Hugo_Symbol Entrez_Gene_Id Center NCBI_Build Chromosome Start_position End_position Strand Variant_Classification Variant_Type Reference_Allele Tumor_Seq_Allele1 Tumor_Seq_Allele2 dbSNP_RS dbSNP_Val_Status Tumor_Sample_Barcode Matched_Norm_Sample_Barcode Match_Norm_Seq_Allele1 Match_Norm_Seq_Allele2 Tumor_Validation_Allele1 Tumor_Validation_Allele2 Match_Norm_Validation_Allele1 Match_Norm_Validation_Allele2 Verification_Status Validation_Status Mutation_Status Sequencing_Phase Sequence_Source Validation_Method Score BAM_File Sequencer Tumor_Sample_UUID Matched_Norm_Sample_UUID COSMIC_Codon COSMIC_Gene Transcript_Id Exon ChromChange AAChange Genome_Plus_Minus_10_Bp Drug_Target TTotCov TVarCov NTotCov NVarCov dbSNPPopFreq COSMIC_Gene_Freq COSMIC_Site_Freq dbSNP_AF Algorithm CAMTA1 23261 hgsc.bcm.edu hg19 1 7151365 7151365 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . CAMTA1 NM_015215 exon4 c.A236G p.E79G TTCAGGAAATTGC . 96.0 4.0 78.0 0.0 . 226 . . Atlas-SNP PER3 8863 hgsc.bcm.edu hg19 1 7887204 7887204 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . PER3 NM_016831 exon17 c.T2191C p.S731P ACGCGGTCGGCCG . 95.0 4.0 60.0 0.0 . 95 . . Atlas-SNP SPEN 23013 hgsc.bcm.edu hg19 1 16174601 16174601 + Silent SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . SPEN NM_015001 exon1 c.A39G p.L13L CAACTTACCCGAG . 97.0 4.0 100.0 0.0 . 374 . . Atlas-SNP SERINC2 347735 hgsc.bcm.edu hg19 1 31905905 31905905 + Missense_Mutation SNP G G C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . SERINC2 NM_001199038 exon10 c.G1132C p.V378L CAGCAGGTGGCAG . 117.0 7.0 82.0 0.0 . 44 . . Atlas-SNP SERINC2 347735 hgsc.bcm.edu hg19 1 31905906 31905906 + Missense_Mutation SNP T T A novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . SERINC2 NM_001199038 exon10 c.T1133A p.V378E AGCAGGTGGCAGC . 117.0 6.0 82.0 0.0 . 44 . . Atlas-SNP TRIM62 55223 hgsc.bcm.edu hg19 1 33646996 33646996 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . TRIM62 NM_018207 exon1 c.T38C p.I13T AGGCAGATGGAGC . 43.0 4.0 24.0 0.0 . 26 . . Atlas-SNP GRIK3 2899 hgsc.bcm.edu hg19 1 37282833 37282833 + Missense_Mutation SNP C C A novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . GRIK3 NM_000831 exon13 c.G1919T p.G640V CAGATGCCACCAA . 188.0 72.0 127.0 0.0 . 195 . . Atlas-SNP NRD1 4898 hgsc.bcm.edu hg19 1 52306057 52306057 + Missense_Mutation SNP A A T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . NRD1 NM_001101662 exon2 c.T471A p.D157E ATCTTCATCATCA . 263.0 11.0 220.0 0.0 . 89 . . Atlas-SNP NRD1 4898 hgsc.bcm.edu hg19 1 52306079 52306079 + Missense_Mutation SNP T T A rs62648104 bycluster TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . NRD1 NM_001101662 exon2 c.A449T p.E150V TCTTCCTCCACCT . 177.0 14.0 164.0 0.0 . 89 . T|0.024;A|0.976 Atlas-SNP DAB1 1600 hgsc.bcm.edu hg19 1 57480890 57480890 + Silent SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . DAB1 NM_021080 exon14 c.A1110G p.Q370Q AACAGTTTGTGTG . 64.0 5.0 41.0 0.0 . 129 . . Atlas-SNP INADL 10207 hgsc.bcm.edu hg19 1 62593700 62593700 + Silent SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . INADL NM_176877 exon40 c.A5100G p.G1700G CTTAGGAGATATC . 86.0 4.0 62.0 0.0 . 179 . . Atlas-SNP RAVER2 55225 hgsc.bcm.edu hg19 1 65255125 65255125 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . RAVER2 NM_018211 exon5 c.A1033G p.K345E ATTATGAAAAGTT . 80.0 27.0 82.0 0.0 . 56 . . Atlas-SNP FAM73A 374986 hgsc.bcm.edu hg19 1 78245387 78245387 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . FAM73A NM_001270384 exon1 c.T47C p.V16A CTGGCGTGGGCAG . 90.0 4.0 49.0 0.0 . 56 . . Atlas-SNP CLCA4 22802 hgsc.bcm.edu hg19 1 87025972 87025972 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . CLCA4 NM_012128 exon3 c.A379G p.K127E GGAGAGAAAGGCG . 91.0 4.0 52.0 0.0 . 131 . . Atlas-SNP CLCA4 22802 hgsc.bcm.edu hg19 1 87038340 87038340 + Silent SNP C C T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . CLCA4 NM_012128 exon9 c.C1404T p.G468G CAATGGCCTCATT . 98.0 4.0 109.0 0.0 . 131 . . Atlas-SNP PKN2 5586 hgsc.bcm.edu hg19 1 89299097 89299097 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . PKN2 NM_006256 exon22 c.T2921C p.F974S AAATGTTCAGAGA . 70.0 4.0 69.0 0.0 . 109 . . Atlas-SNP COL11A1 1301 hgsc.bcm.edu hg19 1 103481268 103481268 + Missense_Mutation SNP C C A rs150428394 alternate_allele TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . COL11A1 NM_080629 exon12 c.G1480T p.A494S CATCAGCCCCTGG . 129.0 45.0 134.0 0.0 . 972 . C|1.000;T|0.000 Atlas-SNP GPSM2 29899 hgsc.bcm.edu hg19 1 109465168 109465168 + Missense_Mutation SNP T T A rs201481482 TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . GPSM2 NM_013296 exon13 c.T1570A p.S524T ACAACTTCTTCCA . 80.0 5.0 53.0 0.0 . 56 . . Atlas-SNP HIPK1 204851 hgsc.bcm.edu hg19 1 114500750 114500750 + Silent SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . HIPK1 NM_198268 exon8 c.T1818C p.D606D TTCAGATGTCTCA . 136.0 50.0 112.0 0.0 . 195 . . Atlas-SNP DENND4B 9909 hgsc.bcm.edu hg19 1 153907287 153907287 + Missense_Mutation SNP G G C rs199597671 TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . DENND4B NM_014856 exon18 c.C2722G p.Q908E GCTGCTGCTGCTG . 80.0 9.0 46.0 0.0 . 210 . . Atlas-SNP HAX1 10456 hgsc.bcm.edu hg19 1 154247645 154247645 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . HAX1 NM_006118 exon5 c.T572C p.V191A CCCAGGTTTCCCA . 91.0 4.0 93.0 0.0 . 25 . . Atlas-SNP EFNA3 1944 hgsc.bcm.edu hg19 1 155057654 155057654 + Silent SNP C C A novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . EFNA3 NM_004952 exon2 c.C216A p.G72G GGTGGGCCCCGGG . 68.0 10.0 30.0 0.0 . 15 . . Atlas-SNP EFNA3 1944 hgsc.bcm.edu hg19 1 155057657 155057657 + Silent SNP C C G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . EFNA3 NM_004952 exon2 c.C219G p.P73P GGGCCCCGGGGCG . 72.0 10.0 30.0 0.0 . 15 . . Atlas-SNP MTX1 4580 hgsc.bcm.edu hg19 1 155180142 155180142 + Silent SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . MTX1 NM_198883 exon2 c.T534C p.Y178Y GACCTATGCCAGA . 119.0 51.0 106.0 0.0 . 17 . . Atlas-SNP BCAN 63827 hgsc.bcm.edu hg19 1 156622302 156622302 + Silent SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . BCAN NM_198427 exon8 c.A1560G p.S520S TGCATCACCACTT . 78.0 4.0 48.0 0.0 . 174 . . Atlas-SNP CD48 962 hgsc.bcm.edu hg19 1 160648863 160648863 + Silent SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . CD48 NM_001778 exon4 c.T711C p.I237I GCCAAGAATGGTG . 85.0 4.0 63.0 0.0 . 31 . . Atlas-SNP FMO3 2328 hgsc.bcm.edu hg19 1 171061807 171061807 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . FMO3 NM_006894 exon2 c.A8G p.K3R TGGGGAAGAAAGT . 98.0 4.0 87.0 0.0 . 73 . . Atlas-SNP PRG4 10216 hgsc.bcm.edu hg19 1 186276411 186276411 + Silent SNP G G A novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c PRG4,NS,malignant_melanoma,0,1 PRG4 NM_005807 exon7 c.G1560A p.K520K TCCCAAGGAGCCT . 91.0 4.0 79.0 2.0 . 259 . . Atlas-SNP KCNT2 343450 hgsc.bcm.edu hg19 1 196451495 196451495 + Missense_Mutation SNP C C G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . KCNT2 NM_198503 exon4 c.G290C p.W97S TTCACCCAAAAGA . 52.0 19.0 59.0 0.0 . 243 . . Atlas-SNP SOX13 9580 hgsc.bcm.edu hg19 1 204092852 204092852 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . SOX13 NM_005686 exon12 c.T1295C p.M432T CCTTCATGGTGTG . 74.0 4.0 44.0 0.0 . 38 . . Atlas-SNP IARS2 55699 hgsc.bcm.edu hg19 1 220276069 220276069 + Silent SNP A A G rs112842443 TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . IARS2 NM_018060 exon7 c.A900G p.Q300Q CACACAACCTTGG . 76.0 4.0 65.0 0.0 . 106 . A|0.500;G|0.500 Atlas-SNP EPHX1 2052 hgsc.bcm.edu hg19 1 226016567 226016567 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . EPHX1 NM_001136018 exon2 c.A137G p.D46G AGGACGACAGCAT . 99.0 5.0 84.0 0.0 . 57 . . Atlas-SNP LIN9 286826 hgsc.bcm.edu hg19 1 226420805 226420805 + Silent SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . LIN9 NM_173083 exon14 c.T1563C p.S521S GATATTAGAAGCG . 90.0 4.0 59.0 0.0 . 57 . . Atlas-SNP ADSS 159 hgsc.bcm.edu hg19 1 244574699 244574699 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . ADSS NM_001126 exon12 c.A1208G p.K403R AGAGTCTTATATT . 89.0 4.0 78.0 0.0 . 49 . . Atlas-SNP CNST 163882 hgsc.bcm.edu hg19 1 246754974 246754974 + Missense_Mutation SNP A A T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . CNST NM_152609 exon2 c.A110T p.D37V CATCAGATGAAAA . 143.0 45.0 119.0 0.0 . 73 . . Atlas-SNP WDR35 57539 hgsc.bcm.edu hg19 2 20169327 20169327 + Missense_Mutation SNP C C T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c WDR35,rectum,carcinoma,0,1 WDR35 NM_020779 exon9 c.G922A p.A308T ATAGTGCAGATAT . 47.0 2.0 46.0 0.0 . 92 . . Atlas-SNP NRBP1 29959 hgsc.bcm.edu hg19 2 27656637 27656637 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . NRBP1 NM_013392 exon3 c.A308G p.E103G TCTCTGAACGCAA . 81.0 4.0 74.0 0.0 . 40 . . Atlas-SNP FAM98A 25940 hgsc.bcm.edu hg19 2 33811687 33811687 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . FAM98A NM_015475 exon6 c.T662C p.L221P ATTAGCAGCTTTC . 87.0 4.0 84.0 0.0 . 42 . . Atlas-SNP RMDN2 151393 hgsc.bcm.edu hg19 2 38218373 38218373 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . . NM_144713 exon7 c.A1412G p.D471G ATCTAGATATAGC . 64.0 4.0 47.0 0.0 . . . . Atlas-SNP DYNC2LI1 51626 hgsc.bcm.edu hg19 2 44032355 44032355 + Silent SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . DYNC2LI1 NM_001193464 exon12 c.A966G p.E322E AAATGAAGTCGAT . 119.0 6.0 99.0 0.0 . 46 . . Atlas-SNP RTN4 57142 hgsc.bcm.edu hg19 2 55254181 55254181 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . RTN4 NM_020532 exon3 c.A1054G p.K352E CCAATTTAGTAAG . 66.0 30.0 84.0 0.0 . 189 . . Atlas-SNP CCDC88A 55704 hgsc.bcm.edu hg19 2 55562103 55562103 + Silent SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . CCDC88A NM_018084 exon15 c.A1854G p.E618E ATAATGTTCCAAT . 99.0 4.0 83.0 0.0 . 336 . . Atlas-SNP ALMS1 7840 hgsc.bcm.edu hg19 2 73799567 73799567 + Silent SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . ALMS1 NM_015120 exon16 c.A10560G p.K3520K AGACAAACATAGA . 96.0 4.0 83.0 0.0 . 384 . . Atlas-SNP EIF2AK3 9451 hgsc.bcm.edu hg19 2 88879055 88879055 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . EIF2AK3 NM_004836 exon11 c.A1867G p.R623G GGATCCTCTTGAT . 90.0 5.0 107.0 0.0 . 160 . . Atlas-SNP PSD4 23550 hgsc.bcm.edu hg19 2 113950141 113950141 + Missense_Mutation SNP G G A novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . PSD4 NM_012455 exon6 c.G1813A p.E605K AAGTCTGAAGTGG . 