Hugo_Symbol Entrez_Gene_Id Center NCBI_Build Chromosome Start_position End_position Strand Variant_Classification Variant_Type Reference_Allele Tumor_Seq_Allele1 Tumor_Seq_Allele2 dbSNP_RS dbSNP_Val_Status Tumor_Sample_Barcode Matched_Norm_Sample_Barcode Match_Norm_Seq_Allele1 Match_Norm_Seq_Allele2 Tumor_Validation_Allele1 Tumor_Validation_Allele2 Match_Norm_Validation_Allele1 Match_Norm_Validation_Allele2 Verification_Status Validation_Status Mutation_Status Sequencing_Phase Sequence_Source Validation_Method Score BAM_File Sequencer Tumor_Sample_UUID Matched_Norm_Sample_UUID COSMIC_Codon COSMIC_Gene Transcript_Id Exon ChromChange AAChange Genome_Plus_Minus_10_Bp Drug_Target TTotCov TVarCov NTotCov NVarCov dbSNPPopFreq COSMIC_Gene_Freq COSMIC_Site_Freq TVarRat NVarRat dbSNP_Strength dbSNP_AF dbSNP_PopFreq Confidence Algorithm ANGPTL3 27329 hgsc.bcm.edu hg19 1 63066787 63066787 + Silent SNP T T A novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . ANGPTL3 NM_014495 exon3 c.A641A p.K214K CAGAAATTTCTCT . 128.0 18.0 142.0 0.0 . 42 . . . none . . PASS Atlas-SNP ANKRD35 148741 hgsc.bcm.edu hg19 1 145562384 145562384 + Missense_Mutation SNP G G C novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . ANKRD35 NM_144698 exon10 c.G2072C p.R691P AGCTGCGGAAGCT . 49.0 7.0 61.0 0.0 . 96 . . . none . . PASS Atlas-SNP ATP1B1 481 hgsc.bcm.edu hg19 1 169094257 169094257 + Missense_Mutation SNP T T G novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . ATP1B1 NM_001677 exon3 c.T362G p.M121R ATGACATGATTTT . 320.0 60.0 302.0 0.0 . 29 . . . none . . PASS Atlas-SNP ARID4B 51742 hgsc.bcm.edu hg19 1 235386544 235386544 + Silent SNP T T C novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . ARID4B NM_016374 exon13 c.A1002G p.G334G TCGATATCCAAGT . 42.0 6.0 48.0 0.0 . 142 . . . none . . PASS Atlas-SNP PSME4 23198 hgsc.bcm.edu hg19 2 54135515 54135515 + Missense_Mutation SNP T T C novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . PSME4 NM_014614 exon24 c.A2726G p.H909R AATTCATGCTTGT . 46.0 8.0 62.0 0.0 . 247 . . . none . . PASS Atlas-SNP PCBP1 5093 hgsc.bcm.edu hg19 2 70314950 70314950 + Silent SNP A A G novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . PCBP1 NM_006196 exon1 c.A75G p.V25V GGAAGTAGGAAGC . 164.0 40.0 176.0 0.0 . 28 . . . none . . PASS Atlas-SNP SCN1A 6323 hgsc.bcm.edu hg19 2 166915109 166915109 + Silent SNP C C T rs121917959 alternate_allele TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . SCN1A NM_001165964 exon2 c.G354A p.R118R TATTTTCCTAAGA . 95.0 13.0 80.0 0.0 . 641 . . . alt . . PASS Atlas-SNP UBR3 130507 hgsc.bcm.edu hg19 2 170815017 170815017 + Missense_Mutation SNP G G A novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . UBR3 NM_172070 exon24 c.G3615A p.M1205I CTTTATGGAAACT . 134.0 26.0 123.0 0.0 . 182 . . . none . . PASS Atlas-SNP SSFA2 6744 hgsc.bcm.edu hg19 2 182765433 182765433 + Silent SNP T T C novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . SSFA2 NM_001130445 exon7 c.T514C p.L172L TCAGAATTGTTGG . 