ins INS - - C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . FAM160A2 NM_032127 exon9 c.2018_2019insG p.E673fs AGCAGTTCCCCAG . 157.0 11.0 297.0 0.0 . 92 FANCD2 2177 hgsc.bcm.edu;bcgsc.ca 37 3 10108913 10108913 + Missense_Mutation SNP G G T rs80258959 byfrequency TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . FANCD2 NM_001018115 exon26 c.G2406T p.Q802H CTGCCAGGAAACA . 114.0 12.0 109.0 0.0 G|0.990;T|0.010 229 FANCD2 2177 hgsc.bcm.edu;ucsc.edu;bcgsc.ca 37 3 10108898 10108898 + Silent SNP A A G rs77246387 byfrequency TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . FANCD2 NM_001018115 exon26 c.A2391G p.V797V GATTGTAAATGCC . 106.0 13.0 96.0 0.0 A|0.909;G|0.091 229 FGD3 89846 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 9 95796931 95796931 + Missense_Mutation SNP C C T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . FGD3 NM_001083536 exon17 c.C1894T p.P632S TCAGATCCCCAGG . 73.0 22.0 112.0 0.0 . 228 FGD4 121512 hgsc.bcm.edu;ucsc.edu;bcgsc.ca 37 12 32760995 32760995 + Silent SNP G G A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . FGD4 NM_139241 exon8 c.G1098A p.L366L GAAATTGCCTCCT . 328.0 107.0 344.0 0.0 . 229 FILIP1L 11259 hgsc.bcm.edu;broad.mit.edu 37 3 99568989 99568990 + Frame_Shift_Ins INS - - T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . FILIP1L NM_001042459 exon5 c.1531_1532insA p.L511fs TCTTTAATTTTTC . 232.0 15.0 276.0 0.0 . 45 FSIP2 401024 hgsc.bcm.edu;broad.mit.edu 37 2 186673386 186673387 + Frame_Shift_Ins INS - - A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . FSIP2 NM_173651 exon17 c.19620_19621insA p.P6540fs CTTTCCTAAAAAA . 167.0 12.0 132.0 0.0 . 90 FUBP1 8880 hgsc.bcm.edu;ucsc.edu 37 1 78429797 78429797 + Nonsense_Mutation SNP G G A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . FUBP1 NM_003902 exon12 c.C991T p.R331X GACATCGGTCTGG . 602.0 219.0 645.0 0.0 . 227 GLA 2717 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca 37 X 100655664 100655678 + In_Frame_Del DEL GGCCACATATAAAGA GGCCACATATAAAGA - novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 GGCCACATATAAAGA GGCCACATATAAAGA . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . GLA NM_000169 exon4 c.615_629del p.205_210del TGAAAGGGCCACA . 111.0 11.0 115.0 0.0 . 130 GLI2 2736 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 2 121726367 121726367 + Missense_Mutation SNP G G A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . GLI2 NM_005270 exon5 c.G721A p.A241T TCAGACGCCAGCC . 94.0 13.0 132.0 0.0 . 954 GP6 51206 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca 37 19 55539031 55539040 + Frame_Shift_Del DEL GCTGTGGGCG GCTGTGGGCG - novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 GCTGTGGGCG GCTGTGGGCG . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . GP6 NM_016363 exon4 c.516_525del p.172_175del GGTTCCGCTGTGG . 82.0 11.0 109.0 0.0 . 92 GRINA 2907 broad.mit.edu;bcgsc.ca 37 8 145065553 145065554 + Frame_Shift_Ins INS - - C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . . Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . GRINA NM_001009184 exon2 c.162_163insC p.Q54fs CGGTCAGCCAGGG . 79.0 8.0 85.0 0.0 . 90 GUCY1A2 2977 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 11 106810544 106810544 + Missense_Mutation SNP G G T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . GUCY1A2 NM_000855 exon4 c.C848A p.P283Q TTGCCTGGGTTTG . 94.0 22.0 118.0 0.0 . 589 GUF1 60558 hgsc.bcm.edu;ucsc.edu;bcgsc.ca 37 4 44692732 44692732 + Splice_Site SNP A A T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . GUF1 NM_021927 exon12 c.1336-2A>T . ATTTTTAGGAACA . 240.0 103.0 248.0 0.0 . 91 HCN3 57657 hgsc.bcm.edu;bcgsc.ca 37 1 155255629 155255629 + Missense_Mutation SNP C C A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . HCN3 NM_020897 exon6 c.C1351A p.P451T TTCCAGCCGGGGG . 401.0 36.0 184.0 0.0 . 154 HECW2 57520 hgsc.bcm.edu;bcgsc.ca 37 2 197183465 197183465 + Missense_Mutation SNP C C G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . HECW2 NM_020760 exon9 c.G2149C p.D717H CTTCATCCTCCCC . 127.0 9.0 163.0 0.0 . 668 HEPHL1 341208 hgsc.bcm.edu;ucsc.edu;bcgsc.ca 37 11 93822053 93822053 + Missense_Mutation SNP C C A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . HEPHL1 NM_001098672 exon12 c.C2213A p.A738D ACATCGCCGCTGA . 83.0 17.0 106.0 0.0 . 71 HEPHL1 341208 ucsc.edu;bcgsc.ca 37 11 93822054 93822054 + Silent SNP C C A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic . WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . HEPHL1 NM_001098672 exon12 c.C2214A p.A738A CATCGCCGCTGAA . 83.0 17.0 106.0 1.0 . 71 HFM1 164045 hgsc.bcm.edu;bcgsc.ca;mdanderson.org 37 1 91742607 91742607 + Missense_Mutation SNP C C G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . HFM1 NM_001017975 exon31 c.G3404C p.S1135T TTTTTGCTGGCAG . 292.0 90.0 294.0 0.0 . 112 HFM1 164045 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca 37 1 91742600 91742600 + Frame_Shift_Del DEL T T - novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . HFM1 NM_001017975 exon31 c.3411delA p.K1137fs CCCAGGTTTTTTG . 317.0 77.0 317.0 0.0 . 112 HGSNAT 138050 broad.mit.edu;bcgsc.ca 37 8 43002098 43002099 + Frame_Shift_Ins INS - - A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . . Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . HGSNAT NM_152419 exon2 c.126_127insA p.D42fs CTTAGACAAAAAA . 82.0 9.0 100.0 0.0 . 68 HIST1H2BM 8342 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 6 27782957 27782957 + Missense_Mutation SNP C C G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . HIST1H2BM NM_003521 exon1 c.C136G p.L46V AAGGTGCTGAAGC . 192.0 76.0 266.0 0.0 . 131 HIST1H4D 8360 hgsc.bcm.edu;bcgsc.ca;mdanderson.org 37 6 26189253 26189253 + Missense_Mutation SNP G G A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . HIST1H4D NM_003539 exon1 c.C52T p.R18C GGTGACGCTTGGC . 75.0 30.0 64.0 0.0 . 68 HIVEP2 3097 hgsc.bcm.edu;broad.mit.edu 37 6 143094744 143094745 + Frame_Shift_Ins INS - - T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . HIVEP2 NM_006734 exon5 c.1132_1133insA p.G378fs CTTGTCCTTTTTT . 299.0 18.0 284.0 0.0 . 95 HOXC10 3226 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 12 54382990 54382990 + Silent SNP G G A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . HOXC10 NM_017409 exon2 c.G789A p.L263L TTGGCTGACAGCA . 200.0 25.0 220.0 0.0 . 91 HOXC8 3224 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 12 54404963 54404963 + Missense_Mutation SNP G G C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . HOXC8 NM_022658 exon2 c.G527C p.R176P TGACACGAAAACG . 116.0 20.0 105.0 0.0 . 91 HSPB2 3316 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 11 111784239 111784239 + Missense_Mutation SNP G G A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . HSPB2 NM_001541 exon2 c.G169A p.G57R CCAGCTGGGGAGG . 50.0 10.0 54.0 0.0 . 