33.0 20.0 47.0 0.0 . 74 . . Atlas-SNP NMI 9111 hgsc.bcm.edu hg19 2 152127280 152127280 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . NMI NM_004688 exon8 c.A851G p.K284R CCATTCTTTGCCC . 94.0 4.0 102.0 0.0 . 21 . . Atlas-SNP NMI 9111 hgsc.bcm.edu hg19 2 152128184 152128184 + Missense_Mutation SNP C C A novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . NMI NM_004688 exon7 c.G697T p.V233F CAGTAACTCTATG . 22.0 14.0 60.0 0.0 . 21 . . Atlas-SNP ACVR1C 130399 hgsc.bcm.edu hg19 2 158390463 158390463 + Silent SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c ACVR1C,right_upper_lobe,carcinoma,0,1 ACVR1C NM_145259 exon9 c.T1449C p.S483S AAGTTGAGATATA . 37.0 2.0 47.0 0.0 . 85 . . Atlas-SNP PLA2R1 22925 hgsc.bcm.edu hg19 2 160879270 160879270 + Silent SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . PLA2R1 NM_001195641 exon7 c.T1200C p.H400H AGCCTCATGCCAG . 81.0 4.0 133.0 0.0 . 153 . . Atlas-SNP TTC21B 79809 hgsc.bcm.edu hg19 2 166788360 166788360 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c TTC21B,NS,carcinoma,0,1 TTC21B NM_024753 exon8 c.A802G p.T268A GCTTGGTGGAAGC . 55.0 3.0 59.0 0.0 . 130 . . Atlas-SNP SCN9A 6335 hgsc.bcm.edu hg19 2 167142891 167142891 + Silent SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . SCN9A NM_002977 exon11 c.A1557G p.E519E ATGCCCTTCGACA . 92.0 4.0 127.0 0.0 . 296 . . Atlas-SNP SCN7A 6332 hgsc.bcm.edu hg19 2 167297978 167297978 + Silent SNP G G A novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . SCN7A NM_002976 exon14 c.C2085T p.D695D CATACAGTCCCAC . 82.0 57.0 146.0 0.0 . 410 . . Atlas-SNP CERS6 253782 hgsc.bcm.edu hg19 2 169626076 169626076 + Silent SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . . NM_001256126 exon11 c.A1083G p.E361E CTCAGAACCTCCG . 86.0 4.0 59.0 0.0 . . . . Atlas-SNP LRP2 4036 hgsc.bcm.edu hg19 2 170048456 170048456 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . LRP2 NM_004525 exon48 c.A8918G p.D2973G TCGCCATCACAGA . 69.0 4.0 78.0 0.0 . 751 . . Atlas-SNP CHN1 1123 hgsc.bcm.edu hg19 2 175673733 175673733 + Silent SNP T T C rs376051698 TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . CHN1 NM_001822 exon11 c.A1002G p.E334E GATATCTTCATAC . 93.0 4.0 129.0 0.0 . 67 . . Atlas-SNP TTN 7273 hgsc.bcm.edu hg19 2 179577610 179577610 + Missense_Mutation SNP A A T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . TTN NM_001267550 exon94 c.T27142A p.F9048I CACTGAAAGGAGG . 95.0 35.0 78.0 0.0 . 18412 . . Atlas-SNP CCDC150 284992 hgsc.bcm.edu hg19 2 197540964 197540964 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . CCDC150 NM_001080539 exon11 c.A1235G p.N412S TTCAGAATGAGAA . 100.0 4.0 120.0 0.0 . 96 . . Atlas-SNP ALS2CR8 79800 hgsc.bcm.edu hg19 2 203834662 203834662 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . ALS2CR8 NM_024744 exon11 c.A974G p.Q325R AGGTACAGAAGTT . 72.0 4.0 112.0 0.0 . 56 . . Atlas-SNP ZDBF2 57683 hgsc.bcm.edu hg19 2 207174473 207174473 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . ZDBF2 NM_020923 exon5 c.T5221C p.C1741R GTGAGCTGTGAAC . 72.0 4.0 91.0 0.0 . 531 . . Atlas-SNP FN1 2335 hgsc.bcm.edu hg19 2 216264012 216264012 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . FN1 NM_212476 exon21 c.A3316G p.T1106A TCCATGTGATCAC . 84.0 4.0 78.0 0.0 . 521 . . Atlas-SNP CTDSP1 58190 hgsc.bcm.edu hg19 2 219266306 219266306 + Silent SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . CTDSP1 NM_001206878 exon2 c.T87C p.A29A AGCAGCTTCCCAG . 87.0 4.0 125.0 0.0 . 19 . . Atlas-SNP MOGAT1 116255 hgsc.bcm.edu hg19 2 223559205 223559205 + Silent SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . MOGAT1 NM_058165 exon4 c.T603C p.T201T GTTCACTCTGTTC . 57.0 4.0 93.0 0.0 . 47 . . Atlas-SNP LMCD1 29995 hgsc.bcm.edu hg19 3 8607167 8607167 + Missense_Mutation SNP A A T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . LMCD1 NM_014583 exon5 c.A773T p.Y258F TGGTCTACTCGGA . 125.0 51.0 90.0 0.0 . 38 . . Atlas-SNP IQSEC1 9922 hgsc.bcm.edu hg19 3 12942853 12942853 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . IQSEC1 NM_001134382 exon14 c.T2975C p.L992P GTGGCCAGGGCTG . 42.0 5.0 25.0 0.0 . 88 . . Atlas-SNP WNT7A 7476 hgsc.bcm.edu hg19 3 13896149 13896149 + Silent SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . WNT7A NM_004625 exon3 c.T450C p.G150G GCAGCCACCCCAC . 63.0 5.0 49.0 0.0 . 70 . . Atlas-SNP METTL6 131965 hgsc.bcm.edu hg19 3 15467900 15467900 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . METTL6 NM_152396 exon2 c.A119G p.E40G TGAGCCTCTTGTT . 113.0 5.0 84.0 0.0 . 27 . . Atlas-SNP TOP2B 7155 hgsc.bcm.edu hg19 3 25670532 25670532 + Silent SNP A A T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . TOP2B NM_001068 exon14 c.T1779A p.I593I CTTTACAATAGGA . 46.0 23.0 40.0 0.0 . 98 . . Atlas-SNP MYRIP 25924 hgsc.bcm.edu hg19 3 40211580 40211580 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . MYRIP NM_015460 exon8 c.T869C p.L290P CTGCCCTCTGGGT . 96.0 4.0 58.0 0.0 . 98 . . Atlas-SNP SNRK 54861 hgsc.bcm.edu hg19 3 43388906 43388906 + Silent SNP G G A novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . SNRK NM_017719 exon7 c.G1155A p.A385A CCACGCGACTGTC . 47.0 19.0 22.0 0.0 . 118 . . Atlas-SNP KIF15 56992 hgsc.bcm.edu hg19 3 44816758 44816758 + Silent SNP T T C rs34893204 bycluster;alternate_allele TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . KIF15 NM_020242 exon3 c.T75C p.D25D AGGTGATGCCATC . 98.0 4.0 83.0 0.0 . 103 . T|0.987;A|0.013 Atlas-SNP CDHR4 389118 hgsc.bcm.edu hg19 3 49832387 49832387 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . CDHR4 NM_001007540 exon9 c.T1178C p.V393A TCAAGGACTCTGT . 73.0 5.0 60.0 0.0 . 37 . . Atlas-SNP NT5DC2 64943 hgsc.bcm.edu hg19 3 52558487 52558487 + Missense_Mutation SNP C C A novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c NT5DC2,bladder,carcinoma,0,1 NT5DC2 NM_001134231 exon14 c.G1673T p.X558L TGCCCTCAGCGGA . 55.0 3.0 47.0 0.0 . 35 . . Atlas-SNP RPP14 11102 hgsc.bcm.edu hg19 3 58302307 58302307 + Silent SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . RPP14 NM_007042 exon4 c.A228G p.R76R CTTGAGAATATGT . 103.0 5.0 83.0 0.0 . 6 . . Atlas-SNP CADPS 8618 hgsc.bcm.edu hg19 3 62385129 62385129 + Silent SNP C C T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . CADPS NM_003716 exon30 c.G4014A p.Q1338Q GATGCCCTGCAGT . 119.0 45.0 132.0 0.0 . 387 . . Atlas-SNP ADAMTS9 56999 hgsc.bcm.edu hg19 3 64617541 64617541 + Missense_Mutation SNP C C G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . ADAMTS9 NM_182920 exon15 c.G2236C p.G746R CGCCACCACAAAC . 122.0 46.0 104.0 0.0 . 206 . . Atlas-SNP EBLN2 55096 hgsc.bcm.edu hg19 3 73111481 73111481 + Missense_Mutation SNP C C A rs201649088 bycluster TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . EBLN2 NM_018029 exon1 c.C249A p.N83K GAAAAACAGACAG . 76.0 5.0 64.0 0.0 . 18 . . Atlas-SNP PDZRN3 23024 hgsc.bcm.edu hg19 3 73434932 73434932 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . PDZRN3 NM_015009 exon9 c.A1523G p.D508G CCCTCATCCAGCT . 78.0 5.0 43.0 0.0 . 196 . . Atlas-SNP SLC35A5 55032 hgsc.bcm.edu hg19 3 112299917 112299917 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . SLC35A5 NM_017945 exon6 c.T953C p.L318P AGGGCCTTTCAGT . 90.0 4.0 69.0 0.0 . 40 . . Atlas-SNP GRAMD1C 54762 hgsc.bcm.edu hg19 3 113601662 113601662 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . GRAMD1C NM_017577 exon6 c.A523G p.N175D TGGCAGAATGTAT . 87.0 4.0 92.0 0.0 . 71 . . Atlas-SNP POLQ 10721 hgsc.bcm.edu hg19 3 121158914 121158914 + Silent SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . POLQ NM_199420 exon27 c.A7314G p.G2438G AACAAATCCGTCT . 30.0 4.0 18.0 0.0 . 273 . . Atlas-SNP MBD4 8930 hgsc.bcm.edu hg19 3 129151369 129151369 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . MBD4 NM_003925 exon7 c.T1642C p.F548L CACAAAAAATTCG . 94.0 4.0 111.0 0.0 . 53 . . Atlas-SNP STAG1 10274 hgsc.bcm.edu hg19 3 136085882 136085882 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . STAG1 NM_005862 exon25 c.A2588G p.H863R CTTTTATGTAAGG . 149.0 61.0 121.0 0.0 . 135 . . Atlas-SNP ARMC8 25852 hgsc.bcm.edu hg19 3 137960687 137960687 + Silent SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . ARMC8 NM_213654 exon12 c.A858G p.G286G TGAAGGAGCTGAG . 93.0 4.0 76.0 0.0 . 79 . . Atlas-SNP SLC9A9 285195 hgsc.bcm.edu hg19 3 143550901 143550901 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . SLC9A9 NM_173653 exon2 c.A338G p.H113R ATGTTGTGCTGAC . 68.0 4.0 46.0 0.0 . 117 . . Atlas-SNP ZIC1 7545 hgsc.bcm.edu hg19 3 147128660 147128660 + Missense_Mutation SNP C C A novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . ZIC1 NM_003412 exon1 c.C761A p.T254K TAGTTACGCACGT . 181.0 69.0 103.0 0.0 . 141 . . Atlas-SNP IL12A 3592 hgsc.bcm.edu hg19 3 159711260 159711260 + Missense_Mutation SNP G G C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . IL12A NM_000882 exon4 c.G401C p.R134T ATTCCAGAGAGAC . 112.0 45.0 115.0 0.0 . 23 . . Atlas-SNP SI 6476 hgsc.bcm.edu hg19 3 164764772 164764772 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . SI NM_001041 exon16 c.A1744G p.R582G AGCTTCTCTTATT . 142.0 6.0 126.0 0.0 . 500 . . Atlas-SNP PLD1 5337 hgsc.bcm.edu hg19 3 171406587 171406587 + Missense_Mutation SNP G G A novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . PLD1 NM_002662 exon14 c.C1418T p.S473L GCCACCGATTGGT . 98.0 4.0 83.0 0.0 . 134 . . Atlas-SNP FNDC3B 64778 hgsc.bcm.edu hg19 3 172013157 172013157 + Missense_Mutation SNP C C T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c FNDC3B,rectum,carcinoma,0,1 FNDC3B NM_001135095 exon8 c.C854T p.S285F AGGTTTCTAATAT . 107.0 5.0 107.0 1.0 . 118 . . Atlas-SNP MCF2L2 23101 hgsc.bcm.edu hg19 3 183028819 183028819 + Splice_Site SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . MCF2L2 NM_015078 exon10 c.879-2A>G . ATAACCTTTCAAG . 73.0 5.0 66.0 0.0 . 164 . . Atlas-SNP VPS8 23355 hgsc.bcm.edu hg19 3 184646287 184646287 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . VPS8 NM_001009921 exon31 c.A2680G p.S894G GAAGAGAGTCGAC . 92.0 4.0 61.0 0.0 . 109 . . Atlas-SNP SEPSECS 51091 hgsc.bcm.edu hg19 4 25160704 25160704 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c SEPSECS_ENST00000382103,NS,carcinoma,0,2 SEPSECS NM_016955 exon2 c.A140G p.D47G CTTTCATCCCAGC . 84.0 6.0 57.0 1.0 . 55 . . Atlas-SNP RFC1 5981 hgsc.bcm.edu hg19 4 39352986 39352986 + Silent SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . RFC1 NM_002913 exon2 c.A114G p.K38K TATTCCTTTCTTT . 70.0 4.0 73.0 0.0 . 