103.0 18.0 99.0 0.0 . 130 . . . none . . PASS Atlas-SNP GLS 2744 hgsc.bcm.edu hg19 2 191797555 191797555 + Silent SNP A A G novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . GLS NM_001256310 exon15 c.A1764G p.V588V TGTAGTATATAGA . 64.0 13.0 51.0 0.0 . 47 . . . none . . PASS Atlas-SNP AOX1 316 hgsc.bcm.edu hg19 2 201478584 201478584 + Silent SNP C C T novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . AOX1 NM_001159 exon15 c.C1506T p.S502S AGTCTCCCTTTTG . 76.0 17.0 71.0 0.0 . 152 . . . none . . PASS Atlas-SNP DNAJB3 414061 hgsc.bcm.edu hg19 2 234652372 234652372 + Missense_Mutation SNP A A G novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . . NM_001001394 exon1 c.T191C p.I64T TCATAGATATCGC . 239.0 37.0 254.0 0.0 . . . . . none . . PASS Atlas-SNP COL6A3 1293 hgsc.bcm.edu hg19 2 238234213 238234213 + Silent SNP A A T novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . COL6A3 NM_004369 exon43 c.T9483A p.V3161V AGCGCAAACCTTT . 231.0 53.0 224.0 0.0 . 608 . . . none . . PASS Atlas-SNP PER2 8864 hgsc.bcm.edu hg19 2 239184526 239184526 + Silent SNP A A C novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . PER2 NM_022817 exon4 c.T306G p.S102S TTTCGAAGACTGG . 116.0 19.0 110.0 0.0 . 85 . . . none . . PASS Atlas-SNP NDUFB5 4711 hgsc.bcm.edu hg19 3 179334831 179334831 + Missense_Mutation SNP A A C novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . NDUFB5 NM_002492 exon4 c.A341C p.K114T ATTATAAGGTTTG . 76.0 28.0 77.0 0.0 . 22 . . . none . . PASS Atlas-SNP ANKRD17 26057 hgsc.bcm.edu hg19 4 74014608 74014608 + Missense_Mutation SNP T T A novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . ANKRD17 NM_198889 exon8 c.A1489T p.N497Y CATCATTGACCTC . 90.0 15.0 91.0 0.0 . 214 . . . none . . PASS Atlas-SNP SCD5 79966 hgsc.bcm.edu hg19 4 83719607 83719607 + Missense_Mutation SNP C C G novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 SCD5_ENST00000273908,NS,carcinoma,0,2 SCD5 NM_024906 exon1 c.G84C p.E28D GCCGCCCTCAGAG . 39.0 5.0 33.0 0.0 . 58 . . . none . . PASS Atlas-SNP GUCY1B3 2983 hgsc.bcm.edu hg19 4 156725753 156725753 + Missense_Mutation SNP A A G novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 GUCY1B3,colon,carcinoma,0,1 GUCY1B3 NM_000857 exon12 c.A1563G p.I521M AACAATAGGGATA . 165.0 21.0 161.0 0.0 . 65 . . . none . . PASS Atlas-SNP CCDC110 256309 hgsc.bcm.edu hg19 4 186380443 186380443 + Missense_Mutation SNP T T A novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . CCDC110 NM_152775 exon6 c.A1298T p.N433I AGGTAATTCTGTA . 261.0 51.0 285.0 0.0 . 78 . . . none . . PASS Atlas-SNP PDZD2 23037 hgsc.bcm.edu hg19 5 31983432 31983432 + Silent SNP C C G novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . PDZD2 NM_178140 exon2 c.C648G p.T216T ACGAACCAGAAAG . 138.0 30.0 149.0 0.0 . 306 . . . none . . PASS Atlas-SNP ISL1 3670 hgsc.bcm.edu hg19 5 50683584 50683584 + Splice_Site SNP G G T novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . ISL1 NM_002202 exon3 c.478+1G>T . TGGCAGGTACTCC . 51.0 18.0 43.0 0.0 . 