659 IL17C 27189 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 16 88705412 88705412 + Silent SNP G G A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . IL17C NM_013278 exon2 c.G30A p.L10L GTTTCTGACCTGG . 142.0 23.0 185.0 0.0 . 90 IL6R 3570 hgsc.bcm.edu;broad.mit.edu 37 1 154437759 154437760 + Frame_Shift_Ins INS - - G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . IL6R NM_000565 exon10 c.1310_1311insG p.L437fs GCAGCCTGGGGTC . 172.0 11.0 158.0 0.0 . 229 IPO7 10527 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca 37 11 9463685 9463693 + In_Frame_Del DEL AACAAAGAA AACAAAGAA - novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 AACAAAGAA AACAAAGAA . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . IPO7 NM_006391 exon24 c.2960_2968del p.987_990del ATGAAGAACAAAG . 314.0 0.0 361.0 0.0 . 271 ITGAV 3685 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 2 187540361 187540361 + Missense_Mutation SNP G G T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . ITGAV NM_002210 exon27 c.G2737T p.V913F AAGATTGTCTGCC . 291.0 88.0 253.0 0.0 . 653 JAG2 3714 hgsc.bcm.edu;broad.mit.edu;mdanderson.org 37 14 105609430 105609430 + Missense_Mutation SNP G G A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . JAG2 NM_002226 exon26 c.C3319T p.R1107C GCTTGCGTGTCCA . 14.0 7.0 27.0 0.0 . 846 JAK2 3717 hgsc.bcm.edu;broad.mit.edu 37 9 5069192 5069193 + Frame_Shift_Ins INS - - C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . JAK2 NM_004972 exon11 c.1497_1498insC p.C499fs ATGCTGTCCCCCA . 178.0 12.0 195.0 0.0 . 75307 KAT6B 23522 hgsc.bcm.edu;broad.mit.edu 37 10 76735587 76735588 + Frame_Shift_Ins INS - - C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . . NM_012330 exon8 c.1492_1493insC p.T498fs CCCCCAACCCCCA . 118.0 10.0 130.0 0.0 . . KBTBD13 390594 broad.mit.edu;bcgsc.ca;mdanderson.org 37 15 65369217 65369217 + Missense_Mutation SNP C C T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . . Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . . NM_001101362 exon1 c.C64T p.R22C GCCGACCGCGCCC . 25.0 14.0 21.0 0.0 . . KCNH2 3757 hgsc.bcm.edu;bcgsc.ca;mdanderson.org 37 7 150671893 150671893 + Silent SNP C C A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . KCNH2 NM_000238 exon2 c.G213T p.G71G GCGCGGCCCGTGC . 61.0 17.0 21.0 0.0 . 94 KCNN3 3782 hgsc.bcm.edu;broad.mit.edu 37 1 154842187 154842188 + Frame_Shift_Ins INS - - G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . KCNN3 NM_001204087 exon1 c.254_255insC p.L85fs TGAGACAGGGGAT . 149.0 10.0 66.0 0.0 . 91 KCTD4 386618 hgsc.bcm.edu;broad.mit.edu 37 13 45768382 45768383 + Frame_Shift_Ins INS - - T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . KCTD4 NM_198404 exon2 c.321_322insA p.N107fs AAGTTGATTTTCT . 175.0 11.0 241.0 0.0 . 90 KDR 3791 hgsc.bcm.edu;ucsc.edu;bcgsc.ca 37 4 55976873 55976873 + Missense_Mutation SNP G G A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . KDR NM_002253 exon8 c.C1039T p.R347C TGACACGCTCCCC . 268.0 113.0 333.0 0.0 . 2298 KIAA1147 57189 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 7 141362636 141362636 + Missense_Mutation SNP T T G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . KIAA1147 NM_001080392 exon9 c.A1188C p.Q396H GTTGTTTTGTTCT . 118.0 39.0 99.0 0.0 . 69 KIAA1614 57710 broad.mit.edu;bcgsc.ca 37 1 180904976 180904977 + Frame_Shift_Ins INS - - C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . . Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . KIAA1614 NM_020950 exon5 c.1931_1932insC p.S644fs GCAGCAGCCCGCG . 77.0 9.0 60.0 0.0 . 26 KIAA1755 85449 hgsc.bcm.edu;broad.mit.edu 37 20 36869926 36869927 + Frame_Shift_Ins INS - - C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . KIAA1755 NM_001029864 exon3 c.607_608insG p.P203fs GAAGGGGCCCCCA . 181.0 11.0 198.0 0.0 . 95 KLHL10 317719 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 17 40004434 40004434 + Missense_Mutation SNP A A C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . KLHL10 NM_152467 exon5 c.A1702C p.S568R GCTCTGAGCTGCT . 387.0 200.0 270.0 0.0 . 227 KLHL11 55175 hgsc.bcm.edu;bcgsc.ca 37 17 40010740 40010740 + Missense_Mutation SNP C C T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . KLHL11 NM_018143 exon2 c.G1379A p.G460E CCATGTCCTCCAA . 498.0 45.0 350.0 0.0 . 90 KNTC1 9735 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 12 123097712 123097712 + Missense_Mutation SNP T T G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . KNTC1 NM_014708 exon54 c.T5676G p.C1892W TCAGTGTCTCTTC . 177.0 63.0 158.0 0.0 . 543 KRT78 196374 broad.mit.edu;bcgsc.ca 37 12 53242576 53242577 + Frame_Shift_Ins INS - - C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . . Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . KRT78 NM_173352 exon1 c.139_140insG p.C47fs CCAGGCACCCCCC . 79.0 8.0 96.0 0.0 . 188 KRTAP5-1 387264 hgsc.bcm.edu;broad.mit.edu 37 11 1605983 1605984 + Frame_Shift_Ins INS - - C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . KRTAP5-1 NM_001005922 exon1 c.497_498insG p.A166fs CCACAGGCCCCCT . 135.0 11.0 248.0 0.0 . 44 LAMA3 3909 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 18 21331052 21331052 + Silent SNP G G T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . LAMA3 NM_001127717 exon5 c.G855T p.R285R TCGGCGGGTGAGT . 111.0 28.0 161.0 0.0 . 100 LAMB4 22798 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 7 107763585 107763585 + Silent SNP A A G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . LAMB4 NM_007356 exon2 c.T25C p.L9L GGTGCAAAAAAAG . 147.0 60.0 147.0 0.0 . 140 LARP7 51574 hgsc.bcm.edu;ucsc.edu;bcgsc.ca 37 4 113568542 113568542 + Missense_Mutation SNP A A T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . LARP7 NM_001267039 exon9 c.A855T p.K285N GAAAAAACGGGAC . 248.0 120.0 273.0 0.0 . 93 LCE1C 353133 hgsc.bcm.edu;broad.mit.edu 37 1 152777757 152777758 + Frame_Shift_Ins INS - - C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . LCE1C NM_178351 exon2 c.198_199insG p.G66fs GCAGCATCCCCCA . 161.0 12.0 150.0 0.0 . 90 LRP11 84918 hgsc.bcm.edu;bcgsc.ca;mdanderson.org 37 6 150174142 150174142 + Missense_Mutation SNP C C T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . LRP11 NM_032832 exon2 c.G768A p.M256I TACCTTCATGTCC . 146.0 57.0 199.0 0.0 . 90 MC5R 4161 ucsc.edu;bcgsc.ca;mdanderson.org 37 18 13826422 13826422 + Missense_Mutation SNP G G A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic . WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . MC5R NM_005913 exon1 c.G658A p.A220T CGGATCGCGGCTC . 138.0 42.0 214.0 1.0 . 526 MED12L 116931 broad.mit.edu;bcgsc.ca 37 3 151148162 151148163 + Frame_Shift_Ins INS - - T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . . Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . MED12L NM_053002 exon42 c.6379_6380insT p.L2127fs AAGCAGCTTTCCA . 72.0 7.0 94.0 0.0 . 576 MEF2A 4205 broad.mit.edu;bcgsc.ca 37 15 100252792 100252792 + Missense_Mutation SNP G G T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . . Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . MEF2A NM_005587 exon11 c.G1316T p.R439L AGCCCCGACAGGA . 36.0 7.0 51.0 0.0 . 455 MFF 56947 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 2 228220420 228220420 + Silent SNP C C T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . MFF NM_020194 exon10 c.C840T p.T280T TACAACCATTGAA . 372.0 127.0 350.0 0.0 . 153 MIR122 406906 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca 37 18 56118310 56118312 + RNA DEL AGC AGC - novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 AGC AGC . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . . . . . . TTCCTTAGCAGAG . 71.0 39.0 133.0 0.0 . . MIR92B 693235 hgsc.bcm.edu;broad.mit.edu 37 1 155165011 155165012 + RNA INS - - T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . . . . . . AGTGTTGTTTTTT . 263.0 17.0 46.0 0.0 . . MLEC 9761 broad.mit.edu;bcgsc.ca 37 12 121134204 121134205 + Frame_Shift_Ins INS - - A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . . Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . MLEC NM_014730 exon5 c.735_736insA p.L245fs TAATCTCAAAAAA . 68.0 7.0 83.0 0.0 . 91 MLL2 8085 hgsc.bcm.edu;broad.mit.edu 37 12 49425625 49425626 + Frame_Shift_Ins INS - - G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . MLL2 NM_003482 exon39 c.12863_12864insC p.R4288fs GGGAGCCGGGGTG . 165.0 11.0 239.0 0.0 . 612 MSLN 10232 hgsc.bcm.edu;ucsc.edu;bcgsc.ca 37 16 812697 812697 + Missense_Mutation SNP C C G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . MSLN NM_005823 exon3 c.C17G p.A6G CAACGGCTCGACC . 159.0 29.0 131.0 0.0 . 91 MTOR 2475 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 1 11303173 11303173 + Silent SNP A A G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . MTOR NM_004958 exon9 c.T1410C p.H470H TTACTTATGGGCG . 40.0 24.0 67.0 0.0 . 1439 MYL4 4635 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 17 45299202 45299202 + Silent SNP G G C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . MYL4 NM_001002841 exon5 c.G468C p.R156R GCTTCGGCACGTC . 167.0 83.0 144.0 0.0 . 92 MYO10 4651 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 5 16701663 16701663 + Silent SNP G G A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . MYO10 NM_012334 exon25 c.C2841T p.F947F CTCGTCGAAATTG . 83.0 33.0 114.0 0.0 . 3 MYPN 84665 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 10 69881741 69881741 + Missense_Mutation SNP G G T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . MYPN NM_001256267 exon3 c.G546T p.K182N CCACAAGAGTAAA . 85.0 22.0 111.0 0.0 . 95 NANOGNB 360030 hgsc.bcm.edu;broad.mit.edu 37 12 7922711 7922712 + Frame_Shift_Ins INS - - A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . . NM_001145465 exon2 c.235_236insA p.E79fs AAAGAAGAAAAAA . 163.0 10.0 156.0 0.0 . . NAPA 8775 hgsc.bcm.edu;broad.mit.edu 37 19 47995348 47995349 + Frame_Shift_Ins INS - - G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . NAPA NM_003827 exon8 c.590_591insC p.L197fs TTGAGGAGGGGGC . 158.0 13.0 145.0 0.0 . 90 NBAS 51594 hgsc.bcm.edu;ucsc.edu;bcgsc.ca 37 2 15519748 15519748 + Missense_Mutation SNP C C A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . NBAS NM_015909 exon30 c.G3568T p.D1190Y AGCTATCAGTGAG . 334.0 44.0 337.0 0.0 . 94 NCOA1 8648 hgsc.bcm.edu;ucsc.edu;mdanderson.org 37 2 24991260 24991260 + Missense_Mutation SNP A A T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . NCOA1 NM_003743 exon21 c.A4326T p.X1442Y TGAATAACCACTT . 81.0 17.0 102.0 0.0 . 228 NELFE 7936 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 6 31921602 31921602 + Missense_Mutation SNP C C G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . . NM_002904 exon10 c.G949C p.G317R GGGTCCCGTTGAG . 327.0 65.0 251.0 0.0 . . NFATC3 4775 hgsc.bcm.edu;bcgsc.ca;mdanderson.org 37 16 68224766 68224766 + Missense_Mutation SNP G G C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . NFATC3 NM_173163 exon9 c.G2194C p.D732H TCCTCTGATTCAG . 185.0 14.0 217.0 0.0 . 92 NGF 4803 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 1 115829018 115829018 + Silent SNP G G A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . NGF NM_002506 exon3 c.C399T p.F133F CACCGAGAATTCG . 144.0 60.0 158.0 0.0 . 1083 NLGN1 22871 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 3 173998709 173998709 + Silent SNP C C T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . NLGN1 NM_014932 exon7 c.C2088T p.A696A TGCAGCCCTGTAC . 121.0 56.0 142.0 0.0 . 231 NLRP1 22861 hgsc.bcm.edu;broad.mit.edu 37 17 5462267 5462268 + Frame_Shift_Ins INS - - T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . NLRP1 NM_014922 exon4 c.1749_1750insA p.K583fs AAGGGTCTTTTTT . 158.0 11.0 219.0 0.0 . 274 NLRP2 55655 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 19 55508705 55508705 + Missense_Mutation SNP C C G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . NLRP2 NM_017852 exon12 c.C2900G p.P967R CCATCCCTCCGTT . 319.0 96.0 313.0 0.0 . 120 NT5C1B-RDH14 100526794 hgsc.bcm.edu;ucsc.edu;bcgsc.ca 37 2 18736770 18736770 + Missense_Mutation SNP C C T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . . NM_001199103 exon9 c.G1640A p.R547H AAGCGGCGGGCTA . 187.0 33.0 146.0 0.0 . . NUDT17 200035 hgsc.bcm.edu;broad.mit.edu 37 1 145587383 145587384 + Frame_Shift_Ins INS - - G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . NUDT17 NM_001012758 exon6 c.697_698insC p.G233fs GAAGTCCGGGTGT . 127.0 10.0 97.0 0.0 . 90 NXPH1 30010 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 7 8791057 8791057 + Silent SNP T T A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . NXPH1 NM_152745 exon3 c.T474A p.T158T TTCAACTGGTCAA . 144.0 41.0 128.0 0.0 . 69 OR10A2 341276 hgsc.bcm.edu;ucsc.edu;bcgsc.ca 37 11 6891840 6891840 + Missense_Mutation SNP G G T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . OR10A2 NM_001004460 exon1 c.G855T p.K285N GGTGAAGAATGCC . 127.0 43.0 202.0 0.0 . 113 OR10A7 121364 broad.mit.edu;bcgsc.ca 37 12 55614789 55614810 + Frame_Shift_Del DEL GAGAGAAACTCATCTAAGATAT GAGAGAAACTCATCTAAGATAT - novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 GAGAGAAACTCATCTAAGATAT GAGAGAAACTCATCTAAGATAT . . . . . Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . OR10A7 NM_001005280 wholegene TTTTTAGAGAGAA . 243.0 0.0 227.0 0.0 . 72 OR2A12 346525 hgsc.bcm.edu;broad.mit.edu 37 7 143792820 143792821 + Frame_Shift_Ins INS - - G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . OR2A12 NM_001004135 exon1 c.620_621insG p.V207fs TCTTAGTGGGGCC . 143.0 11.0 133.0 0.0 . 92 OR2B11 127623 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 1 247614658 247614658 + Missense_Mutation SNP G G T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . OR2B11 NM_001004492 exon1 c.C627A p.F209L CACGAAGAAGGCC . 111.0 34.0 93.0 0.0 . 69 OR2C1 4993 hgsc.bcm.edu;bcgsc.ca 37 16 3406154 3406154 + Missense_Mutation SNP G G A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . OR2C1 NM_012368 exon1 c.G214A p.A72T GACCTTGCTTTCG . 