114 . . Atlas-SNP GNPDA2 132789 hgsc.bcm.edu hg19 4 44709828 44709828 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . GNPDA2 NM_138335 exon6 c.T710C p.F237S CATACAAAAATAG . 89.0 4.0 74.0 0.0 . 28 . . Atlas-SNP PROL1 58503 hgsc.bcm.edu hg19 4 71275489 71275489 + Silent SNP C C T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c PROL1,NS,carcinoma,0,1 PROL1 NM_021225 exon3 c.C444T p.T148T CACCACCGCAGAT . 134.0 91.0 174.0 0.0 . 46 . . Atlas-SNP RUFY3 22902 hgsc.bcm.edu hg19 4 71588361 71588361 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . RUFY3 NM_001037442 exon1 c.A71G p.E24G CCATGGAGACCAT . 98.0 4.0 86.0 0.0 . 61 . . Atlas-SNP SLC4A4 8671 hgsc.bcm.edu hg19 4 72306489 72306489 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . SLC4A4 NM_001098484 exon8 c.A964G p.R322G CCCACAAGGTAAG . 99.0 4.0 133.0 0.0 . 269 . . Atlas-SNP CCDC158 339965 hgsc.bcm.edu hg19 4 77247091 77247091 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . CCDC158 NM_001042784 exon22 c.A3076G p.T1026A AACTAGTTAGGAG . 80.0 4.0 60.0 0.0 . 114 . . Atlas-SNP CCDC158 339965 hgsc.bcm.edu hg19 4 77324342 77324342 + Missense_Mutation SNP C C T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c CCDC158,NS,carcinoma,0,1 CCDC158 NM_001042784 exon2 c.G19A p.E7K TTGATTCCCAAGC . 44.0 2.0 55.0 0.0 . 114 . . Atlas-SNP SPARCL1 8404 hgsc.bcm.edu hg19 4 88411956 88411956 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . SPARCL1 NM_004684 exon6 c.T1366C p.C456R CCTGGCAGACACA . 98.0 4.0 155.0 0.0 . 59 . . Atlas-SNP DSPP 1834 hgsc.bcm.edu hg19 4 88535745 88535745 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . DSPP NM_014208 exon5 c.A1931G p.D644G GCAGTGACAGCAA . 110.0 6.0 159.0 0.0 . 174 . . Atlas-SNP EMCN 51705 hgsc.bcm.edu hg19 4 101396223 101396223 + Silent SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . EMCN NM_001159694 exon3 c.A231G p.T77T AGTAGCTGTTGAC . 38.0 4.0 56.0 0.0 . 37 . . Atlas-SNP NFKB1 4790 hgsc.bcm.edu hg19 4 103531782 103531782 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . NFKB1 NM_003998 exon20 c.T2278C p.S760P GATGACTCTTGGG . 46.0 4.0 77.0 0.0 . 78 . . Atlas-SNP BDH2 56898 hgsc.bcm.edu hg19 4 104013835 104013835 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . BDH2 NM_020139 exon4 c.T170C p.L57P ACATCAAGGACAC . 135.0 6.0 199.0 0.0 . 18 . . Atlas-SNP GAR1 54433 hgsc.bcm.edu hg19 4 110739158 110739158 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . GAR1 NM_018983 exon3 c.A281G p.K94R AAAATAAGGTGCC . 49.0 4.0 71.0 0.0 . 16 . . Atlas-SNP AP1AR 55435 hgsc.bcm.edu hg19 4 113187842 113187842 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . AP1AR NM_018569 exon9 c.T613C p.S205P AGCACATCCTTAG . 92.0 4.0 125.0 0.0 . 25 . . Atlas-SNP MYOZ2 51778 hgsc.bcm.edu hg19 4 120079180 120079180 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c MYOZ2,NS,carcinoma,0,1 MYOZ2 NM_016599 exon4 c.A250G p.S84G CAGCACAGTATTG . 38.0 2.0 59.0 1.0 . 34 . . Atlas-SNP PHF17 79960 hgsc.bcm.edu hg19 4 129792723 129792723 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . PHF17 NM_199320 exon11 c.T1835C p.L612P CCCTGCTGAAGCA . 73.0 4.0 81.0 0.0 . 63 . . Atlas-SNP INPP4B 8821 hgsc.bcm.edu hg19 4 143067030 143067030 + Silent SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . INPP4B NM_003866 exon19 c.A1683G p.E561E TGAAGGTTCCTTT . 91.0 4.0 107.0 0.0 . 132 . . Atlas-SNP PRMT10 90826 hgsc.bcm.edu hg19 4 148559746 148559746 + Silent SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c PRMT10,NS,carcinoma,0,1 PRMT10 NM_138364 exon12 c.A2475G p.G825G TTCCTCTCCCATT . 100.0 4.0 129.0 0.0 . 68 . . Atlas-SNP RXFP1 59350 hgsc.bcm.edu hg19 4 159526291 159526291 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . RXFP1 NM_001253727 exon5 c.T545C p.L182P AGAAGCTGTAAGA . 89.0 5.0 133.0 0.0 . 98 . . Atlas-SNP CPE 1363 hgsc.bcm.edu hg19 4 166418679 166418679 + Missense_Mutation SNP G G A novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c CPE,NS,carcinoma,0,1 CPE NM_001873 exon9 c.G1348A p.E450K GAACTGGAGTCAT . 28.0 2.0 47.0 0.0 . 65 . . Atlas-SNP FAM105A 54491 hgsc.bcm.edu hg19 5 14609107 14609107 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c FAM105A,caecum,carcinoma,0,1 FAM105A NM_019018 exon7 c.A878G p.D293G TAGGCGACACATG . 87.0 4.0 88.0 0.0 . 32 . . Atlas-SNP SPEF2 79925 hgsc.bcm.edu hg19 5 35628606 35628606 + Nonsense_Mutation SNP G G T rs78964548 bycluster TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . SPEF2 NM_024867 exon2 c.G103T p.G35X CTACTTGGAGAAG . 92.0 4.0 94.0 0.0 . 324 . . Atlas-SNP SPEF2 79925 hgsc.bcm.edu hg19 5 35792503 35792503 + Silent SNP C C T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . SPEF2 NM_024867 exon31 c.C4509T p.G1503G CCTTGGCACAAAC . 89.0 4.0 70.0 0.0 . 324 . . Atlas-SNP NADKD1 133686 hgsc.bcm.edu hg19 5 36219720 36219720 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c NADKD1,NS,carcinoma,0,1 NADKD1 NM_001085411 exon5 c.A622G p.K208E AGAACTTCTGTAA . 50.0 2.0 32.0 0.0 . 47 . . Atlas-SNP NIPBL 25836 hgsc.bcm.edu hg19 5 36984922 36984922 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . NIPBL NM_015384 exon10 c.A1640G p.Q547R TTCATCAGGCAGG . 100.0 4.0 57.0 0.0 . 513 . . Atlas-SNP HCN1 348980 hgsc.bcm.edu hg19 5 45303811 45303811 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . HCN1 NM_021072 exon6 c.T1508C p.I503T TCTCGTATGATAT . 131.0 55.0 114.0 0.0 . 298 . . Atlas-SNP MAP3K1 4214 hgsc.bcm.edu hg19 5 56178549 56178549 + Silent SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . MAP3K1 NM_005921 exon14 c.T3522C p.N1174N TCATAATCAAAAG . 94.0 4.0 98.0 0.0 . 355 . . Atlas-SNP KIF2A 3796 hgsc.bcm.edu hg19 5 61669513 61669513 + Splice_Site SNP G G A novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . KIF2A NM_001098511 exon18 c.1761-1G>A . TTTATAGGGTCAA . 85.0 40.0 63.0 0.0 . 69 . . Atlas-SNP AP3B1 8546 hgsc.bcm.edu hg19 5 77471657 77471657 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . AP3B1 NM_003664 exon10 c.T1046C p.V349A TACTGCACCTCCC . 85.0 4.0 60.0 0.0 . 94 . . Atlas-SNP RASA1 5921 hgsc.bcm.edu hg19 5 86682657 86682657 + Silent SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c RASA1_ENST00000456692,NS,carcinoma,0,2 RASA1 NM_002890 exon23 c.A2862G p.E954E CATGGAAGGTGTC . 62.0 4.0 66.0 0.0 . 213 . . Atlas-SNP YTHDC2 64848 hgsc.bcm.edu hg19 5 112874844 112874844 + Silent SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . YTHDC2 NM_022828 exon8 c.A1176G p.K392K AAACAAAGAAATG . 63.0 4.0 55.0 0.0 . 118 . . Atlas-SNP PRRC1 133619 hgsc.bcm.edu hg19 5 126859184 126859184 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . PRRC1 NM_130809 exon2 c.A13G p.S5G GAAGAGAGTGGAA . 67.0 4.0 67.0 0.0 . 22 . . Atlas-SNP FAM13B 51306 hgsc.bcm.edu hg19 5 137354156 137354156 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . FAM13B NM_001101800 exon4 c.A205G p.T69A CCACTGTCTCAGC . 97.0 4.0 95.0 0.0 . 46 . . Atlas-SNP CDC23 8697 hgsc.bcm.edu hg19 5 137537070 137537070 + Silent SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . CDC23 NM_004661 exon5 c.A483G p.K161K TTGGTGTTTTTTG . 72.0 4.0 75.0 0.0 . 46 . . Atlas-SNP PCDHGA3 56112 hgsc.bcm.edu hg19 5 140724262 140724262 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . PCDHGA3 NM_032011 exon1 c.T662C p.V221A ACCCTGTCCACTC . 95.0 4.0 74.0 0.0 . 246 . . Atlas-SNP PCDHGA11 56105 hgsc.bcm.edu hg19 5 140803211 140803211 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . PCDHGA11 NM_032091 exon1 c.A2417G p.D806G AATGTGACCCGAC . 84.0 5.0 98.0 0.0 . 128 . . Atlas-SNP FCHSD1 89848 hgsc.bcm.edu hg19 5 141024179 141024179 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . FCHSD1 NM_033449 exon16 c.A1603G p.S535G CTTGGCTGCTCTC . 82.0 4.0 69.0 0.0 . 51 . . Atlas-SNP CYFIP2 26999 hgsc.bcm.edu hg19 5 156721863 156721863 + Silent SNP T T C rs200051515 TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . CYFIP2 NM_001037332 exon4 c.T279C p.I93I GGCCATTCCCAGG . 199.0 9.0 185.0 0.0 . 354 . . Atlas-SNP WWC1 23286 hgsc.bcm.edu hg19 5 167871522 167871522 + Silent SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . WWC1 NM_015238 exon17 c.A2457G p.E819E GTTGGAACAGACA . 96.0 4.0 89.0 0.0 . 98 . . Atlas-SNP RANBP17 64901 hgsc.bcm.edu hg19 5 170610408 170610408 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . RANBP17 NM_022897 exon18 c.T2012C p.L671P CAGCGCTCACTCG . 98.0 4.0 88.0 0.0 . 108 . . Atlas-SNP TXNDC5 81567 hgsc.bcm.edu hg19 6 7884705 7884705 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . TXNDC5 NM_030810 exon9 c.A1063G p.T355A CCAGAGTCTTACA . 82.0 4.0 49.0 0.0 . 33 . . Atlas-SNP NFKBIL1 4795 hgsc.bcm.edu hg19 6 31525591 31525591 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . NFKBIL1 NM_005007 exon3 c.A521G p.E174G AGCTGGAGGACGA . 94.0 4.0 60.0 0.0 . 17 . . Atlas-SNP HSPA1L 3305 hgsc.bcm.edu hg19 6 31778417 31778417 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . HSPA1L NM_005527 exon2 c.T1333C p.Y445H CCTCATACACCTG . 365.0 118.0 239.0 0.0 . 185 . . Atlas-SNP SLC44A4 80736 hgsc.bcm.edu hg19 6 31833556 31833556 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c SLC44A4,NS,NS,0,1 SLC44A4 NM_025257 exon15 c.A1493G p.H498R CCAGTGTGGTAAC . 41.0 2.0 26.0 0.0 . 67 . . Atlas-SNP BRD2 6046 hgsc.bcm.edu hg19 6 32946061 32946061 + Silent SNP C C T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . BRD2 NM_005104 exon10 c.C1737T p.P579P GGCACCCCGCCCA . 98.0 4.0 60.0 0.0 . 70 . . Atlas-SNP TRERF1 55809 hgsc.bcm.edu hg19 6 42227243 42227243 + Silent SNP G G T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . TRERF1 NM_033502 exon9 c.C2103A p.P701P GTGGGTGGGGTCC . 158.0 60.0 61.0 0.0 . 124 . . Atlas-SNP KLC4 89953 hgsc.bcm.edu hg19 6 43039095 43039095 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . KLC4 NM_201523 exon9 c.A1292G p.E431G TACAGGAGTTTGG . 106.0 5.0 79.0 0.0 . 89 . . Atlas-SNP BACH2 60468 hgsc.bcm.edu hg19 6 90661469 90661469 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . BACH2 NM_001170794 exon5 c.A356G p.H119R AGGTTGTGCATGC . 95.0 4.0 105.0 0.0 . 224 . . Atlas-SNP FAM184A 79632 hgsc.bcm.edu hg19 6 119324140 119324140 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c FAM184A,NS,carcinoma,0,1 FAM184A NM_024581 exon9 c.T2012C p.L671P TGCAAAAGTTGAG . 40.0 2.0 54.0 0.0 . 109 . . Atlas-SNP TBPL1 9519 hgsc.bcm.edu hg19 6 134305776 134305776 + Nonsense_Mutation SNP C C T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . TBPL1 NM_004865 exon6 c.C448T p.Q150X ACATTACAGATTT . 84.0 4.0 159.0 0.0 . 