65 . . . none . . PASS Atlas-SNP ZNF366 167465 hgsc.bcm.edu hg19 5 71739940 71739940 + Nonsense_Mutation SNP G G C rs373642159 alternate_allele TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 ZNF366,NS,carcinoma,0,1 ZNF366 NM_152625 exon5 c.C1878G p.Y626X CACCTCGTAGCAG . 372.0 65.0 343.0 0.0 . 108 . . . alt . . PASS Atlas-SNP PCDHA8 56140 hgsc.bcm.edu hg19 5 140222316 140222316 + Silent SNP G G C rs202126810 alternate_allele TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 PCDHA8_ENST00000531613,rectum,carcinoma,0,2 PCDHA8 NM_031856 exon1 c.G1410C p.P470P CCCGCCGGGCTGC . 123.0 16.0 139.0 0.0 . 366 . . . alt G|0.999;T|0.001 . PASS Atlas-SNP ARHGAP26 23092 hgsc.bcm.edu hg19 5 142513635 142513635 + Missense_Mutation SNP T T A novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . ARHGAP26 NM_015071 exon19 c.T1802A p.L601Q GGCCCCTGACGCT . 187.0 31.0 188.0 0.0 . 57 . . . none . . PASS Atlas-SNP RBM27 54439 hgsc.bcm.edu hg19 5 145641187 145641187 + Missense_Mutation SNP T T G novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . RBM27 NM_018989 exon13 c.T2008G p.L670V CGAGTCTTGTGGC . 229.0 34.0 176.0 0.0 . 119 . . . none . . PASS Atlas-SNP CPEB4 80315 hgsc.bcm.edu hg19 5 173370039 173370039 + Nonsense_Mutation SNP T T G novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . CPEB4 NM_030627 exon4 c.T1269G p.Y423X GACATATGGGCGA . 328.0 44.0 266.0 0.0 . 54 . . . none . . PASS Atlas-SNP MAK 4117 hgsc.bcm.edu hg19 6 10796389 10796389 + Missense_Mutation SNP C C G rs201812469 bycluster;by1000genomes;alternate_allele TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . MAK NM_005906 exon9 c.G985C p.D329H CCTGATCGATTAT . 130.0 26.0 142.0 0.0 . 47 . . . alt C|1.000;T|0.000 . PASS Atlas-SNP MDC1 9656 hgsc.bcm.edu hg19 6 30679993 30679993 + Missense_Mutation SNP C C T novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 MDC1_ENST00000376406,NS,carcinoma,0,1 MDC1 NM_014641 exon5 c.G1726A p.D576N CACAGTCCCCATG . 63.0 15.0 74.0 0.0 . 218 . . . none . . PASS Atlas-SNP SLC39A7 7922 hgsc.bcm.edu hg19 6 33169242 33169242 + Missense_Mutation SNP G G C novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . SLC39A7 NM_006979 exon1 c.G220C p.G74R TGGCATGGACATA . 100.0 21.0 115.0 0.0 . 32 . . . none . . PASS Atlas-SNP FIG4 9896 hgsc.bcm.edu hg19 6 110086287 110086287 + Missense_Mutation SNP A A T novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . FIG4 NM_014845 exon14 c.A1506T p.K502N GGGAAAATGTGCT . 135.0 25.0 114.0 0.0 . 77 . . . none . . PASS Atlas-SNP AGR2 10551 hgsc.bcm.edu hg19 7 16837318 16837318 + Missense_Mutation SNP A A G novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . AGR2 NM_006408 exon6 c.T331C p.Y111H TTTCATACTAAAA . 60.0 14.0 63.0 0.0 . 14 . . . none . . PASS Atlas-SNP AGR2 10551 hgsc.bcm.edu hg19 7 16837319 16837319 + Splice_Site SNP C C A novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . AGR2 NM_006408 exon7 c.331-1G>T . TTCATACTAAAAT . 59.0 13.0 64.0 0.0 . 