520.0 34.0 292.0 0.0 . 69 OR5D13 390142 hgsc.bcm.edu;ucsc.edu 37 11 55541187 55541187 + Nonsense_Mutation SNP A A T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . OR5D13 NM_001001967 exon1 c.A274T p.R92X GAATACAGAACCA . 525.0 110.0 638.0 0.0 . 71 OR5D16 390144 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 11 55606431 55606431 + Silent SNP C C A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . OR5D16 NM_001005496 exon1 c.C204A p.L68L CCACCTCTCCTTT . 407.0 89.0 511.0 0.0 . 73 OR6C4 341418 hgsc.bcm.edu;broad.mit.edu 37 12 55945306 55945307 + Frame_Shift_Ins INS - - T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . OR6C4 NM_001005494 exon1 c.296_297insT p.Y99fs CTCAGTATTTTTT . 218.0 18.0 206.0 0.0 . 68 OR6S1 341799 broad.mit.edu;bcgsc.ca 37 14 21109759 21109760 + Frame_Shift_Ins INS - - A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . . Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . OR6S1 NM_001001968 exon1 c.92_93insT p.S31fs AACACAGAAAATA . 74.0 8.0 103.0 0.0 . 70 OR6X1 390260 hgsc.bcm.edu;broad.mit.edu 37 11 123624382 123624383 + Frame_Shift_Ins INS - - G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . OR6X1 NM_001005188 exon1 c.845_846insC p.L282fs TTCAGAAGGGGGG . 144.0 10.0 168.0 0.0 . 71 ORC1 4998 hgsc.bcm.edu;bcgsc.ca;mdanderson.org 37 1 52859445 52859445 + Missense_Mutation SNP G G T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . ORC1 NM_004153 exon6 c.C752A p.T251N CATGAAGTCTGCT . 104.0 39.0 70.0 0.0 . 206 OTP 23440 ucsc.edu;bcgsc.ca;mdanderson.org 37 5 76932769 76932769 + Silent SNP C C G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic . WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . OTP NM_032109 exon2 c.G324C p.R108R GCGCGTCCGGTGG . 97.0 14.0 111.0 1.0 . 69 PA2G4 5036 bcgsc.ca;mdanderson.org 37 12 56500791 56500791 + Missense_Mutation SNP A A G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic Phase_1 WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . PA2G4 NM_006191 exon3 c.A235G p.S79G CCCACCAGCATTT . 300.0 42.0 316.0 1.0 . 68 PANK4 55229 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 1 2452651 2452651 + Missense_Mutation SNP C C G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . PANK4 NM_018216 exon3 c.G311C p.C104S TCCAGGCAGGCTT . 312.0 54.0 299.0 0.0 . 158 PARD3 56288 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 10 34400172 34400172 + Silent SNP C C T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . PARD3 NM_019619 exon25 c.G3996A p.V1332V GGGGGGCACATCT . 101.0 53.0 150.0 0.0 . 92 PCDH15 65217 hgsc.bcm.edu;ucsc.edu;bcgsc.ca 37 10 56128943 56128943 + Silent SNP C C T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . PCDH15 NM_001142763 exon6 c.G426A p.V142V GTCTCTCACCACT . 136.0 24.0 162.0 0.0 . 193 PCDHGA10 56106 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 5 140793274 140793274 + Missense_Mutation SNP C C T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . . NM_032090 exon1 c.C532T p.P178S CTCAGCCCCAATA . 72.0 13.0 72.0 0.0 . . PCDHGC3 5098 hgsc.bcm.edu;bcgsc.ca 37 5 140855947 140855947 + Silent SNP G G C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . PCDHGC3 NM_032402 exon1 c.G264C p.V88V GTTTGTGAACGAC . 175.0 27.0 168.0 0.0 . 24 PCNT 5116 hgsc.bcm.edu;broad.mit.edu 37 21 47819683 47819684 + Frame_Shift_Ins INS - - A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . PCNT NM_006031 exon25 c.4764_4765insA p.Q1588fs AAAACAGAAAAAC . 207.0 13.0 237.0 0.0 . 141 PCNXL2 80003 ucsc.edu;bcgsc.ca;mdanderson.org 37 1 233137318 233137318 + Missense_Mutation SNP C C T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic . WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . PCNXL2 NM_014801 exon29 c.G5062A p.A1688T CTGGAGCTACAAC . 354.0 89.0 313.0 1.0 . 91 PDLIM2 64236 hgsc.bcm.edu;ucsc.edu;bcgsc.ca 37 8 22438952 22438952 + Missense_Mutation SNP A A G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . PDLIM2 NM_021630 exon3 c.A904G p.I302V GTGGCCATCAACG . 82.0 25.0 261.0 0.0 . 90 PGAM1 5223 broad.mit.edu;bcgsc.ca 37 10 99190813 99190814 + Frame_Shift_Ins INS - - C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . . Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . PGAM1 NM_002629 exon3 c.516_517insC p.V172fs AATAGTTCCCCAG . 262.0 11.0 340.0 0.0 . 226 PI4KAP2 375133 hgsc.bcm.edu;broad.mit.edu 37 22 21838338 21838339 + RNA INS - - T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . PI4KAP2 . . . . ATCAAACCCCCGC . 138.0 12.0 115.0 0.0 . 68 PIAS4 51588 hgsc.bcm.edu;bcgsc.ca;mdanderson.org 37 19 4037690 4037690 + Silent SNP C C T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . PIAS4 NM_015897 exon11 c.C1350T p.G450G TGGCGGCGGCCCG . 68.0 37.0 33.0 0.0 . 659 PIK3CA 5290 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 3 178936091 178936091 + Missense_Mutation SNP G G A rs104886003 bycluster TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef PIK3CA,bladder,carcinoma,0 PIK3CA NM_006218 exon10 c.G1633A p.E545K ATCACTGAGCAGG . 460.0 90.0 497.0 1.0 . 27752 PJA1 64219 hgsc.bcm.edu;broad.mit.edu 37 X 68382256 68382257 + Nonsense_Mutation INS - - A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . PJA1 NM_145119 exon2 c.826_827insT p.D276_T277delinsX CAGTATCAAAAAA . 152.0 11.0 127.0 0.0 . 130 PLCG1 5335 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 20 39794969 39794969 + Silent SNP C C T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . PLCG1 NM_182811 exon17 c.C1935T p.R645R CCTGCGCTGTAAT . 95.0 18.0 119.0 0.0 . 911 PLCH1 23007 hgsc.bcm.edu;broad.mit.edu 37 3 155200477 155200478 + Frame_Shift_Ins INS - - T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . PLCH1 NM_001130960 exon23 c.3362_3363insA p.S1121fs AAGATGCTTTTCC . 183.0 11.0 210.0 0.0 . 151 PLEKHA4 57664 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 19 49364948 49364948 + Missense_Mutation SNP T T C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . PLEKHA4 NM_001161354 exon4 c.A194G p.D65G GAGCTGTCCTGGG . 77.0 29.0 68.0 0.0 . 227 PLEKHA5 54477 hgsc.bcm.edu;broad.mit.edu 37 12 19427544 19427545 + Frame_Shift_Ins INS - - A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . PLEKHA5 NM_001256470 exon11 c.940_941insA p.Q314fs AACAATCAAAAAA . 145.0 10.0 133.0 0.0 . 227 PLEKHA8P1 51054 hgsc.bcm.edu;broad.mit.edu 37 12 45567240 45567241 + RNA INS - - A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . PLEKHA8P1 . . . . TTCTGTCAAAAAT . 163.0 10.0 180.0 0.0 . 226 POGZ 23126 ucsc.edu;bcgsc.ca;mdanderson.org 37 1 151413427 151413427 + Missense_Mutation SNP A A C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic . WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . POGZ NM_145796 exon3 c.T260G p.V87G AGTGTGACAAGAG . 459.0 50.0 404.0 1.0 . 93 POT1 25913 hgsc.bcm.edu;ucsc.edu;bcgsc.ca 37 7 124464094 124464094 + Silent SNP T T C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . POT1 NM_015450 exon19 c.A1827G p.S609S ATTGTATGACTTG . 