20 . . Atlas-SNP IFNGR1 3459 hgsc.bcm.edu hg19 6 137540422 137540422 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . IFNGR1 NM_000416 exon1 c.A43G p.S15G CCCTGCTCACACC . 98.0 5.0 104.0 0.0 . 46 . . Atlas-SNP ARID1B 57492 hgsc.bcm.edu hg19 6 157256613 157256613 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . ARID1B NM_020732 exon5 c.A1940G p.E647G CTCAGGAAGGCTA . 73.0 4.0 99.0 0.0 . 320 . . Atlas-SNP FOXK1 221937 hgsc.bcm.edu hg19 7 4794874 4794874 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . FOXK1 NM_001037165 exon4 c.T910C p.S304P GATGAGTCAAAGC . 59.0 4.0 42.0 0.0 . 64 . . Atlas-SNP PAPOLB 56903 hgsc.bcm.edu hg19 7 4899811 4899811 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . PAPOLB NM_020144 exon1 c.A1631G p.K544R CCTGTCTTCATAG . 77.0 4.0 69.0 0.0 . 93 . . Atlas-SNP TNRC18 84629 hgsc.bcm.edu hg19 7 5355649 5355649 + Missense_Mutation SNP C C G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . TNRC18 NM_001080495 exon25 c.G6800C p.G2267A GTGTCTCCGTCGT . 66.0 27.0 65.0 0.0 . 311 . . Atlas-SNP SP8 221833 hgsc.bcm.edu hg19 7 20824956 20824956 + Silent SNP C C G rs201180283 TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . SP8 NM_182700 exon2 c.G480C p.G160G GCCGCCCCCGCCG . 10.0 6.0 2.0 0.0 . 43 . . Atlas-SNP KLHL7 55975 hgsc.bcm.edu hg19 7 23145743 23145743 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . KLHL7 NM_001172428 exon1 c.T98C p.V33A TGGGCGTCATGAA . 52.0 4.0 59.0 0.0 . 102 . . Atlas-SNP FAM188B 84182 hgsc.bcm.edu hg19 7 30821784 30821784 + Silent SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . FAM188B NM_032222 exon3 c.A375G p.E125E AGATGAAGATGCA . 77.0 4.0 49.0 0.0 . 62 . . Atlas-SNP AVL9 23080 hgsc.bcm.edu hg19 7 32609744 32609744 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . AVL9 NM_015060 exon11 c.A1328G p.H443R AGAAACACCTCAG . 123.0 5.0 91.0 0.0 . 66 . . Atlas-SNP PKD1L1 168507 hgsc.bcm.edu hg19 7 47873952 47873952 + Silent SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . PKD1L1 NM_138295 exon40 c.A6159G p.A2053A CTCCTGTGCGTCT . 73.0 4.0 77.0 0.0 . 328 . . Atlas-SNP LANCL2 55915 hgsc.bcm.edu hg19 7 55466298 55466298 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . LANCL2 NM_018697 exon3 c.T505C p.C169R AGTGACTGTGAGT . 82.0 4.0 88.0 0.0 . 54 . . Atlas-SNP ZNF117 51351 hgsc.bcm.edu hg19 7 64439846 64439846 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . ZNF117 NM_015852 exon4 c.A103G p.T35A TTAGGGTCACTTT . 60.0 4.0 68.0 0.0 . 56 . . Atlas-SNP FKBP6 8468 hgsc.bcm.edu hg19 7 72744311 72744311 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . FKBP6 NM_003602 exon4 c.T424C p.F142L CTTGACTTCCTGG . 117.0 6.0 69.0 0.0 . 35 . . Atlas-SNP HGF 3082 hgsc.bcm.edu hg19 7 81358964 81358964 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . HGF NM_000601 exon8 c.T997C p.Y333H GAGGATACTGAGA . 83.0 5.0 60.0 0.0 . 171 . . Atlas-SNP TECPR1 25851 hgsc.bcm.edu hg19 7 97873966 97873966 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . TECPR1 NM_015395 exon5 c.A448G p.K150E TGTCTTTCGTGTA . 75.0 4.0 56.0 0.0 . 77 . . Atlas-SNP TMEM130 222865 hgsc.bcm.edu hg19 7 98460878 98460878 + Silent SNP G G T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . TMEM130 NM_152913 exon2 c.C231A p.T77T CAGCGGGGTGTGG . 94.0 39.0 74.0 0.0 . 54 . . Atlas-SNP C7orf43 55262 hgsc.bcm.edu hg19 7 99755336 99755336 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . C7orf43 NM_018275 exon3 c.A557G p.D186G CCTTGATCTCTGA . 95.0 4.0 62.0 0.0 . 28 . . Atlas-SNP MLL5 55904 hgsc.bcm.edu hg19 7 104717613 104717613 + Silent SNP C C T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . MLL5 NM_018682 exon9 c.C972T p.N324N TACCAACAATTTG . 97.0 4.0 65.0 0.0 . 173 . . Atlas-SNP TMEM168 64418 hgsc.bcm.edu hg19 7 112423763 112423763 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . TMEM168 NM_022484 exon2 c.T1118C p.V373A CAGGAAACTGCTC . 75.0 4.0 33.0 0.0 . 84 . . Atlas-SNP ING3 54556 hgsc.bcm.edu hg19 7 120607623 120607623 + Silent SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . ING3 NM_019071 exon7 c.T477C p.D159D AACAGATCATATT . 87.0 4.0 54.0 0.0 . 36 . . Atlas-SNP CREB3L2 64764 hgsc.bcm.edu hg19 7 137612918 137612918 + Silent SNP G G A novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . CREB3L2 NM_001253775 exon2 c.C297T p.T99T ACTGGTGGTAATG . 360.0 23.0 186.0 0.0 . 62 . . Atlas-SNP AKR1D1 6718 hgsc.bcm.edu hg19 7 137782670 137782670 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . AKR1D1 NM_001190907 exon4 c.A437G p.N146S AGTCAAATCTGTG . 52.0 4.0 29.0 0.0 . 52 . . Atlas-SNP SSPO 23145 hgsc.bcm.edu hg19 7 149489269 149489269 + Silent SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . . NM_198455 exon36 c.A5514G p.P1838P GTGCCCACCTGAT . 99.0 4.0 42.0 0.0 . . . . Atlas-SNP NEFL 4747 hgsc.bcm.edu hg19 8 24811079 24811079 + Missense_Mutation SNP T T A novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . NEFL NM_006158 exon3 c.A1400T p.K467M TCATCCTTGGCTT . 30.0 24.0 52.0 0.0 . 47 . . Atlas-SNP IDO1 3620 hgsc.bcm.edu hg19 8 39776332 39776332 + Splice_Site SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . IDO1 NM_002164 exon4 c.304-2A>G . TTAATCAGGTCTT . 60.0 4.0 71.0 0.0 . 43 . . Atlas-SNP PPP1R42 286187 hgsc.bcm.edu hg19 8 67900622 67900622 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . PPP1R42 NM_001013626 exon6 c.A683G p.Y228C TATTAATATAAAT . 19.0 10.0 3.0 0.0 . 2 . . Atlas-SNP KCNB2 9312 hgsc.bcm.edu hg19 8 73849087 73849087 + Silent SNP G G A novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . KCNB2 NM_004770 exon3 c.G1497A p.L499L GGCTCTGTCGGAA . 48.0 12.0 17.0 0.0 . 228 . . Atlas-SNP RNF19A 25897 hgsc.bcm.edu hg19 8 101271049 101271049 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . RNF19A NM_015435 exon11 c.A2252G p.H751R CGGGTGTGATAAT . 99.0 4.0 70.0 0.0 . 67 . . Atlas-SNP UBR5 51366 hgsc.bcm.edu hg19 8 103300480 103300480 + Silent SNP C C T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . UBR5 NM_015902 exon36 c.G4728A p.E1576E CACACCCTCCACC . 141.0 35.0 75.0 0.0 . 285 . . Atlas-SNP PKHD1L1 93035 hgsc.bcm.edu hg19 8 110457871 110457871 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . PKHD1L1 NM_177531 exon38 c.A5773G p.R1925G CCAAGCAGAGGTA . 84.0 30.0 52.0 0.0 . 522 . . Atlas-SNP CSMD3 114788 hgsc.bcm.edu hg19 8 113331087 113331087 + Missense_Mutation SNP C C T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c CSMD3_ENST00000343508,NS,malignant_melanoma,0,2 CSMD3 NM_198123 exon47 c.G7339A p.G2447R GTGCTCCATCCAT . 39.0 2.0 26.0 0.0 . 2325 . . Atlas-SNP TRPS1 7227 hgsc.bcm.edu hg19 8 116430680 116430680 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . TRPS1 NM_014112 exon6 c.A2701G p.R901G TACGCCTCTGAAA . 114.0 5.0 104.0 0.0 . 516 . . Atlas-SNP DERL1 79139 hgsc.bcm.edu hg19 8 124037286 124037286 + Silent SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . DERL1 NM_001134671 exon3 c.T270C p.A90A ATCAAAAGCTCCT . 61.0 4.0 37.0 0.0 . 27 . . Atlas-SNP KCNK9 51305 hgsc.bcm.edu hg19 8 140631049 140631049 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . KCNK9 NM_016601 exon2 c.T577C p.C193R TGAAGCAGTAGTA . 141.0 46.0 87.0 0.0 . 100 . . Atlas-SNP SLURP1 57152 hgsc.bcm.edu hg19 8 143823269 143823269 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . SLURP1 NM_020427 exon2 c.A130G p.K44E CTGGCTTGCAGCG . 100.0 4.0 43.0 0.0 . 16 . . Atlas-SNP EPPK1 83481 hgsc.bcm.edu hg19 8 144940614 144940614 + Missense_Mutation SNP C C T rs200821582 bycluster TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c EPPK1,NS,carcinoma,0,1 EPPK1 NM_031308 exon1 c.G6808A p.G2270S CGAAGCCGGTGGC . 20.0 8.0 3.0 1.0 . 199 . C|0.998;T|0.002 Atlas-SNP EPPK1 83481 hgsc.bcm.edu hg19 8 144944633 144944633 + Missense_Mutation SNP C C T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . EPPK1 NM_031308 exon1 c.G2789A p.G930E ACAGCTCCCAGGC . 35.0 12.0 14.0 0.0 . 199 . . Atlas-SNP PLAA 9373 hgsc.bcm.edu hg19 9 26905635 26905635 + Silent SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . PLAA NM_001031689 exon14 c.T2262C p.S754S ATCATCACTGATA . 76.0 4.0 103.0 0.0 . 48 . . Atlas-SNP FANCG 2189 hgsc.bcm.edu hg19 9 35077012 35077012 + Silent SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . FANCG NM_004629 exon6 c.T733C p.L245L GGACCAACACAGG . 93.0 4.0 83.0 0.0 . 56 . . Atlas-SNP CCIN 881 hgsc.bcm.edu hg19 9 36169807 36169807 + Missense_Mutation SNP A A T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . CCIN NM_005893 exon1 c.A308T p.E103V TGGAGGAGCTGCT . 126.0 46.0 104.0 0.0 . 56 . . Atlas-SNP C9orf85 138241 hgsc.bcm.edu hg19 9 74561974 74561974 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . C9orf85 NM_182505 exon2 c.T155C p.L52P AAGTTCTTGAGTG . 81.0 4.0 61.0 0.0 . 28 . . Atlas-SNP PHF2 5253 hgsc.bcm.edu hg19 9 96438992 96438992 + Silent SNP A A T rs10821200 by2hit2allele;alternate_allele TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c PHF2,caecum,carcinoma,0,1 PHF2 NM_005392 exon21 c.A2949T p.P983P CACGCCAGCCTCT . 43.0 6.0 23.0 1.0 . 113 . . Atlas-SNP TDRD7 23424 hgsc.bcm.edu hg19 9 100222509 100222509 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . TDRD7 NM_014290 exon7 c.A905G p.K302R CAGCTAAGAGAAA . 96.0 4.0 100.0 0.0 . 78 . . Atlas-SNP ANKS6 203286 hgsc.bcm.edu hg19 9 101544811 101544811 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . ANKS6 NM_173551 exon5 c.T1157C p.V386A AGAGTGACATCGG . 90.0 4.0 81.0 0.0 . 59 . . Atlas-SNP LCN2 3934 hgsc.bcm.edu hg19 9 130911936 130911936 + Missense_Mutation SNP C C A novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . LCN2 NM_005564 exon1 c.C132A p.D44E CCAGGACAACCAA . 75.0 29.0 68.0 0.0 . 12 . . Atlas-SNP GTF3C4 9329 hgsc.bcm.edu hg19 9 135562687 135562687 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . GTF3C4 NM_012204 exon4 c.A2377G p.S793G CATGACAGCATTG . 78.0 4.0 76.0 0.0 . 53 . . Atlas-SNP SARDH 1757 hgsc.bcm.edu hg19 9 136578161 136578161 + Silent SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . SARDH NM_007101 exon9 c.A1236G p.A412A CTCACCTGCGCTG . 41.0 15.0 26.0 0.0 . 112 . . Atlas-SNP PMPCA 23203 hgsc.bcm.edu hg19 9 139306975 139306975 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . PMPCA NM_015160 exon3 c.A308G p.K103R AAGCGAAATACCT . 94.0 4.0 82.0 0.0 . 29 . . Atlas-SNP CCDC3 83643 hgsc.bcm.edu hg19 10 13040436 13040436 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . CCDC3 NM_031455 exon2 c.A451G p.R151G TCCTTCTGTTCTC . 94.0 26.0 83.0 0.0 . 27 . . Atlas-SNP MYO3A 53904 hgsc.bcm.edu hg19 10 26442791 26442791 + Missense_Mutation SNP A A T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . MYO3A NM_017433 exon24 c.A2648T p.H883L TGCCACATTCTAA . 