14 . . . none . . PASS Atlas-SNP ABCB5 340273 hgsc.bcm.edu hg19 7 20778604 20778604 + Splice_Site SNP A A G novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 ABCB5_ENST00000404938,mucosal,malignant_melanoma,0,2 ABCB5 NM_001163941 exon24 c.2868-2A>G . TTTGATAGAGTTT . 48.0 7.0 51.0 0.0 . 357 . . . none . . PASS Atlas-SNP SBDS 51119 hgsc.bcm.edu hg19 7 66459200 66459200 + Missense_Mutation SNP T T C novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . SBDS NM_016038 exon2 c.A257G p.Q86R CCCACCTGCTTAC . 188.0 33.0 151.0 0.0 . 20 . . . none . . PASS Atlas-SNP GPR22 2845 hgsc.bcm.edu hg19 7 107115465 107115465 + Silent SNP T T A novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . GPR22 NM_005295 exon3 c.T960A p.S320S TATTTCTACATTT . 116.0 22.0 129.0 0.0 . 43 . . . none . . PASS Atlas-SNP IQUB 154865 hgsc.bcm.edu hg19 7 123136764 123136764 + Missense_Mutation SNP T T C novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . IQUB NM_178827 exon7 c.A1220G p.Y407C GCATTATAAAGAA . 84.0 17.0 85.0 0.0 . 117 . . . none . . PASS Atlas-SNP BRAF 673 hgsc.bcm.edu hg19 7 140453193 140453193 + Missense_Mutation SNP T T C rs121913370 TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 BRAF,NS,malignant_melanoma,0,16 BRAF NM_004333 exon15 c.A1742G p.N581S AATATATCTGAGG . 106.0 18.0 104.0 0.0 . 36346 . . . weak . . PASS Atlas-SNP KIF27 55582 hgsc.bcm.edu hg19 9 86485505 86485505 + Nonsense_Mutation SNP T T A novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . KIF27 NM_017576 exon12 c.A2686T p.K896X CAGCTTTCGGTTT . 143.0 18.0 128.0 0.0 . 103 . . . none . . PASS Atlas-SNP DAPK1 1612 hgsc.bcm.edu hg19 9 90254289 90254289 + Missense_Mutation SNP G G C novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . DAPK1 NM_004938 exon5 c.G444C p.L148F GCTTTTGGATAGA . 179.0 27.0 165.0 0.0 . 329 . . . none . . PASS Atlas-SNP PSMD5 5711 hgsc.bcm.edu hg19 9 123591454 123591454 + Silent SNP T T C novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . PSMD5 NM_005047 exon5 c.A594G p.E198E TAAAGATTCTGGT . 110.0 17.0 94.0 0.0 . 34 . . . none . . PASS Atlas-SNP SPTAN1 6709 hgsc.bcm.edu hg19 9 131339498 131339498 + Silent SNP T T C novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . SPTAN1 NM_003127 exon7 c.T876C p.A292A TCAGGCTCTGCTT . 203.0 43.0 201.0 0.0 . 266 . . . none . . PASS Atlas-SNP KCNT1 57582 hgsc.bcm.edu hg19 9 138683918 138683918 + Missense_Mutation SNP G G A novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . KCNT1 NM_020822 exon31 c.G3619A p.V1207M GCTCACGTGGCCA . 42.0 7.0 24.0 0.0 . 139 . . . none . . PASS Atlas-SNP RHOBTB1 9886 hgsc.bcm.edu hg19 10 62648933 62648933 + Nonsense_Mutation SNP T T A novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . RHOBTB1 NM_014836 exon6 c.A493T p.R165X CCCCTCTCTTTAT . 122.0 14.0 107.0 0.0 . 61 . . . none . . PASS Atlas-SNP ENTPD7 57089 hgsc.bcm.edu hg19 10 101458575 101458575 + Missense_Mutation SNP G G C novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . ENTPD7 NM_020354 exon10 c.G1295C p.G432A GCATTGGTGGCCG . 69.0 12.0 83.0 0.0 . 