304.0 114.0 262.0 0.0 . 227 PRDX2 7001 hgsc.bcm.edu;broad.mit.edu 37 19 12911099 12911100 + Frame_Shift_Ins INS - - G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . PRDX2 NM_005809 exon4 c.272_273insC p.I91fs TCTTTCCGGGGGG . 184.0 11.0 212.0 0.0 . 90 PRNP 5621 broad.mit.edu;bcgsc.ca 37 20 4680180 4680181 + Frame_Shift_Ins INS - - A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . . Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . PRNP NM_001080121 exon2 c.314_315insA p.P105fs GTAAGCCAAAAAC . 68.0 7.0 84.0 0.0 . 514 PRPF39 55015 hgsc.bcm.edu;broad.mit.edu 37 14 45564691 45564692 + Frame_Shift_Ins INS - - T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . PRPF39 NM_017922 exon2 c.249_250insT p.K83fs TGAAAAATTTTGG . 166.0 10.0 176.0 0.0 . 70 PRPF40A 55660 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 2 153529052 153529052 + Missense_Mutation SNP A A T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . PRPF40A NM_017892 exon13 c.T1291A p.S431T ACTTTGATCTTGC . 259.0 89.0 247.0 0.0 . 68 PTEN 5728 hgsc.bcm.edu;broad.mit.edu 37 10 89720665 89720666 + Frame_Shift_Ins INS - - T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef PTEN,NS,carcinoma,+2 PTEN NM_000314 exon8 c.816_817insT p.H272fs GTTTCACTTTTGG . 218.0 16.0 139.0 0.0 . 17735 PTK6 5753 ucsc.edu;mdanderson.org 37 20 62162199 62162199 + Nonsense_Mutation SNP G G T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic . WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . PTK6 NM_005975 exon6 c.C914A p.S305X TTCTGCGACTCCA . 236.0 39.0 219.0 1.0 . 419 PTPN12 5782 broad.mit.edu;bcgsc.ca 37 7 77247882 77247883 + Frame_Shift_Ins INS - - GT novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . . Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . PTPN12 NM_002835 exon12 c.1025_1026insGT p.S342fs CCCGCAGGTATTG . 71.0 7.0 66.0 0.0 . 228 PTPN21 11099 hgsc.bcm.edu;ucsc.edu;mdanderson.org 37 14 88938677 88938677 + Nonsense_Mutation SNP G G A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . PTPN21 NM_007039 exon15 c.C2782T p.Q928X CATCTTGGAATCG . 284.0 51.0 358.0 0.0 . 230 PXDN 7837 broad.mit.edu;bcgsc.ca 37 2 1652251 1652251 + Missense_Mutation SNP C C T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . . Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . PXDN NM_012293 exon17 c.G3301A p.A1101T AGAAAGCTTTGTG . 34.0 6.0 73.0 0.0 . 166 PYGM 5837 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 11 64517976 64517976 + Missense_Mutation SNP C C T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . PYGM NM_005609 exon17 c.G2049A p.M683I GTTGAGCATGAAC . 138.0 24.0 177.0 0.0 . 92 R3HDM1 23518 bcgsc.ca;mdanderson.org 37 2 136409526 136409526 + Missense_Mutation SNP G G C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_1 WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . R3HDM1 NM_015361 exon17 c.G1847C p.G616A CTGCTGGATATCC . 176.0 34.0 184.0 0.0 . 91 RABGGTA 5875 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 14 24738189 24738189 + Silent SNP C C T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . . NM_004581 exon7 c.G726A p.Q242Q TGCATCCTGGGGG . 128.0 29.0 150.0 0.0 . . RAD50 10111 hgsc.bcm.edu;bcgsc.ca;mdanderson.org 37 5 131924503 131924503 + Missense_Mutation SNP G G T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . RAD50 NM_005732 exon8 c.G1176T p.Q392H AAGACAGATTAAA . 524.0 47.0 400.0 0.0 . 229 RAD51 5888 hgsc.bcm.edu;broad.mit.edu 37 15 41022163 41022164 + Frame_Shift_Ins INS - - A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . RAD51 NM_001164269 exon9 c.890_891insA p.S297fs ATGCATCAACAAC . 164.0 10.0 185.0 0.0 . 563 RAD52 5893 hgsc.bcm.edu;bcgsc.ca;mdanderson.org 37 12 1023279 1023279 + Missense_Mutation SNP C C G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . RAD52 NM_134424 exon11 c.G976C p.E326Q TGTCTTCAAGAGT . 125.0 18.0 144.0 0.0 . 227 RANBP9 10048 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 6 13657454 13657454 + Missense_Mutation SNP G G C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . RANBP9 NM_005493 exon4 c.C791G p.S264C CCAGAAGAACAAA . 211.0 23.0 223.0 0.0 . 414 RAPGEF1 2889 hgsc.bcm.edu;broad.mit.edu 37 9 134501450 134501451 + Frame_Shift_Ins INS - - G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . RAPGEF1 NM_198679 exon10 c.1564_1565insC p.Y522fs GCGCGTAGGGGAC . 157.0 10.0 199.0 0.0 . 849 RBL2 5934 hgsc.bcm.edu;broad.mit.edu 37 16 53513829 53513830 + Frame_Shift_Ins INS - - A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . RBL2 NM_005611 exon19 c.2807_2808insA p.R936fs GGAAAAGAAAAAG . 151.0 10.0 269.0 0.0 . 841 RBMXL3 139804 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 X 114426299 114426299 + Silent SNP C C T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . . NM_001145346 exon1 c.C2295T p.D765D CCATGACAGTTCC . 50.0 36.0 113.0 0.0 . . RGS4 5999 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 1 163039295 163039295 + Silent SNP T T A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . RGS4 NM_001102445 exon2 c.T312A p.G104G TGCAGGTCTGCCG . 146.0 23.0 140.0 0.0 . 652 RGS7 6000 hgsc.bcm.edu;ucsc.edu;bcgsc.ca 37 1 240976967 240976967 + Missense_Mutation SNP A A C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . RGS7 NM_002924 exon13 c.T907G p.S303A GGTTAGAAGGGTC . 148.0 71.0 105.0 0.0 . 232 RIMS3 9783 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 1 41092203 41092203 + Missense_Mutation SNP G G A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . RIMS3 NM_014747 exon8 c.C913T p.P305S ATGAGGGGCTGGT . 51.0 9.0 82.0 0.0 . 90 RING1 6015 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 6 33177781 33177781 + Missense_Mutation SNP T T G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef RING1,NS,carcinoma,0 RING1 NM_002931 exon4 c.T329G p.I110S CTAAGATCTATCC . 132.0 39.0 102.0 0.0 . 159 RNASEH2A 10535 broad.mit.edu;bcgsc.ca 37 19 12918138 12918139 + Frame_Shift_Ins INS - - G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . . Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . RNASEH2A NM_006397 exon3 c.318_319insG p.L106fs CATGCTTGGGCGG . 69.0 7.0 75.0 0.0 . 524 RNF166 115992 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 16 88766049 88766049 + Missense_Mutation SNP G G T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . RNF166 NM_178841 exon3 c.C404A p.P135H GATGTGGGCACCA . 94.0 52.0 135.0 0.0 . 226 RNF26 79102 hgsc.bcm.edu;bcgsc.ca;mdanderson.org 37 11 119206969 119206969 + Missense_Mutation SNP G G C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . RNF26 NM_032015 exon1 c.G1137C p.K379N GAAGAAGTGTGTC . 61.0 9.0 82.0 0.0 . 227 RNF44 22838 hgsc.bcm.edu;bcgsc.ca 37 5 175957958 175957958 + Missense_Mutation SNP G G T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . RNF44 NM_014901 exon5 c.C530A p.S177Y TCACTGGAGATGA . 76.0 20.0 70.0 0.0 . 