142.0 6.0 140.0 0.0 . 371 . . Atlas-SNP ANKRD26 22852 hgsc.bcm.edu hg19 10 27349321 27349321 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . ANKRD26 NM_014915 exon15 c.T1517C p.V506A TTTGGAACAGAAT . 124.0 5.0 88.0 0.0 . 179 . . Atlas-SNP KIAA1462 57608 hgsc.bcm.edu hg19 10 30317392 30317392 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . KIAA1462 NM_020848 exon3 c.A1685G p.Q562R CCAGTTTGGAACT . 40.0 4.0 24.0 0.0 . 162 . . Atlas-SNP EPC1 80314 hgsc.bcm.edu hg19 10 32576101 32576101 + Silent SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . EPC1 NM_025209 exon7 c.T1077C p.A359A CAGTGCAGCAGGA . 71.0 4.0 48.0 0.0 . 74 . . Atlas-SNP ANK3 288 hgsc.bcm.edu hg19 10 61874003 61874003 + Silent SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c ANK3_ENST00000395293,NS,carcinoma,0,3 ANK3 NM_001204404 exon27 c.T2931C p.V977V GCTTGAAACAAGA . 44.0 2.0 45.0 0.0 . 703 . . Atlas-SNP MYPN 84665 hgsc.bcm.edu hg19 10 69918260 69918260 + Silent SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . MYPN NM_032578 exon7 c.A1335G p.S445S TTTGTCAGCTTCT . 89.0 4.0 61.0 0.0 . 189 . . Atlas-SNP TTC18 118491 hgsc.bcm.edu hg19 10 75058853 75058853 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . TTC18 NM_145170 exon15 c.A1534G p.S512G AGTCACTCACTGC . 85.0 4.0 55.0 0.0 . 106 . . Atlas-SNP RGR 5995 hgsc.bcm.edu hg19 10 86018358 86018358 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . RGR NM_002921 exon7 c.T851C p.L284P AGTGCCTCTCACC . 117.0 5.0 65.0 0.0 . 42 . . Atlas-SNP PTEN 5728 hgsc.bcm.edu hg19 10 89653817 89653817 + Missense_Mutation SNP G G A novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c PTEN,colon,carcinoma,-2,1 PTEN NM_000314 exon2 c.G115A p.A39T TTTCCTGCAGAAA . 88.0 4.0 66.0 1.0 . 3652 . . Atlas-SNP MARCH5 54708 hgsc.bcm.edu hg19 10 94109142 94109142 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . MARCH5 NM_017824 exon4 c.A406G p.R136G ATGGAGAGAGCTG . 97.0 4.0 87.0 0.0 . 28 . . Atlas-SNP SMC3 9126 hgsc.bcm.edu hg19 10 112338437 112338437 + Silent SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . SMC3 NM_005445 exon7 c.T402C p.N134N AAGCAATCCTTAT . 55.0 4.0 51.0 0.0 . 103 . . Atlas-SNP PLEKHS1 79949 hgsc.bcm.edu hg19 10 115515016 115515016 + Splice_Site SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . PLEKHS1 . . . . TTTGACAGGGGAG . 65.0 4.0 64.0 0.0 . 19 . . Atlas-SNP FAM160B1 57700 hgsc.bcm.edu hg19 10 116605202 116605202 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . FAM160B1 NM_020940 exon8 c.T1090C p.F364L TCCTGGTTTGATT . 80.0 4.0 78.0 0.0 . 107 . . Atlas-SNP HMX2 3167 hgsc.bcm.edu hg19 10 124909334 124909334 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . HMX2 NM_005519 exon2 c.T517C p.Y173H AAGCGCTACCTGA . 82.0 37.0 66.0 0.0 . 21 . . Atlas-SNP AP2A2 161 hgsc.bcm.edu hg19 11 992671 992671 + Nonsense_Mutation SNP A A T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . AP2A2 NM_001242837 exon11 c.A1441T p.K481X GCGGCCAAGACTG . 155.0 65.0 118.0 0.0 . 50 . . Atlas-SNP OR51I2 390064 hgsc.bcm.edu hg19 11 5475431 5475431 + Missense_Mutation SNP T T A rs199654892 bycluster TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . OR51I2 NM_001004754 exon1 c.T713A p.L238H AAGCTCTCAACAC . 230.0 14.0 206.0 0.0 . 76 . . Atlas-SNP LDHA 3939 hgsc.bcm.edu hg19 11 18425285 18425285 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . LDHA NM_001165414 exon6 c.A724G p.T242A CTGAAGACTCTGC . 68.0 5.0 64.0 0.0 . 118 . . Atlas-SNP SYT13 57586 hgsc.bcm.edu hg19 11 45307751 45307751 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . SYT13 NM_020826 exon1 c.T8C p.L3P ACCGACAGCACCA . 61.0 4.0 24.0 0.0 . 45 . . Atlas-SNP CKAP5 9793 hgsc.bcm.edu hg19 11 46819406 46819406 + Silent SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . CKAP5 NM_001008938 exon11 c.T1287C p.A429A GGTAGAAGCAGTG . 100.0 4.0 69.0 0.0 . 134 . . Atlas-SNP FNBP4 23360 hgsc.bcm.edu hg19 11 47788670 47788670 + Silent SNP G G C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . FNBP4 NM_015308 exon1 c.C171G p.T57T GGTGGTGGTGGTC . 7.0 5.0 0.0 0.0 . 99 . . Atlas-SNP OR5L1 219437 hgsc.bcm.edu hg19 11 55579735 55579735 + Missense_Mutation SNP G G T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . OR5L1 NM_001004738 exon1 c.G793T p.G265C AGTTCAGGCAATA . 82.0 34.0 58.0 0.0 . 145 . . Atlas-SNP OR5L1 219437 hgsc.bcm.edu hg19 11 55579736 55579736 + Missense_Mutation SNP G G T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . OR5L1 NM_001004738 exon1 c.G794T p.G265V GTTCAGGCAATAG . 82.0 34.0 60.0 0.0 . 145 . . Atlas-SNP MS4A6A 64231 hgsc.bcm.edu hg19 11 59947440 59947440 + Splice_Site SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . MS4A6A NM_152851 exon4 c.148-2A>G . ATAGTCTGTGGGA . 89.0 4.0 88.0 0.0 . 85 . . Atlas-SNP INCENP 3619 hgsc.bcm.edu hg19 11 61906200 61906200 + Silent SNP A A G rs150865728 TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . INCENP NM_001040694 exon6 c.A1131G p.E377E GAAGGAACCCCCC . 40.0 4.0 34.0 0.0 . 122 . A|1.000;G|0.000 Atlas-SNP NUDT22 84304 hgsc.bcm.edu hg19 11 63994260 63994260 + Missense_Mutation SNP G G A novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . NUDT22 NM_001128613 exon2 c.G136A p.E46K ATCTGGGAGACCC . 93.0 4.0 78.0 0.0 . 24 . . Atlas-SNP SART1 9092 hgsc.bcm.edu hg19 11 65745300 65745300 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . SART1 NM_005146 exon17 c.A2102G p.K701R AGGAGAAGGACGG . 82.0 4.0 72.0 0.0 . 41 . . Atlas-SNP GSTP1 2950 hgsc.bcm.edu hg19 11 67352159 67352159 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . GSTP1 NM_000852 exon4 c.T148C p.Y50H CAGCTATACGGGC . 116.0 48.0 92.0 0.0 . 21 . . Atlas-SNP CHKA 1119 hgsc.bcm.edu hg19 11 67821492 67821492 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . CHKA NM_001277 exon12 c.A1337G p.D446G TAGGCATCAAACC . 82.0 4.0 69.0 0.0 . 41 . . Atlas-SNP KRTAP5-10 387273 hgsc.bcm.edu hg19 11 71277087 71277087 + Missense_Mutation SNP T T G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . KRTAP5-10 NM_001012710 exon1 c.T454G p.S152A TGCTCCTCAGGCT . 145.0 51.0 157.0 0.0 . 37 . . Atlas-SNP ARHGEF17 9828 hgsc.bcm.edu hg19 11 73020389 73020389 + Missense_Mutation SNP A A T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . ARHGEF17 NM_014786 exon1 c.A706T p.I236F TCCTCCATCGCCG . 226.0 14.0 160.0 0.0 . 117 . . Atlas-SNP C2CD3 26005 hgsc.bcm.edu hg19 11 73785299 73785299 + Silent SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . C2CD3 NM_015531 exon24 c.A4950G p.K1650K CATACCTTTCAAG . 100.0 4.0 89.0 0.0 . 288 . . Atlas-SNP C11orf30 56946 hgsc.bcm.edu hg19 11 76227256 76227256 + Silent SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . C11orf30 NM_020193 exon11 c.T1584C p.A528A TGGAGCTGCAACC . 95.0 4.0 68.0 0.0 . 123 . . Atlas-SNP PAK1 5058 hgsc.bcm.edu hg19 11 77090324 77090324 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . PAK1 NM_001128620 exon4 c.A401G p.K134R GTCTTCTTCGAGT . 112.0 5.0 59.0 0.0 . 89 . . Atlas-SNP PCF11 51585 hgsc.bcm.edu hg19 11 82872485 82872485 + Silent SNP G G A novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . PCF11 NM_015885 exon2 c.G309A p.V103V TTGTGTGTTTGAA . 87.0 5.0 66.0 0.0 . 220 . . Atlas-SNP TMEM126A 84233 hgsc.bcm.edu hg19 11 85365266 85365266 + Silent SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . TMEM126A NM_032273 exon3 c.T246C p.T82T CTTAACTTACAGA . 61.0 4.0 64.0 0.0 . 20 . . Atlas-SNP CCDC83 220047 hgsc.bcm.edu hg19 11 85627242 85627242 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . CCDC83 NM_173556 exon11 c.A1139G p.K380R ATATGAAGTACTT . 62.0 4.0 91.0 0.0 . 48 . . Atlas-SNP PIWIL4 143689 hgsc.bcm.edu hg19 11 94335097 94335097 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . PIWIL4 NM_152431 exon12 c.T1517C p.L506S ACTGCTTGAGAAG . 74.0 4.0 131.0 0.0 . 70 . . Atlas-SNP GRIA4 2893 hgsc.bcm.edu hg19 11 105774565 105774565 + Missense_Mutation SNP G G A novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . GRIA4 NM_001077244 exon8 c.G911A p.G304E ATGATGGAGTCCT . 99.0 4.0 104.0 0.0 . 380 . . Atlas-SNP ZBTB16 7704 hgsc.bcm.edu hg19 11 114112895 114112895 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . ZBTB16 NM_006006 exon5 c.A1460G p.D487G GCACTGACATGGC . 54.0 4.0 61.0 0.0 . 101 . . Atlas-SNP STT3A 3703 hgsc.bcm.edu hg19 11 125474114 125474114 + Silent SNP A A T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c STT3A,NS,carcinoma,0,1 STT3A NM_152713 exon6 c.A480T p.R160R CTCCCGATCTGTG . 92.0 68.0 144.0 1.0 . 52 . . Atlas-SNP ARHGAP32 9743 hgsc.bcm.edu hg19 11 128932193 128932193 + Silent SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . ARHGAP32 NM_001142685 exon9 c.A903G p.R301R CTTGCCTCTCCAC . 33.0 4.0 42.0 0.0 . 307 . . Atlas-SNP DCP1B 196513 hgsc.bcm.edu hg19 12 2062353 2062353 + Missense_Mutation SNP G G C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c DCP1B,rectum,carcinoma,0,1 DCP1B NM_152640 exon7 c.C753G p.H251Q CTGCTGGTGGAGA . 20.0 3.0 13.0 0.0 . 63 . . Atlas-SNP PLEKHG6 55200 hgsc.bcm.edu hg19 12 6436467 6436467 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . PLEKHG6 NM_001144856 exon15 c.A1718G p.D573G CAGAAGACACAGA . 85.0 4.0 98.0 0.0 . 62 . . Atlas-SNP CLECL1 160365 hgsc.bcm.edu hg19 12 9885713 9885713 + Missense_Mutation SNP A A T rs200639830 bycluster TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . CLECL1 NM_001267701 exon1 c.T148A p.Y50N ATAAGTAAATTGA . 102.0 6.0 56.0 0.0 . 18 . . Atlas-SNP GUCY2C 2984 hgsc.bcm.edu hg19 12 14829836 14829836 + Silent SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . GUCY2C NM_004963 exon7 c.T900C p.S300S CCCAGGAGACAGC . 94.0 4.0 138.0 0.0 . 126 . . Atlas-SNP GUCY2C 2984 hgsc.bcm.edu hg19 12 14836124 14836124 + Missense_Mutation SNP C C T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c GUCY2C,NS,carcinoma,0,1 GUCY2C NM_004963 exon4 c.G463A p.E155K AGGTTTCTTTATA . 36.0 2.0 63.0 0.0 . 126 . . Atlas-SNP GUCY2C 2984 hgsc.bcm.edu hg19 12 14840921 14840921 + Missense_Mutation SNP G G T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . GUCY2C NM_004963 exon2 c.C294A p.S98R ACAGGTGCTACTC . 34.0 25.0 53.0 0.0 . 126 . . Atlas-SNP PLCZ1 89869 hgsc.bcm.edu hg19 12 18837138 18837138 + Missense_Mutation SNP A A C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c PLCZ1,NS,carcinoma,0,1 PLCZ1 NM_033123 exon14 c.T1667G p.V556G CCTTCAACAACAA . 23.0 2.0 32.0 0.0 . 107 . . Atlas-SNP TM7SF3 51768 hgsc.bcm.edu hg19 12 27128524 27128524 + Missense_Mutation SNP G G A novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . TM7SF3 NM_016551 exon11 c.C1355T p.S452F CTTGTGGACCAGT . 