44 . . . none . . PASS Atlas-SNP NFKB2 4791 hgsc.bcm.edu hg19 10 104156717 104156717 + Silent SNP C C T novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . NFKB2 NM_001077494 exon6 c.C300T p.D100D CAGTGACCCACCT . 54.0 7.0 53.0 0.0 . 48 . . . none . . PASS Atlas-SNP CCKBR 887 hgsc.bcm.edu hg19 11 6291417 6291417 + Missense_Mutation SNP G G A novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . CCKBR NM_176875 exon3 c.G503A p.R168H AGACGCGCTCCCA . 51.0 11.0 52.0 0.0 . 232 . . . none . . PASS Atlas-SNP MAPK8IP1 9479 hgsc.bcm.edu hg19 11 45926284 45926284 + Missense_Mutation SNP C C T novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 MAPK8IP1,NS,carcinoma,0,1 MAPK8IP1 NM_005456 exon9 c.C1792T p.R598W ACCCGCCGGCTCA . 116.0 21.0 149.0 0.0 . 51 . . . none . . PASS Atlas-SNP MADD 8567 hgsc.bcm.edu hg19 11 47345285 47345285 + Missense_Mutation SNP G G C novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . MADD NM_130475 exon31 c.G4441C p.E1481Q TGGTACGAGAAGC . 96.0 18.0 88.0 0.0 . 172 . . . none . . PASS Atlas-SNP OR5D14 219436 hgsc.bcm.edu hg19 11 55563325 55563325 + Missense_Mutation SNP C C A novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . OR5D14 NM_001004735 exon1 c.C294A p.S98R CTTTAGCTGCATG . 82.0 7.0 89.0 0.0 . 116 . . . none . . PASS Atlas-SNP OR5D14 219436 hgsc.bcm.edu hg19 11 55563326 55563326 + Missense_Mutation SNP T T A novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . OR5D14 NM_001004735 exon1 c.T295A p.C99S TTTAGCTGCATGA . 81.0 7.0 91.0 0.0 . 116 . . . none . . PASS Atlas-SNP SLC22A10 387775 hgsc.bcm.edu hg19 11 63064875 63064875 + Missense_Mutation SNP C C T rs200183991 bycluster TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . SLC22A10 NM_001039752 exon3 c.C607T p.R203C GTACTACGCTTCT . 232.0 31.0 217.0 0.0 . 79 . . . weak . . PASS Atlas-SNP NUMA1 4926 hgsc.bcm.edu hg19 11 71724282 71724282 + Missense_Mutation SNP C C T novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . NUMA1 NM_006185 exon15 c.G4267A p.A1423T GCTGAGCTGTTCG . 123.0 25.0 119.0 0.0 . 142 . . . none . . PASS Atlas-SNP ARHGEF17 9828 hgsc.bcm.edu hg19 11 73021440 73021440 + Missense_Mutation SNP T T C novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . ARHGEF17 NM_014786 exon1 c.T1757C p.I586T CCCTCATCGTCCA . 88.0 13.0 84.0 0.0 . 117 . . . none . . PASS Atlas-SNP GDPD4 220032 hgsc.bcm.edu hg19 11 76944148 76944148 + Silent SNP G G C novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . GDPD4 NM_182833 exon13 c.C1311G p.A437A GCACCAGGCCAGT . 87.0 9.0 83.0 0.0 . 49 . . . none . . PASS Atlas-SNP PCF11 51585 hgsc.bcm.edu hg19 11 82877690 82877690 + Missense_Mutation SNP A A G novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 PCF11_ENST00000298281,NS,carcinoma,0,4 PCF11 NM_015885 exon5 c.A1751G p.N584S AGGAGAATGTAGA . 104.0 20.0 113.0 0.0 . 220 . . . none . . PASS Atlas-SNP CASP4 837 hgsc.bcm.edu hg19 11 104825523 104825523 + Missense_Mutation SNP C C T novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . CASP4 NM_001225 exon2 c.G213A p.M71I AAGAAGCATTTGT . 