658 RNU6-71 100873774 hgsc.bcm.edu;broad.mit.edu 37 6 56472828 56472829 + RNA INS - - T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . . . . . . GAAATAATTTTTT . 191.0 14.0 153.0 0.0 . . RP1 6101 hgsc.bcm.edu;broad.mit.edu 37 8 55542461 55542462 + Frame_Shift_Ins INS - - A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . RP1 NM_006269 exon4 c.6019_6020insA p.Q2007fs AGAAAACAAAAAA . 188.0 13.0 208.0 0.0 . 102 RPL10A 4736 hgsc.bcm.edu;bcgsc.ca;mdanderson.org 37 6 35437288 35437288 + Missense_Mutation SNP A A C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . RPL10A NM_007104 exon4 c.A292C p.K98Q AATAAAAAACTGG . 72.0 23.0 71.0 0.0 . 91 RPL36A-HNRNPH2 0 hgsc.bcm.edu;broad.mit.edu 37 X 100646804 100646805 + Frame_Shift_Ins INS - - A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . . NM_001199973 exon3 c.279_280insA p.R93fs TTTCCGGAAAAAG . 153.0 10.0 196.0 0.0 . . RRP12 23223 hgsc.bcm.edu;broad.mit.edu 37 10 99116875 99116876 + Frame_Shift_Ins INS - - T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . RRP12 NM_015179 exon34 c.3870_3871insA p.N1290fs TCTGCGGTTTTTG . 118.0 11.0 104.0 0.0 . 92 RTEL1 51750 broad.mit.edu;ucsc.edu;bcgsc.ca 37 20 62326478 62326478 + Missense_Mutation SNP C C G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . . Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . RTEL1 NM_032957 exon33 c.C3475G p.L1159V ACAGACCTGACCG . 44.0 6.0 43.0 0.0 . 44 RXFP3 51289 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 5 33937720 33937720 + Missense_Mutation SNP G G A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . RXFP3 NM_016568 exon1 c.G875A p.R292H TGGTGCGCTTCAT . 151.0 67.0 117.0 0.0 . 91 RXFP4 339403 hgsc.bcm.edu;broad.mit.edu 37 1 155912224 155912225 + Frame_Shift_Ins INS - - G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . RXFP4 NM_181885 exon1 c.724_725insG p.R242fs GACAGCAGGGTCG . 158.0 10.0 149.0 0.0 . 90 RYR2 6262 ucsc.edu;bcgsc.ca 37 1 237433796 237433796 + Splice_Site SNP G G C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic . WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . RYR2 NM_001035 exon2 c.49-1G>C . TTTGCAGGATGAT . 525.0 63.0 438.0 1.0 . 158 SAMD15 161394 hgsc.bcm.edu;broad.mit.edu 37 14 77844867 77844868 + Frame_Shift_Ins INS - - G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . SAMD15 NM_001010860 exon1 c.1106_1107insG p.E369fs CAAATGAGAAAAA . 215.0 18.0 222.0 0.0 . 90 SCAP 22937 hgsc.bcm.edu;ucsc.edu;mdanderson.org 37 3 47476584 47476584 + Nonsense_Mutation SNP C C A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . SCAP NM_012235 exon3 c.G166T p.E56X TGAATTCCACAGG . 108.0 24.0 167.0 0.0 . 91 SCIN 85477 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 7 12666376 12666376 + Missense_Mutation SNP G G T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . SCIN NM_001112706 exon8 c.G1149T p.Q383H TCCGCAGATGGCA . 296.0 105.0 269.0 0.0 . 24 SENP3 26168 hgsc.bcm.edu;ucsc.edu 37 17 7470288 7470288 + Missense_Mutation SNP A A G rs76586164 TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . SENP3 NM_015670 exon8 c.A1307G p.K436R TACCAAAGGGTTA . 209.0 20.0 405.0 0.0 A|0.500;G|0.500 659 SENP6 26054 hgsc.bcm.edu;ucsc.edu;bcgsc.ca 37 6 76386875 76386875 + Missense_Mutation SNP C C G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . SENP6 NM_015571 exon14 c.C1751G p.P584R AAATTCCCTTTGA . 514.0 162.0 399.0 1.0 . 660 SFSWAP 6433 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 12 132204080 132204080 + Missense_Mutation SNP A A T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . SFSWAP NM_001261411 exon4 c.A602T p.E201V ACGTGGAGTTGGT . 362.0 81.0 215.0 0.0 . 91 SGSM2 9905 broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 17 2282729 2282729 + Missense_Mutation SNP G G A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . . Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . SGSM2 NM_014853 exon24 c.G3071A p.R1024H CAGAACGTGCTGA . 126.0 19.0 161.0 1.0 . 68 SHOX2 6474 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org 37 3 157823590 157823590 + Missense_Mutation SNP C C A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . SHOX2 NM_003030 exon1 c.G224T p.G75V CCTCCTCCGCCTC . 19.0 13.0 21.0 0.0 . 90 SIDT2 51092 ucsc.edu;bcgsc.ca;mdanderson.org 37 11 117053474 117053474 + Silent SNP C C T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic . WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . SIDT2 NM_001040455 exon6 c.C654T p.F218F AGCCTTCATCGGC . 108.0 25.0 136.0 2.0 . 90 SLC22A8 9376 broad.mit.edu;bcgsc.ca 37 11 62767298 62767299 + Frame_Shift_Ins INS - - G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . . Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . SLC22A8 NM_001184732 exon4 c.454_455insC p.I152fs TCAGGATGGGCCT . 77.0 9.0 103.0 0.0 . 93 SLC25A3 5250 hgsc.bcm.edu;ucsc.edu;bcgsc.ca 37 12 98991699 98991699 + Silent SNP T T C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . SLC25A3 NM_005888 exon4 c.T348C p.V116V TGGTGTTCGTGGT . 458.0 172.0 410.0 0.0 . 90 SLC38A10 124565 hgsc.bcm.edu;broad.mit.edu 37 17 79226065 79226066 + Frame_Shift_Ins INS - - T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . SLC38A10 NM_001037984 exon13 c.1875_1876insA p.K625fs CTTGGCCTTTTCC . 132.0 12.0 114.0 0.0 . 70 SLCO1B1 10599 hgsc.bcm.edu;bcgsc.ca;mdanderson.org 37 12 21329794 21329794 + Silent SNP A A G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . SLCO1B1 NM_006446 exon5 c.A444G p.L148L AATTTTATCACTC . 266.0 80.0 274.0 0.0 . 97 SMARCA4 6597 bcgsc.ca;mdanderson.org 37 19 11098360 11098360 + Missense_Mutation SNP C C T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_1 WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . SMARCA4 NM_003072 exon6 c.C878T p.A293V ATGCTGCTGCCCC . 186.0 58.0 212.0 1.0 . 1523 SMNDC1 10285 hgsc.bcm.edu;ucsc.edu;mdanderson.org 37 10 112053908 112053908 + Silent SNP T T C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . SMNDC1 NM_005871 exon6 c.A717G p.X239X TTCTGATTATTGA . 132.0 54.0 159.0 0.0 . 91 SNX18 112574 broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 5 53815183 53815183 + Silent SNP G G A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . . Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . SNX18 NM_052870 exon1 c.G1401A p.V467V GAAGGTGGGCCAG . 60.0 19.0 85.0 1.0 . 226 SOX14 8403 hgsc.bcm.edu;bcgsc.ca 37 3 137483875 137483875 + Silent SNP C C G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . SOX14 NM_004189 exon1 c.C249G p.P83P CAAGCCCAAGAAC . 131.0 9.0 159.0 0.0 . 90 SPAG9 9043 hgsc.bcm.edu;ucsc.edu;bcgsc.ca 37 17 49075937 49075937 + Missense_Mutation SNP T T G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . SPAG9 NM_001130528 exon15 c.A1706C p.K569T TCAGGCTTCTTAG . 386.0 47.0 288.0 0.0 . 659 SPATA2L 124044 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 16 89764069 89764069 + Silent SNP C C G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . SPATA2L NM_152339 exon3 c.G948C p.L316L CCTACTCAGCTCA . 