101.0 73.0 127.0 0.0 . 41 . . Atlas-SNP ARID2 196528 hgsc.bcm.edu hg19 12 46231166 46231166 + Silent SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . ARID2 NM_152641 exon9 c.T1086C p.C362C AAAATGTCTAATG . 84.0 4.0 73.0 0.0 . 311 . . Atlas-SNP DDX23 9416 hgsc.bcm.edu hg19 12 49226344 49226344 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . DDX23 NM_004818 exon14 c.A1816G p.T606A TGGCCGTGAACAT . 73.0 4.0 53.0 0.0 . 82 . . Atlas-SNP FKBP11 51303 hgsc.bcm.edu hg19 12 49318403 49318403 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . FKBP11 NM_016594 exon3 c.A224G p.D75G GAGGTGTCAATAA . 91.0 4.0 54.0 0.0 . 12 . . Atlas-SNP LMBR1L 55716 hgsc.bcm.edu hg19 12 49498580 49498580 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . LMBR1L NM_018113 exon4 c.T280C p.S94P GCAGGGAGAGCAG . 100.0 4.0 82.0 0.0 . 61 . . Atlas-SNP BIN2 51411 hgsc.bcm.edu hg19 12 51693495 51693495 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . BIN2 NM_016293 exon6 c.A412G p.R138G CAATTCTCTCCTG . 71.0 4.0 39.0 0.0 . 58 . . Atlas-SNP GRASP 160622 hgsc.bcm.edu hg19 12 52407934 52407934 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . GRASP NM_181711 exon7 c.A631G p.K211E TATGAGAAGTGGG . 99.0 4.0 74.0 0.0 . 23 . . Atlas-SNP STAT6 6778 hgsc.bcm.edu hg19 12 57499264 57499264 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . STAT6 NM_001178079 exon8 c.A799G p.T267A CGAGGGTTCTCAG . 77.0 4.0 42.0 0.0 . 69 . . Atlas-SNP OTOGL 283310 hgsc.bcm.edu hg19 12 80714407 80714407 + Silent SNP A A T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . OTOGL NM_173591 exon33 c.A3981T p.T1327T ATTCACAGATTCT . 86.0 52.0 68.0 0.0 . 235 . . Atlas-SNP OTOGL 283310 hgsc.bcm.edu hg19 12 80747200 80747200 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . OTOGL NM_173591 exon45 c.T5476C p.C1826R ACTTCCTGTTTGA . 131.0 6.0 89.0 0.0 . 235 . . Atlas-SNP PLEKHG7 440107 hgsc.bcm.edu hg19 12 93155594 93155594 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . PLEKHG7 NM_001004330 exon9 c.A767G p.K256R AAACTAAGTGCAA . 77.0 4.0 34.0 0.0 . 38 . . Atlas-SNP SRRM4 84530 hgsc.bcm.edu hg19 12 119568550 119568550 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . SRRM4 NM_194286 exon8 c.A682G p.T228A TCCAAGACCCTCT . 43.0 4.0 16.0 0.0 . 131 . . Atlas-SNP LRRC43 254050 hgsc.bcm.edu hg19 12 122676094 122676094 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . LRRC43 NM_001098519 exon6 c.T1069C p.S357P AATGAGTCCGCGG . 79.0 4.0 27.0 0.0 . 105 . . Atlas-SNP TCTN2 79867 hgsc.bcm.edu hg19 12 124158356 124158356 + Silent SNP A A T rs111689585 alternate_allele TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . TCTN2 NM_024809 exon4 c.A462T p.S154S TGCCTCAGGCAAG . 216.0 118.0 143.0 0.0 . 50 . A|0.500;G|0.500 Atlas-SNP DHX37 57647 hgsc.bcm.edu hg19 12 125435267 125435267 + Silent SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . DHX37 NM_032656 exon22 c.A2952G p.E984E CACGATTTCCTGG . 95.0 4.0 62.0 0.0 . 114 . . Atlas-SNP DHX37 57647 hgsc.bcm.edu hg19 12 125451369 125451369 + Silent SNP T T A novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . DHX37 NM_032656 exon12 c.A1560T p.S520S GGCCCTTGACTTC . 168.0 69.0 155.0 0.0 . 114 . . Atlas-SNP TMEM132B 114795 hgsc.bcm.edu hg19 12 126138907 126138907 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . TMEM132B NM_052907 exon9 c.T2888C p.L963P TTACACTCCCATC . 86.0 4.0 83.0 0.0 . 207 . . Atlas-SNP BRCA2 675 hgsc.bcm.edu hg19 13 32912226 32912226 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . BRCA2 NM_000059 exon11 c.A3734G p.E1245G ATATTGAGAATAT . 39.0 4.0 39.0 0.0 . 812 . . Atlas-SNP CCDC122 160857 hgsc.bcm.edu hg19 13 44433973 44433973 + Silent SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . CCDC122 NM_144974 exon5 c.A390G p.A130A TATTTTTGCATAA . 49.0 35.0 63.0 0.0 . 21 . . Atlas-SNP RCBTB2 1102 hgsc.bcm.edu hg19 13 49073817 49073817 + Missense_Mutation SNP G G A novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . RCBTB2 NM_001268 exon13 c.C1324T p.R442W AGGCCCGGTAAAC . 67.0 5.0 81.0 0.0 . 62 . . Atlas-SNP CYSLTR2 57105 hgsc.bcm.edu hg19 13 49281801 49281801 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . CYSLTR2 NM_020377 exon1 c.T848C p.L283P ACAGACTGCATAA . 71.0 4.0 88.0 0.0 . 55 . . Atlas-SNP CAB39L 81617 hgsc.bcm.edu hg19 13 49913821 49913821 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . CAB39L NM_030925 exon7 c.T682C p.S228P TTAAAGACTGTCT . 92.0 4.0 126.0 0.0 . 35 . . Atlas-SNP ATP7B 540 hgsc.bcm.edu hg19 13 52532539 52532539 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c ATP7B,rectum,carcinoma,0,1 ATP7B NM_000053 exon8 c.A2263G p.K755E CCGCCTTCTCAGC . 88.0 5.0 99.0 0.0 . 123 . . Atlas-SNP VPS36 51028 hgsc.bcm.edu hg19 13 52992177 52992177 + Silent SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . VPS36 NM_016075 exon11 c.A855G p.E285E TAAATCTTCTGGT . 41.0 4.0 55.0 0.0 . 38 . . Atlas-SNP TEP1 7011 hgsc.bcm.edu hg19 14 20840992 20840992 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . TEP1 NM_007110 exon49 c.A6976G p.I2326V ACCAGATCAGAGC . 98.0 5.0 69.0 0.0 . 224 . . Atlas-SNP NDRG2 57447 hgsc.bcm.edu hg19 14 21488710 21488710 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . NDRG2 NM_201537 exon8 c.T500C p.V167A ATGAGGACAAGAC . 84.0 4.0 66.0 0.0 . 37 . . Atlas-SNP ACIN1 22985 hgsc.bcm.edu hg19 14 23532238 23532238 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . ACIN1 NM_014977 exon14 c.A2957G p.K986R CCGGACTTCTGCT . 82.0 4.0 71.0 0.0 . 147 . . Atlas-SNP CTSG 1511 hgsc.bcm.edu hg19 14 25044539 25044539 + Silent SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . CTSG NM_001911 exon2 c.T135C p.G45G GCTCTGACCTGCT . 82.0 4.0 68.0 0.0 . 63 . . Atlas-SNP BAZ1A 11177 hgsc.bcm.edu hg19 14 35272095 35272095 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . BAZ1A NM_182648 exon7 c.A826G p.R276G TCCCTCTTCGTCT . 68.0 4.0 39.0 0.0 . 128 . . Atlas-SNP PPP2R3C 55012 hgsc.bcm.edu hg19 14 35585916 35585916 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c PPP2R3C,right_upper_lobe,carcinoma,0,1 PPP2R3C NM_017917 exon2 c.A86G p.D29G TCTTCATCTTTTA . 55.0 4.0 39.0 0.0 . 44 . . Atlas-SNP RALGAPA1 253959 hgsc.bcm.edu hg19 14 36128344 36128344 + Missense_Mutation SNP C C T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c RALGAPA1_ENST00000307138,bladder,carcinoma,0,2 RALGAPA1 NM_194301 exon27 c.G3869A p.R1290Q ACCTACCGTGCAG . 28.0 2.0 27.0 1.0 . 289 . . Atlas-SNP CLEC14A 161198 hgsc.bcm.edu hg19 14 38725216 38725216 + Silent SNP C C A novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . CLEC14A NM_175060 exon1 c.G12T p.A4A GGCGAACGCCGGC . 85.0 46.0 38.0 0.0 . 83 . . Atlas-SNP FANCM 57697 hgsc.bcm.edu hg19 14 45623916 45623916 + Silent SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . FANCM NM_020937 exon7 c.A1200G p.K400K GTCAAAAAATGAA . 75.0 23.0 68.0 0.0 . 225 . . Atlas-SNP WDHD1 11169 hgsc.bcm.edu hg19 14 55408356 55408356 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . WDHD1 NM_007086 exon26 c.A3242G p.K1081R CGCTTCTTTGCTT . 82.0 4.0 138.0 0.0 . 82 . . Atlas-SNP SPTB 6710 hgsc.bcm.edu hg19 14 65249105 65249105 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . SPTB NM_001024858 exon19 c.A4169G p.D1390G TTGAGGTCAGCAT . 94.0 4.0 100.0 0.0 . 378 . . Atlas-SNP LTBP2 4053 hgsc.bcm.edu hg19 14 75070369 75070369 + Silent SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . LTBP2 NM_000428 exon2 c.A534G p.T178T TGCTGTTGTCCAT . 94.0 4.0 165.0 0.0 . 158 . . Atlas-SNP YLPM1 56252 hgsc.bcm.edu hg19 14 75230847 75230847 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . YLPM1 NM_019589 exon1 c.A655G p.S219G TATTTGAGCCATT . 91.0 4.0 129.0 0.0 . 298 . . Atlas-SNP C14orf166B 145497 hgsc.bcm.edu hg19 14 77292857 77292857 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . C14orf166B NM_194287 exon1 c.T19C p.S7P TTCCCATCAAAGC . 73.0 5.0 83.0 0.0 . 52 . . Atlas-SNP WDR20 91833 hgsc.bcm.edu hg19 14 102676047 102676047 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . WDR20 NM_001242417 exon4 c.T1633C p.C545R CCCCTGTGTCCTC . 61.0 4.0 103.0 0.0 . 35 . . Atlas-SNP TRPM1 4308 hgsc.bcm.edu hg19 15 31355371 31355371 + Silent SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . TRPM1 NM_001252020 exon7 c.A966G p.G322G GGCACGTCCGCTG . 94.0 36.0 61.0 0.0 . 183 . . Atlas-SNP RYR3 6263 hgsc.bcm.edu hg19 15 33993260 33993260 + Silent SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . RYR3 NM_001243996 exon42 c.A6462G p.L2154L GAGCTTAGAGGAA . 72.0 4.0 60.0 0.0 . 760 . . Atlas-SNP AQR 9716 hgsc.bcm.edu hg19 15 35222481 35222481 + Missense_Mutation SNP T T A novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . AQR NM_014691 exon12 c.A992T p.Y331F CTATCATAGTGAA . 35.0 11.0 27.0 0.0 . 139 . . Atlas-SNP PLCB2 5330 hgsc.bcm.edu hg19 15 40584596 40584596 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . PLCB2 NM_004573 exon22 c.T2375C p.M792T GCAGGCATGGTGA . 80.0 4.0 64.0 0.0 . 177 . . Atlas-SNP MGA 23269 hgsc.bcm.edu hg19 15 42003112 42003112 + Silent SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . MGA NM_001080541 exon8 c.T2649C p.S883S TACCTCTTATTCT . 65.0 4.0 61.0 0.0 . 264 . . Atlas-SNP SPTBN5 51332 hgsc.bcm.edu hg19 15 42173320 42173320 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . SPTBN5 NM_016642 exon13 c.A2465G p.E822G TCAGGCTCAGCTG . 100.0 4.0 98.0 0.0 . 171 . . Atlas-SNP MAPK6 5597 hgsc.bcm.edu hg19 15 52350974 52350974 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . MAPK6 NM_002748 exon4 c.T845C p.L282P AGCTGCTTCCAGG . 94.0 4.0 76.0 0.0 . 70 . . Atlas-SNP DAPK2 23604 hgsc.bcm.edu hg19 15 64275877 64275877 + Missense_Mutation SNP G G A novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . DAPK2 NM_014326 exon3 c.C169T p.R57W TCTGCCGCTTCTT . 108.0 20.0 39.0 0.0 . 31 . . Atlas-SNP DPP8 54878 hgsc.bcm.edu hg19 15 65739300 65739300 + Silent SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . DPP8 NM_197960 exon21 c.A2619G p.G873G ATGTTCTCCCGAT . 112.0 5.0 50.0 0.0 . 78 . . Atlas-SNP ANKRD34C 390616 hgsc.bcm.edu hg19 15 79587136 79587136 + Nonsense_Mutation SNP A A T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . ANKRD34C NM_001146341 exon2 c.A1510T p.R504X CCAAAGAGAGTTG . 60.0 36.0 52.0 0.0 . 29 . . Atlas-SNP CPEB1 64506 hgsc.bcm.edu hg19 15 83296065 83296065 + Silent SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . CPEB1 NM_030594 exon2 c.T69C p.A23A GGAGAGAGCAGGT . 87.0 4.0 57.0 0.0 . 