224.0 37.0 222.0 0.0 . 57 . . . none . . PASS Atlas-SNP FKBP4 2288 hgsc.bcm.edu hg19 12 2909578 2909578 + Silent SNP T T G novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . FKBP4 NM_002014 exon8 c.T867G p.A289A GCAAGCTTTACTA . 58.0 10.0 49.0 0.0 . 29 . . . none . . PASS Atlas-SNP CHD4 1108 hgsc.bcm.edu hg19 12 6707540 6707540 + Nonsense_Mutation SNP G G A novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . CHD4 NM_001273 exon11 c.C1534T p.Q512X GTGGCTGACCCCA . 278.0 43.0 285.0 0.0 . 539 . . . none . . PASS Atlas-SNP RASSF8 11228 hgsc.bcm.edu hg19 12 26217472 26217472 + Missense_Mutation SNP A A T novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . RASSF8 NM_007211 exon4 c.A145T p.T49S AGAGATACTGAAA . 179.0 32.0 164.0 0.0 . 56 . . . none . . PASS Atlas-SNP LRRK2 120892 hgsc.bcm.edu hg19 12 40681240 40681240 + Missense_Mutation SNP A A T novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . LRRK2 NM_198578 exon20 c.A2588T p.N863I ATGGAAATTTTTC . 110.0 22.0 94.0 0.0 . 763 . . . none . . PASS Atlas-SNP PRICKLE1 144165 hgsc.bcm.edu hg19 12 42858293 42858293 + Nonsense_Mutation SNP G G A novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . PRICKLE1 NM_001144882 exon7 c.C1543T p.Q515X ACCACTGTGTTTC . 157.0 29.0 131.0 0.0 . 105 . . . none . . PASS Atlas-SNP SCAF11 9169 hgsc.bcm.edu hg19 12 46318586 46318586 + Silent SNP T T A novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . SCAF11 NM_004719 exon12 c.A3831T p.P1277P TGGTGGTGGTAGT . 92.0 18.0 127.0 0.0 . 145 . . . none . . PASS Atlas-SNP MBD6 114785 hgsc.bcm.edu hg19 12 57922959 57922959 + Missense_Mutation SNP C C T novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . MBD6 NM_052897 exon13 c.C2954T p.P985L CTCTGCCTCCCCG . 93.0 23.0 121.0 0.0 . 99 . . . none . . PASS Atlas-SNP USP15 9958 hgsc.bcm.edu hg19 12 62795034 62795034 + Silent SNP T T A novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . USP15 NM_001252078 exon21 c.T2742A p.T914T CTCCACTGCATCT . 71.0 17.0 82.0 0.0 . 105 . . . none . . PASS Atlas-SNP ALDH1L2 160428 hgsc.bcm.edu hg19 12 105433493 105433493 + Silent SNP C C T novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . ALDH1L2 NM_001034173 exon17 c.G2043A p.K681K ATACCTCTTCATG . 115.0 17.0 98.0 0.0 . 71 . . . none . . PASS Atlas-SNP PXN 5829 hgsc.bcm.edu hg19 12 120653399 120653399 + Silent SNP G G A rs374919882 TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . PXN NM_001080855 exon7 c.C897T p.G299G CCGCCCGCCGTCC . 75.0 15.0 110.0 0.0 . 69 . . . weak . . PASS Atlas-SNP OR4N5 390437 hgsc.bcm.edu hg19 14 20612708 20612708 + Missense_Mutation SNP T T G novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . OR4N5 NM_001004724 exon1 c.T814G p.S272A GTAGTTTCTCTTT . 437.0 79.0 374.0 0.0 . 72 . . . none . . PASS Atlas-SNP C14orf182 283551 hgsc.bcm.edu hg19 14 50472313 50472313 + Missense_Mutation SNP T T C novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . C14orf182 NM_001012706 exon1 c.A205G p.R69G CGGACCTTGGAGG . 160.0 24.0 183.0 0.0 . 