91.0 18.0 65.0 0.0 . 90 SPATA31C1 441452 bcgsc.ca;mdanderson.org 37 9 90536519 90536519 + Missense_Mutation SNP G G A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_1 WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . . NM_001145124 exon4 c.G1697A p.G566E ACTCAGGAAGTGA . 114.0 25.0 164.0 1.0 . . SPEF2 79925 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 5 35807028 35807028 + Missense_Mutation SNP C C A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . SPEF2 NM_024867 exon35 c.C5230A p.L1744I AGCCACCTAAAGA . 325.0 116.0 369.0 0.0 . 26 SRCRB4D 136853 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 7 76029631 76029631 + Missense_Mutation SNP G G C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . SRCRB4D NM_080744 exon4 c.C447G p.H149Q CTCGTAGTGAAAG . 147.0 51.0 184.0 0.0 . 91 SRL 6345 hgsc.bcm.edu;ucsc.edu;bcgsc.ca 37 16 4242512 4242512 + Missense_Mutation SNP T T A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . SRL NM_001098814 exon6 c.A1064T p.K355M TTGTCCTTGTAAG . 263.0 43.0 233.0 0.0 . 73 SSTR3 6753 hgsc.bcm.edu;bcgsc.ca 37 22 37602710 37602710 + Missense_Mutation SNP G G A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . SSTR3 NM_001051 exon2 c.C1133T p.T378M GGCTGCGTGATCT . 82.0 5.0 104.0 0.0 . 522 ST18 9705 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 8 53092714 53092714 + Missense_Mutation SNP C C A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . ST18 NM_014682 exon9 c.G245T p.G82V AAGGGGCCATCGT . 260.0 47.0 354.0 0.0 . 95 ST8SIA6 338596 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 10 17365101 17365101 + Missense_Mutation SNP T T A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . ST8SIA6 NM_001004470 exon7 c.A691T p.N231Y CAAGATTTGTTTT . 266.0 62.0 354.0 0.0 . 91 STK31 56164 hgsc.bcm.edu;broad.mit.edu 37 7 23775340 23775341 + Frame_Shift_Ins INS - - A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . STK31 NM_001260505 exon7 c.667_668insA p.E223fs TGTGAGGAAAAAA . 141.0 12.0 121.0 0.0 . 338 STON1-GTF2A1L 286749 hgsc.bcm.edu;broad.mit.edu 37 2 48809580 48809581 + Frame_Shift_Ins INS - - G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . STON1-GTF2A1L NM_001198593 exon2 c.1808_1809insG p.L603fs CATGTCTGGGGAG . 164.0 11.0 151.0 0.0 . 27 STOX2 56977 broad.mit.edu;bcgsc.ca 37 4 184931964 184931965 + Frame_Shift_Ins INS - - A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . . Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . STOX2 NM_020225 exon3 c.1973_1974insA p.P658fs AGTCACCAAAAGG . 74.0 9.0 68.0 0.0 . 22 SUPT6H 6830 hgsc.bcm.edu;ucsc.edu;bcgsc.ca 37 17 27001353 27001353 + Missense_Mutation SNP G G T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . SUPT6H NM_003170 exon3 c.G162T p.L54F CAACTTGAAAGGC . 284.0 31.0 192.0 0.0 . 93 SVOPL 136306 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca 37 7 138312995 138312996 + Frame_Shift_Ins INS - - C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . SVOPL NM_001139456 exon10 c.977_978insG p.D326fs CCTGAGTCCCCCC . 131.0 13.0 139.0 0.0 . 68 SWAP70 23075 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 11 9769515 9769515 + Missense_Mutation SNP G G A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . SWAP70 NM_015055 exon10 c.G1466A p.R489H ATCAGCGTGTCCT . 96.0 17.0 125.0 0.0 . 228 SYNE4 163183 hgsc.bcm.edu;ucsc.edu;mdanderson.org 37 19 36496296 36496296 + Missense_Mutation SNP C C T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . . NM_001039876 exon6 c.G911A p.G304D CCGAGGCCAGACT . 197.0 32.0 172.0 0.0 . . TCEB3CL2 100506888 broad.mit.edu;bcgsc.ca 37 18 44543597 44543598 + Frame_Shift_Ins INS - - C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . . Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . . NM_001242907 exon1 c.775_776insG p.P259fs TTTTCGGCCCGGC . 217.0 14.0 250.0 0.0 . . TCF7L1 83439 broad.mit.edu;bcgsc.ca 37 2 85536234 85536235 + Frame_Shift_Ins INS - - G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . . Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . TCF7L1 NM_031283 exon12 c.1416_1417insG p.H472fs CTCCCACGGGAGC . 78.0 8.0 109.0 0.0 . 585 TERF1 7013 hgsc.bcm.edu;broad.mit.edu 37 8 73951354 73951355 + Frame_Shift_Ins INS - - A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . TERF1 NM_017489 exon9 c.1043_1044insA p.T348fs TAGGTACAAAAAA . 135.0 11.0 102.0 0.0 . 228 THRAP3 9967 hgsc.bcm.edu;broad.mit.edu 37 1 36755000 36755001 + Frame_Shift_Ins INS - - A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . THRAP3 NM_005119 exon5 c.1380_1381insA p.N460fs TGCAAACAAAAAC . 128.0 10.0 126.0 0.0 . 663 TMED9 54732 hgsc.bcm.edu;broad.mit.edu;bcgsc.ca 37 5 177019352 177019354 + In_Frame_Del DEL AGA AGA - novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 AGA AGA . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . TMED9 NM_017510 exon1 c.137_139del p.46_47del AGACGGAGAAGAA . 250.0 0.0 285.0 0.0 . 90 TMEM125 128218 ucsc.edu;bcgsc.ca;mdanderson.org 37 1 43738869 43738869 + Missense_Mutation SNP C C T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic . WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . TMEM125 NM_144626 exon4 c.C476T p.S159L TGGGCTCGCTTTT . 378.0 84.0 416.0 2.0 . 153 TMEM186 25880 hgsc.bcm.edu;bcgsc.ca 37 16 8890210 8890210 + Missense_Mutation SNP G G C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . TMEM186 NM_015421 exon2 c.C241G p.L81V CTGTCAGGGCAGT . 123.0 8.0 129.0 0.0 . 91 TMPRSS4 56649 hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 11 117979580 117979580 + Silent SNP C C T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . TMPRSS4 NM_019894 exon7 c.C552T p.L184L CTGTCTCTCAGGC . 76.0 40.0 107.0 0.0 . 90 TPRX1 284355 hgsc.bcm.edu;broad.mit.edu 37 19 48305271 48305272 + Frame_Shift_Ins INS - - G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . TPRX1 NM_198479 exon2 c.997_998insC p.L333fs GCCATAAGGGGGC . 160.0 11.0 122.0 0.0 . 90 TRANK1 9881 broad.mit.edu;bcgsc.ca 37 3 36899168 36899169 + Frame_Shift_Ins INS - - G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . . Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . TRANK1 NM_014831 exon12 c.1913_1914insC p.Q638fs GAACCCTGGGACT . 60.0 7.0 115.0 0.0 . 24 TRIOBP 11078 broad.mit.edu;bcgsc.ca 37 22 38130525 38130526 + Frame_Shift_Ins INS - - C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . . Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . TRIOBP NM_001039141 exon9 c.4182_4183insC p.L1394fs CCCGCTGCCCCCC . 99.0 10.0 85.0 0.0 . 136 TSHR 7253 hgsc.bcm.edu;broad.mit.edu 37 14 81609512 81609513 + Frame_Shift_Ins INS - - A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . TSHR NM_000369 exon10 c.1110_1111insA p.L370fs GGAGCTCAAAAAC . 188.0 12.0 213.0 0.0 . 1650 TTC1 7265 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 5 159437629 159437629 + Missense_Mutation SNP C C G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . TTC1 NM_003314 exon2 c.C94G p.P32A GGCCCTCCAGTTC . 