114 . . Atlas-SNP SLC28A1 9154 hgsc.bcm.edu hg19 15 85438313 85438313 + Silent SNP C C T rs2277576 TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c SLC28A1_ENST00000338602,NS,carcinoma,0,1 SLC28A1 NM_201651 exon6 c.C420T p.L140L GTTTCTCAAGCCT . 124.0 5.0 67.0 1.0 . 118 . . Atlas-SNP WDR90 197335 hgsc.bcm.edu hg19 16 699822 699822 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . WDR90 NM_145294 exon2 c.T70C p.S24P AAGCGCTCCGCCA . 37.0 4.0 33.0 0.0 . 107 . . Atlas-SNP CCNF 899 hgsc.bcm.edu hg19 16 2487180 2487180 + Missense_Mutation SNP C C T rs138913390 TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . CCNF NM_001761 exon5 c.C397T p.R133C GCCTCTCGCTTCT . 58.0 4.0 47.0 0.0 . 110 . C|1.000;T|0.000 Atlas-SNP OR1F1 4992 hgsc.bcm.edu hg19 16 3254975 3254975 + Silent SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . OR1F1 NM_012360 exon1 c.T729C p.S243S TGGTTCTCACCTG . 83.0 4.0 158.0 0.0 . 36 . . Atlas-SNP ADCY9 115 hgsc.bcm.edu hg19 16 4039054 4039054 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . ADCY9 NM_001116 exon6 c.A2251G p.S751G TCAGGCTGAACTG . 37.0 4.0 54.0 0.0 . 151 . . Atlas-SNP ERCC4 2072 hgsc.bcm.edu hg19 16 14024746 14024746 + Silent SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . ERCC4 NM_005236 exon5 c.A972G p.S324S GAATTCAGGTGGG . 54.0 4.0 66.0 0.0 . 100 . . Atlas-SNP USP31 57478 hgsc.bcm.edu hg19 16 23117594 23117594 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . USP31 NM_020718 exon4 c.A893G p.Q298R TTGCTCTGTTTCT . 113.0 5.0 92.0 0.0 . 122 . . Atlas-SNP ITGAL 3683 hgsc.bcm.edu hg19 16 30507878 30507878 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . ITGAL NM_002209 exon15 c.T1823C p.I608T AGATGATCGTGCT . 119.0 6.0 81.0 0.0 . 149 . . Atlas-SNP ZNF646 9726 hgsc.bcm.edu hg19 16 31088548 31088548 + Silent SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . ZNF646 NM_014699 exon2 c.T903C p.R301R CCCCCGTGTCTTC . 87.0 4.0 58.0 0.0 . 133 . . Atlas-SNP CDH5 1003 hgsc.bcm.edu hg19 16 66423413 66423413 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . CDH5 NM_001795 exon5 c.T769C p.F257L TTCCCCTTCTTCA . 75.0 4.0 84.0 0.0 . 111 . . Atlas-SNP E2F4 1874 hgsc.bcm.edu hg19 16 67229817 67229817 + Missense_Mutation SNP G G A rs140980388 TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . E2F4 NM_001950 exon7 c.G941A p.S314N GCAGCAGCAGCAG . 84.0 15.0 53.0 0.0 . 25 . . Atlas-SNP E2F4 1874 hgsc.bcm.edu hg19 16 67229823 67229823 + Missense_Mutation SNP G G A novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . E2F4 NM_001950 exon7 c.G947A p.S316N GCAGCAGCAGCAG . 89.0 11.0 53.0 0.0 . 25 . . Atlas-SNP KCTD19 146212 hgsc.bcm.edu hg19 16 67337084 67337084 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . KCTD19 NM_001100915 exon4 c.T608C p.L203P TCGATGAGGGCCA . 111.0 5.0 99.0 0.0 . 82 . . Atlas-SNP TSNAXIP1 55815 hgsc.bcm.edu hg19 16 67861436 67861436 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . TSNAXIP1 NM_018430 exon15 c.A1690G p.K564E GATGAGAAGGACG . 85.0 4.0 67.0 0.0 . 66 . . Atlas-SNP EDC4 23644 hgsc.bcm.edu hg19 16 67916365 67916365 + Missense_Mutation SNP G G A novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . EDC4 NM_014329 exon25 c.G3310A p.D1104N GCTGCAGACACAT . 89.0 33.0 70.0 0.0 . 101 . . Atlas-SNP NOB1 28987 hgsc.bcm.edu hg19 16 69783156 69783156 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . NOB1 NM_014062 exon5 c.A485G p.N162S AAAGGGTTTCTCC . 71.0 4.0 51.0 0.0 . 24 . . Atlas-SNP SF3B3 23450 hgsc.bcm.edu hg19 16 70588379 70588379 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . SF3B3 NM_012426 exon12 c.T1433C p.F478S TGTCTTTCGTGAA . 85.0 4.0 73.0 0.0 . 99 . . Atlas-SNP IL34 146433 hgsc.bcm.edu hg19 16 70688456 70688456 + Missense_Mutation SNP T T A novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . IL34 NM_152456 exon3 c.T44A p.L15H TCTTCCTTGGCGT . 190.0 68.0 165.0 0.0 . 26 . . Atlas-SNP FA2H 79152 hgsc.bcm.edu hg19 16 74761274 74761274 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . FA2H NM_024306 exon3 c.A374G p.D125G CGCCAGTCCACCA . 53.0 4.0 41.0 0.0 . 21 . . Atlas-SNP VPS53 55275 hgsc.bcm.edu hg19 17 465918 465918 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . VPS53 NM_001128159 exon14 c.A1381G p.T461A CATCAGTGTTGGG . 80.0 4.0 81.0 0.0 . 109 . . Atlas-SNP FLII 2314 hgsc.bcm.edu hg19 17 18148691 18148691 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . FLII NM_002018 exon29 c.A3652G p.K1218E TCAGCTTGATCTC . 120.0 5.0 51.0 0.0 . 79 . . Atlas-SNP KIAA0100 9703 hgsc.bcm.edu hg19 17 26961916 26961916 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . KIAA0100 NM_014680 exon16 c.A2689G p.M897V CCTTCATCAGCTC . 74.0 5.0 50.0 0.0 . 175 . . Atlas-SNP SLFN12L 100506736 hgsc.bcm.edu hg19 17 33807038 33807038 + Missense_Mutation SNP C C A novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . SLFN12L NM_001195790 exon2 c.G191T p.R64L ACAGCTCGTGAGA . 163.0 71.0 144.0 0.0 . 140 . . Atlas-SNP ACACA 31 hgsc.bcm.edu hg19 17 35766386 35766386 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . ACACA NM_198834 exon1 c.T4C p.W2R ACCACCACATCCT . 85.0 4.0 85.0 0.0 . 395 . . Atlas-SNP GHDC 84514 hgsc.bcm.edu hg19 17 40342899 40342899 + Nonsense_Mutation SNP G G A novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . GHDC NM_001142623 exon7 c.C1105T p.R369X CCACTCGCACCAC . 55.0 25.0 59.0 0.0 . 63 . . Atlas-SNP STAT3 6774 hgsc.bcm.edu hg19 17 40500452 40500452 + Missense_Mutation SNP A A T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . STAT3 NM_003150 exon2 c.T83A p.M28K AGCTCCATTGGGA . 110.0 50.0 106.0 0.0 . 268 . . Atlas-SNP VEZF1 7716 hgsc.bcm.edu hg19 17 56056598 56056598 + Silent SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . VEZF1 NM_007146 exon5 c.A1053G p.Q351Q TTGTTGTTGTTGT . 142.0 10.0 123.0 0.0 . 50 . . Atlas-SNP VEZF1 7716 hgsc.bcm.edu hg19 17 56056601 56056601 + Silent SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . VEZF1 NM_007146 exon5 c.A1050G p.Q350Q TTGTTGTTGTTGC . 142.0 13.0 118.0 0.0 . 50 . . Atlas-SNP MPO 4353 hgsc.bcm.edu hg19 17 56350840 56350840 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . MPO NM_000250 exon9 c.T1556C p.M519T GGTTCCATGGGCT . 61.0 5.0 42.0 0.0 . 114 . . Atlas-SNP MPO 4353 hgsc.bcm.edu hg19 17 56350841 56350841 + Missense_Mutation SNP T T G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . MPO NM_000250 exon9 c.A1555C p.M519L GTTCCATGGGCTG . 62.0 6.0 43.0 0.0 . 114 . . Atlas-SNP PRR11 55771 hgsc.bcm.edu hg19 17 57247212 57247212 + Silent SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . PRR11 NM_018304 exon2 c.A99G p.T33T AATTACACCTCCT . 129.0 6.0 122.0 0.0 . 36 . . Atlas-SNP INTS2 57508 hgsc.bcm.edu hg19 17 59984985 59984985 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . INTS2 NM_020748 exon8 c.A989G p.E330G CTGGTCTCTCTTT . 121.0 5.0 96.0 0.0 . 89 . . Atlas-SNP ABCA8 10351 hgsc.bcm.edu hg19 17 66879991 66879991 + Silent SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . ABCA8 NM_007168 exon27 c.T3528C p.T1176T TCGAAGAGTAAAA . 111.0 5.0 104.0 0.0 . 213 . . Atlas-SNP SOX9 6662 hgsc.bcm.edu hg19 17 70120374 70120374 + Missense_Mutation SNP G G T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . SOX9 NM_000346 exon3 c.G1376T p.G459V GCCAGGGCACCGG . 77.0 33.0 67.0 0.0 . 91 . . Atlas-SNP SMCHD1 23347 hgsc.bcm.edu hg19 18 2738452 2738452 + Missense_Mutation SNP G G A novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . SMCHD1 NM_015295 exon26 c.G3334A p.V1112M CCTGATGTGCAAG . 82.0 4.0 88.0 0.0 . 88 . . Atlas-SNP ANKRD12 23253 hgsc.bcm.edu hg19 18 9255794 9255794 + Silent SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . ANKRD12 NM_015208 exon9 c.A2529G p.K843K TGAAAAAGAAAAG . 86.0 4.0 66.0 0.0 . 167 . . Atlas-SNP PSMG2 56984 hgsc.bcm.edu hg19 18 12718587 12718587 + Silent SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . PSMG2 NM_020232 exon4 c.T360C p.V120V CATTGTTCTTTCA . 84.0 4.0 75.0 0.0 . 17 . . Atlas-SNP RIOK3 8780 hgsc.bcm.edu hg19 18 21061218 21061218 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . RIOK3 NM_003831 exon13 c.A1535G p.D512G ATGGAGACCCACC . 65.0 4.0 49.0 0.0 . 42 . . Atlas-SNP NEDD4L 23327 hgsc.bcm.edu hg19 18 56008984 56008984 + Silent SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . NEDD4L NM_001144967 exon15 c.T1332C p.P444P CCGGCCTCGTAGC . 90.0 4.0 84.0 0.0 . 126 . . Atlas-SNP PHLPP1 23239 hgsc.bcm.edu hg19 18 60563017 60563017 + Silent SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . PHLPP1 NM_194449 exon6 c.A2217G p.L739L TAGCTTACAGACA . 56.0 4.0 63.0 0.0 . 164 . . Atlas-SNP SERPINB12 89777 hgsc.bcm.edu hg19 18 61232745 61232745 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . SERPINB12 NM_080474 exon6 c.T713C p.V238A AGGAGGTGAAGGC . 62.0 6.0 53.0 0.0 . 55 . . Atlas-SNP DOT1L 84444 hgsc.bcm.edu hg19 19 2216382 2216382 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . DOT1L NM_032482 exon20 c.A2026G p.K676E CGTGGGAAGGGCG . 106.0 5.0 70.0 0.0 . 205 . . Atlas-SNP MPND 84954 hgsc.bcm.edu hg19 19 4345914 4345914 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . MPND NM_032868 exon3 c.A467G p.D156G AACTGGACAAGTA . 116.0 5.0 89.0 0.0 . 28 . . Atlas-SNP TICAM1 148022 hgsc.bcm.edu hg19 19 4817286 4817286 + Silent SNP T T A novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . TICAM1 NM_182919 exon2 c.A1104T p.S368S AGTAGATGAAGGA . 193.0 10.0 166.0 0.0 . 69 . . Atlas-SNP CATSPERD 257062 hgsc.bcm.edu hg19 19 5737210 5737210 + Silent SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . . NM_152784 exon6 c.T453C p.F151F TTTGTTTTGTGTG . 60.0 4.0 77.0 0.0 . . . . Atlas-SNP COL5A3 50509 hgsc.bcm.edu hg19 19 10112330 10112330 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . COL5A3 NM_015719 exon8 c.A980G p.D327G CCACTGTCAGGGT . 99.0 39.0 71.0 0.0 . 243 . . Atlas-SNP ZNF709 163051 hgsc.bcm.edu hg19 19 12575010 12575010 + Nonsense_Mutation SNP G G A novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . ZNF709 NM_152601 exon4 c.C1726T p.R576X GCATTCGAACAGA . 72.0 4.0 57.0 0.0 . 80 . . Atlas-SNP NOTCH3 4854 hgsc.bcm.edu hg19 19 15302655 15302655 + Missense_Mutation SNP C C T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . NOTCH3 NM_000435 exon5 c.G703A p.V235M CGTTCACTTCACA . 99.0 4.0 95.0 0.0 . 340 . . Atlas-SNP MED26 9441 hgsc.bcm.edu hg19 19 16687921 16687921 + Silent SNP T T C rs372755647 TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . MED26 NM_004831 exon3 c.A720G p.G240G GCAGGGTCCAGGG . 99.0 4.0 66.0 0.0 . 25 . . Atlas-SNP PDE4C 5143 hgsc.bcm.edu hg19 19 18333125 18333125 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . PDE4C NM_000923 exon3 c.T251C p.L84P TTTTCCAGGTCAA . 66.0 4.0 38.0 0.0 . 80 . . Atlas-SNP MAU2 23383 hgsc.bcm.edu hg19 19 19466193 19466193 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . MAU2 NM_015329 exon18 c.T1760C p.L587P ACAACCTCATCAC . 57.0 4.0 33.0 0.0 . 38 . . Atlas-SNP ZNF566 84924 hgsc.bcm.edu hg19 19 36940828 36940828 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . ZNF566 NM_001145343 exon5 c.A311G p.E104G ATTATTTCCCACT . 95.0 4.0 120.0 0.0 . 40 . . Atlas-SNP ZNF573 126231 hgsc.bcm.edu hg19 19 38229627 38229627 + Silent SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c ZNF573,NS,carcinoma,0,1 ZNF573 NM_001172690 exon5 c.A1764G p.G588G GGCCTTTCCACAT . 49.0 2.0 61.0 0.0 . 63 . . Atlas-SNP PAPL 0 hgsc.bcm.edu hg19 19 39591791 39591791 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . . NM_001004318 exon9 c.T917C p.V306A CCCAGGTCCGCAA . 26.0 4.0 20.0 0.0 . . . . Atlas-SNP PSMC4 5704 hgsc.bcm.edu hg19 19 40486011 40486011 + Silent SNP G G A novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . PSMC4 NM_006503 exon8 c.G876A p.L292L GGAGCTGCTGAAT . 259.0 108.0 224.0 0.0 . 48 . . Atlas-SNP LYPD5 284348 hgsc.bcm.edu hg19 19 44306520 44306520 + Missense_Mutation SNP C C T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c LYPD5_ENST00000377950,colon,carcinoma,0,1 LYPD5 NM_001031749 exon1 c.G13A p.V5I TGGGGACCCCCAT . 92.0 4.0 59.0 0.0 . 22 . . Atlas-SNP HRC 3270 hgsc.bcm.edu hg19 19 49657916 49657916 + Silent SNP T T C rs7409255 TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . HRC NM_002152 exon1 c.A579G p.E193E CTCCTCTTCTCCT . 157.0 12.0 88.0 0.0 . 85 . . Atlas-SNP PRR12 57479 hgsc.bcm.edu hg19 19 50100971 50100971 + Missense_Mutation SNP A A T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . PRR12 NM_020719 exon4 c.A3379T p.S1127C GTCTCCAGCTGCC . 109.0 43.0 58.0 0.0 . 157 . . Atlas-SNP SIGLEC5 8778 hgsc.bcm.edu hg19 19 52130941 52130941 + Silent SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . SIGLEC5 NM_003830 exon6 c.A1056G p.R352R GGAGCATCTGCAG . 34.0 13.0 29.0 0.0 . 67 . . Atlas-SNP ZNF665 79788 hgsc.bcm.edu hg19 19 53668046 53668046 + Missense_Mutation SNP C C T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c ZNF665,NS,carcinoma,0,1 ZNF665 NM_024733 exon4 c.G1697A p.G566D TTCTCACCAGTGT . 71.0 3.0 77.0 0.0 . 136 . . Atlas-SNP VN1R2 317701 hgsc.bcm.edu hg19 19 53762214 53762214 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . VN1R2 NM_173856 exon1 c.T586C p.S196P AGGAACTCCAGGT . 112.0 6.0 66.0 0.0 . 71 . . Atlas-SNP TMEM150B 284417 hgsc.bcm.edu hg19 19 55832397 55832397 + Missense_Mutation SNP C C A novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . TMEM150B NM_001085488 exon3 c.G8T p.G3V AGGTAGCCCCACA . 163.0 78.0 126.0 0.0 . 19 . . Atlas-SNP ZNF446 55663 hgsc.bcm.edu hg19 19 58991708 58991708 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . ZNF446 NM_017908 exon7 c.A968G p.E323G GACTGGAGCCGGC . 58.0 4.0 80.0 0.0 . 22 . . Atlas-SNP TRIM28 10155 hgsc.bcm.edu hg19 19 59061183 59061183 + Missense_Mutation SNP G G T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . TRIM28 NM_005762 exon14 c.G2062T p.D688Y GGTGCAGACAGCA . 39.0 33.0 75.0 0.0 . 46 . . Atlas-SNP NSFL1C 55968 hgsc.bcm.edu hg19 20 1434946 1434946 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . NSFL1C NM_016143 exon5 c.T449C p.F150S CCTGCAAATGGCT . 79.0 5.0 56.0 0.0 . 38 . . Atlas-SNP PTPRA 5786 hgsc.bcm.edu hg19 20 3007357 3007357 + Missense_Mutation SNP A A T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . PTPRA NM_002836 exon22 c.A1639T p.N547Y ATCCAGAATGACA . 107.0 49.0 68.0 0.0 . 75 . . Atlas-SNP ABHD12 26090 hgsc.bcm.edu hg19 20 25300910 25300910 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . ABHD12 NM_001042472 exon4 c.A467G p.D156G ATCTGGTCTTTGC . 81.0 4.0 64.0 0.0 . 46 . . Atlas-SNP MYH7B 57644 hgsc.bcm.edu hg19 20 33575459 33575459 + Missense_Mutation SNP A A T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . MYH7B NM_020884 exon17 c.A1373T p.K458M TGACCAAGGGCCA . 141.0 32.0 70.0 0.0 . 145 . . Atlas-SNP RBM12 10137 hgsc.bcm.edu hg19 20 34240764 34240764 + Silent SNP A A G rs201125389 TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c RBM12,rectum,NS,0,2 RBM12 NM_001198840 exon2 c.T2481C p.P827P GGGGCCAGGCCCA . 83.0 4.0 43.0 0.0 . 93 . A|0.996;G|0.004 Atlas-SNP CNBD2 140894 hgsc.bcm.edu hg19 20 34611572 34611572 + Silent SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . . NM_080834 exon11 c.T1306C p.L436L CGACCCTTGATCC . 95.0 4.0 71.0 0.0 . . . . Atlas-SNP WFDC13 164237 hgsc.bcm.edu hg19 20 44334544 44334544 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . WFDC13 NM_172005 exon3 c.A282G p.X94W CAACTGAGGCATA . 96.0 4.0 58.0 0.0 . 6 . . Atlas-SNP USP25 29761 hgsc.bcm.edu hg19 21 17163836 17163836 + Silent SNP C C T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c USP25,colon,carcinoma,0,1 USP25 NM_013396 exon5 c.C408T p.S136S AGCCAGCATAGCA . 60.0 4.0 62.0 0.0 . 156 . . Atlas-SNP LTN1 26046 hgsc.bcm.edu hg19 21 30329699 30329699 + Silent SNP C C T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . LTN1 NM_015565 exon15 c.G2985A p.P995P GTCGTTCGGCATT . 68.0 4.0 64.0 0.0 . 141 . . Atlas-SNP CLIC6 54102 hgsc.bcm.edu hg19 21 36081737 36081737 + Silent SNP C C T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . CLIC6 NM_053277 exon5 c.C1800T p.Y600Y TGCCTACAGCACC . 61.0 4.0 52.0 0.0 . 49 . . Atlas-SNP PRDM15 63977 hgsc.bcm.edu hg19 21 43223051 43223051 + Missense_Mutation SNP C C T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . PRDM15 NM_022115 exon30 c.G3862A p.A1288T CTTCGGCCAAATC . 58.0 4.0 29.0 0.0 . 110 . . Atlas-SNP PCNT 5116 hgsc.bcm.edu hg19 21 47783761 47783761 + Missense_Mutation SNP C C T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . PCNT NM_006031 exon14 c.C2521T p.R841W TGTGGGCGGGAGC . 82.0 41.0 74.0 0.0 . 283 . . Atlas-SNP SERPIND1 3053 hgsc.bcm.edu hg19 22 21138492 21138492 + Silent SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . SERPIND1 NM_000185 exon3 c.A1122G p.T374T ACTGACACCCCGG . 78.0 4.0 57.0 0.0 . 92 . . Atlas-SNP THAP7 80764 hgsc.bcm.edu hg19 22 21354195 21354195 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . THAP7 NM_030573 exon4 c.A904G p.M302V GCTGCATGGCAAA . 88.0 4.0 67.0 0.0 . 15 . . Atlas-SNP UBE2L3 7332 hgsc.bcm.edu hg19 22 21922044 21922044 + Missense_Mutation SNP G G T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . UBE2L3 NM_003347 exon1 c.G11T p.S4I CGGCCAGCAGGAG . 153.0 57.0 141.0 0.0 . 11 . . Atlas-SNP PLA2G3 50487 hgsc.bcm.edu hg19 22 31531911 31531911 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . PLA2G3 NM_015715 exon7 c.A1328G p.D443G CTAGGGTCTCTGG . 72.0 4.0 38.0 0.0 . 85 . . Atlas-SNP SEPT3 55964 hgsc.bcm.edu hg19 22 42392914 42392914 + Silent SNP C C T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . SEPT3 NM_145733 exon11 c.C1020T p.G340G AGAAGGCCTCCTG . 88.0 4.0 90.0 0.0 . 53 . . Atlas-SNP TCF20 6942 hgsc.bcm.edu hg19 22 42610352 42610352 + Silent SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . TCF20 NM_181492 exon1 c.A960G p.Q320Q TTGTTGTTGCTGC . 193.0 9.0 128.0 0.0 . 164 . . Atlas-SNP LDOC1L 84247 hgsc.bcm.edu hg19 22 44892949 44892949 + Missense_Mutation SNP C C T rs374819770 TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . LDOC1L NM_032287 exon2 c.G488A p.R163H TTGTTGCGCAAGG . 98.0 36.0 78.0 0.0 . 24 . . Atlas-SNP TYMP 1890 hgsc.bcm.edu hg19 22 50967939 50967939 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . TYMP NM_001257989 exon2 c.A200G p.Q67R GCGCCCTGCGCGC . 96.0 4.0 103.0 0.0 . 25 . . Atlas-SNP ASMTL 8623 hgsc.bcm.edu hg19 X 1522164 1522164 + Missense_Mutation SNP A A C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . ASMTL NM_004192 exon13 c.T1864G p.X622G GGCTTCAGGGGGC . 81.0 8.0 66.0 0.0 . 56 . . Atlas-SNP PRKX 5613 hgsc.bcm.edu hg19 X 3631158 3631158 + Missense_Mutation SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . PRKX NM_005044 exon1 c.T137C p.L46P TCCTGCAGGCTGT . 74.0 4.0 38.0 0.0 . 29 . . Atlas-SNP RBBP7 5931 hgsc.bcm.edu hg19 X 16876930 16876930 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . RBBP7 NM_001198719 exon4 c.A482G p.E161G TTAATTTCACATT . 91.0 4.0 87.0 0.0 . 58 . . Atlas-SNP YY2 404281 hgsc.bcm.edu hg19 X 21875262 21875262 + Silent SNP T T A novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . YY2 NM_206923 exon1 c.T660A p.P220P ACTTCCTCCTGGG . 110.0 46.0 87.0 0.0 . 43 . . Atlas-SNP RLIM 51132 hgsc.bcm.edu hg19 X 73814206 73814206 + Missense_Mutation SNP T T A novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . RLIM NM_183353 exon4 c.A188T p.E63V AGCAACTCTTCCT . 108.0 34.0 94.0 0.0 . 90 . . Atlas-SNP ATRX 546 hgsc.bcm.edu hg19 X 76812950 76812950 + Missense_Mutation SNP T T C novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . ATRX NM_000489 exon30 c.A6671G p.K2224R CTCTTCTTCTTCT . 98.0 4.0 80.0 0.0 . 833 . . Atlas-SNP ATRX 546 hgsc.bcm.edu hg19 X 76856034 76856034 + Splice_Site SNP C C T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . ATRX NM_000489 exon24 c.5567-1G>A . CCACACCTGATCA . 104.0 47.0 92.0 0.0 . 833 . . Atlas-SNP GPR119 139760 hgsc.bcm.edu hg19 X 129518585 129518585 + Silent SNP A A G novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . GPR119 NM_178471 exon1 c.T837C p.Y279Y ATAGGCATAGATG . 95.0 6.0 133.0 0.0 . 34 . . Atlas-SNP ND6 0 hgsc.bcm.edu hg19 MT 14604 14604 + Missense_Mutation SNP A A T novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . . ENST00000361681 exon1 c.T70A p.S24T TAGGAGAAGGCTT . 18.0 10.0 27.0 0.0 . . . . Atlas-SNP SLITRK6 84189 hgsc.bcm.edu hg19 13 86369191 86369191 + Frame_Shift_Del DEL T T - novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . SLITRK6 NM_032229 exon2 c.1454delC p.T485fs . . 62.0 53.0 60.0 0.0 . 150 . . Atlas-Indel,Pindel INPP5A 3632 hgsc.bcm.edu hg19 10 134523851 134523851 + Frame_Shift_Del DEL T T - novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . INPP5A NM_005539 exon8 c.537delC p.D179fs . . 137.0 55.0 99.0 0.0 . 77 . . Atlas-Indel,Pindel HNF4G 3174 hgsc.bcm.edu hg19 8 76456117 76456118 + Frame_Shift_Ins INS - - ACAGAGC novel TCGA-BC-A3KF-01A-11D-A20W-10 TCGA-BC-A3KF-10A-01D-A20W-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 5df8ad51-b7d4-46a0-a522-f6c9a38067ff 90e68f39-b72a-45ea-85ff-92e633f5c29c . HNF4G NM_004133 exon2 c.160_161insACAGAGC p.D54fs . . 130.0 12.0 0.0 0.0 . 111 . . Pindel