97.0 38.0 87.0 0.0 . 91 TTC27 55622 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 2 33012108 33012108 + Missense_Mutation SNP G G T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . TTC27 NM_017735 exon16 c.G1890T p.Q630H CTGGCAGATTTGG . 153.0 23.0 187.0 0.0 . 90 TTC40 54777 hgsc.bcm.edu;broad.mit.edu 37 10 134726617 134726618 + Frame_Shift_Ins INS - - C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . . NM_001200049 exon18 c.2266_2267insG p.R756fs TCTGCCGCCCGGC . 126.0 10.0 166.0 0.0 . . TTN 7273 broad.mit.edu;bcgsc.ca 37 2 179511798 179511799 + Frame_Shift_Ins INS - - G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . . Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . TTN NM_001267550 exon215 c.40215_40216insC p.P13405fs TTCAACAGGGGGA . 162.0 18.0 138.0 0.0 . 636 TUBA3C 7278 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 13 19751669 19751669 + Missense_Mutation SNP G G C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . TUBA3C NM_006001 exon4 c.C454G p.L152V TGAGCAGAGATGC . 358.0 78.0 570.0 0.0 . 95 UMODL1 89766 broad.mit.edu;mdanderson.org 37 21 43529800 43529800 + Missense_Mutation SNP G G A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . . Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . UMODL1 NM_173568 exon10 c.G1648A p.A550T GGCCGGGCCTGTG . 17.0 7.0 15.0 0.0 . 93 UNKL 64718 hgsc.bcm.edu;broad.mit.edu 37 16 1417771 1417772 + Frame_Shift_Ins INS - - G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . UNKL NM_001193388 exon13 c.1674_1675insC p.P558fs AGAGGATGGGGGG . 185.0 11.0 196.0 0.0 . 90 USP31 57478 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 16 23093878 23093878 + Missense_Mutation SNP G G C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . USP31 NM_020718 exon12 c.C1831G p.L611V GGGCAAGCTGAAA . 168.0 30.0 133.0 0.0 . 663 UTP20 27340 hgsc.bcm.edu;ucsc.edu;bcgsc.ca 37 12 101711355 101711355 + Silent SNP C C T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . UTP20 NM_014503 exon22 c.C2652T p.A884A ACCTGCCGCAGGA . 141.0 32.0 138.0 0.0 . 155 VCX 26609 hgsc.bcm.edu;bcgsc.ca 37 X 7811709 7811709 + Silent SNP G G C rs139507263 byfrequency;alternate_allele TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . VCX NM_013452 exon3 c.G273C p.P91P GCCGCCGGAGGAG . 84.0 28.0 81.0 0.0 G|0.999;A|0.001 22 VWDE 221806 ucsc.edu;bcgsc.ca;mdanderson.org 37 7 12397021 12397021 + Missense_Mutation SNP T T C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 T T . . . . Unknown Untested Somatic . WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . VWDE NM_001135924 exon17 c.A3395G p.D1132G CCAGAGTCCAACG . 151.0 43.0 142.0 1.0 . 68 WDR44 54521 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 X 117528110 117528110 + Missense_Mutation SNP G G T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . WDR44 NM_001184965 exon5 c.G919T p.A307S GATTTGGCAAGTG . 148.0 105.0 190.0 0.0 . 133 WDTC1 23038 hgsc.bcm.edu;broad.mit.edu 37 1 27622887 27622888 + Frame_Shift_Ins INS - - G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . WDTC1 NM_015023 exon10 c.944_945insG p.S315fs ACTCCTCGGGGGG . 237.0 17.0 415.0 0.0 . 91 WNT6 7475 broad.mit.edu;bcgsc.ca 37 2 219735805 219735814 + Frame_Shift_Del DEL GGCTGGCCGG GGCTGGCCGG - novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 GGCTGGCCGG GGCTGGCCGG . . . . . Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . WNT6 NM_006522 exon2 c.137_146del p.46_49del CACGGCGGCTGGC . 61.0 7.0 73.0 0.0 . 564 XIRP2 129446 hgsc.bcm.edu;broad.mit.edu 37 2 168104502 168104503 + Frame_Shift_Ins INS - - A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 - - . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . XIRP2 NM_152381 exon9 c.6600_6601insA p.K2200fs TATAAAGAAAAAG . 172.0 11.0 153.0 0.0 . 104 XPO4 64328 ucsc.edu;bcgsc.ca;mdanderson.org 37 13 21418016 21418016 + Missense_Mutation SNP C C G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic . WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . XPO4 NM_022459 exon5 c.G466C p.A156P AACAGGCCAGAGT . 62.0 11.0 79.0 0.0 . 272 ZBTB39 9880 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 12 57397205 57397205 + Silent SNP C C T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . ZBTB39 NM_014830 exon2 c.G1497A p.T499T GGACAGCGTGTGC . 63.0 14.0 63.0 0.0 . 135 ZBTB49 166793 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 4 4303971 4303971 + Silent SNP A A G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . ZBTB49 NM_145291 exon3 c.A408G p.L136L GTCTCTACAAAGC . 98.0 48.0 114.0 0.0 . 92 ZEB2 9839 hgsc.bcm.edu;ucsc.edu;bcgsc.ca 37 2 145187479 145187479 + Missense_Mutation SNP G G C novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . ZEB2 NM_001171653 exon3 c.C188G p.A63G ACACTAGCTGGAC . 252.0 97.0 282.0 0.0 . 297 ZFYVE16 9765 ucsc.edu;mdanderson.org 37 5 79739077 79739077 + Nonsense_Mutation SNP C C G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic . WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . ZFYVE16 NM_001105251 exon6 c.C2555G p.S852X CAGTCTCAGCACT . 418.0 51.0 352.0 1.0 . 90 ZFYVE20 64145 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 3 15126258 15126258 + Silent SNP G G A novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 G G . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . ZFYVE20 NM_022340 exon8 c.C582T p.I194I AAGGCTGATGAGC . 125.0 65.0 142.0 0.0 . 92 ZNF20 7568 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 19 12243428 12243428 + Missense_Mutation SNP C C G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . ZNF20 NM_021143 exon4 c.G1573C p.E525Q TTCTTTCATGTTC . 192.0 64.0 145.0 0.0 . 22 ZNF521 25925 hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org 37 18 22804595 22804595 + Missense_Mutation SNP C C T novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 C C . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . ZNF521 NM_015461 exon4 c.G3287A p.C1096Y TTCACGCAGCCGG . 104.0 75.0 135.0 0.0 . 275 ZP4 57829 hgsc.bcm.edu;bcgsc.ca 37 1 238053180 238053180 + Silent SNP A A G novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 A A . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . ZP4 NM_021186 exon3 c.T387C p.P129P ATCCATAGGACAC . 174.0 40.0 141.0 0.0 . 93 RTTN 25914 hgsc.bcm.edu;ucsc.edu;bcgsc.ca 37 18 67794863 67794864 + Missense_Mutation DNP CC CC AA novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 CC CC . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . . . . . p.R1086I AACTTCCCTGTGG . 71.0 55.0 93.0 0.0 . . NPSR1 387129 hgsc.bcm.edu;ucsc.edu;bcgsc.ca 37 7 34888201 34888202 + Missense_Mutation DNP CC CC AA novel TCGA-BC-A112-01A-11D-A12Z-10 TCGA-BC-A112-11A-11D-A12Z-10 CC CC . . . . Unknown Untested Somatic Phase_I WXS none . . Illumina HiSeq b3d19f75-db62-42cc-8a6f-7685ab1f3b9b bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef . . . . . p.NL317KM TCAGAACCTGCCA . 225.0 85.0 265.0 0.0 . .