8 . . . none . . PASS Atlas-SNP MLH3 27030 hgsc.bcm.edu hg19 14 75516130 75516130 + Nonsense_Mutation SNP T T A novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . MLH3 NM_014381 exon2 c.A229T p.K77X GGCATTTACTGGT . 100.0 17.0 110.0 0.0 . 200 . . . none . . PASS Atlas-SNP C14orf159 80017 hgsc.bcm.edu hg19 14 91642321 91642321 + Missense_Mutation SNP T T A novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . C14orf159 NM_001102368 exon7 c.T651A p.D217E CGGGGATGCCATG . 102.0 18.0 94.0 0.0 . 57 . . . none . . PASS Atlas-SNP PPP2R5C 5527 hgsc.bcm.edu hg19 14 102323022 102323022 + Splice_Site SNP G G A novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . PPP2R5C NM_001161725 exon4 c.188-1G>A . TTTTCAGATGTTC . 311.0 56.0 353.0 0.0 . 74 . . . none . . PASS Atlas-SNP BAG5 9529 hgsc.bcm.edu hg19 14 104027517 104027517 + Silent SNP A A T novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . BAG5 NM_001015049 exon2 c.T108A p.T36T GTGTTCAGTTTCA . 179.0 34.0 169.0 0.0 . 47 . . . none . . PASS Atlas-SNP SCG3 29106 hgsc.bcm.edu hg19 15 51993377 51993377 + Silent SNP A A G novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . SCG3 NM_013243 exon10 c.A1143G p.G381G ATATGGAAGCTTG . 104.0 24.0 123.0 0.0 . 50 . . . none . . PASS Atlas-SNP SRRM2 23524 hgsc.bcm.edu hg19 16 2807812 2807812 + Missense_Mutation SNP A A T novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . SRRM2 NM_016333 exon4 c.A381T p.L127F AGAATTAAATGAG . 207.0 32.0 149.0 0.0 . 263 . . . none . . PASS Atlas-SNP XPO6 23214 hgsc.bcm.edu hg19 16 28157419 28157419 + Missense_Mutation SNP T T A novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . XPO6 NM_015171 exon9 c.A1330T p.N444Y ACCTGTTGAGAAC . 292.0 80.0 242.0 0.0 . 177 . . . none . . PASS Atlas-SNP ZNF646 9726 hgsc.bcm.edu hg19 16 31090723 31090723 + Silent SNP G G A novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . ZNF646 NM_014699 exon2 c.G3078A p.E1026E TCAAGAGGGAGCA . 232.0 34.0 252.0 0.0 . 133 . . . none . . PASS Atlas-SNP HAS3 3038 hgsc.bcm.edu hg19 16 69143465 69143465 + Missense_Mutation SNP T T A novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . HAS3 NM_138612 exon2 c.T167A p.L56Q TGCACCTGCTCAT . 100.0 13.0 88.0 0.0 . 61 . . . none . . PASS Atlas-SNP SLC38A8 146167 hgsc.bcm.edu hg19 16 84063153 84063153 + Silent SNP A A G novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . SLC38A8 NM_001080442 exon5 c.T636C p.P212P GGAGGCAGGGCTG . 81.0 29.0 68.0 0.0 . 60 . . . none . . PASS Atlas-SNP TMEM220 388335 hgsc.bcm.edu hg19 17 10626593 10626593 + Missense_Mutation SNP G G C novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . TMEM220 NM_001004313 exon5 c.C341G p.S114C TTTGAGGAACTGT . 125.0 18.0 117.0 0.0 . 11 . . . none . . PASS Atlas-SNP FBXW10 10517 hgsc.bcm.edu hg19 17 18653137 18653137 + Nonsense_Mutation SNP T T A novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . FBXW10 NM_001267585 exon3 c.T773A p.L258X ATCTATTGGTTGA . 314.0 49.0 302.0 0.0 . 82 . . . none . . PASS Atlas-SNP DHX58 79132 hgsc.bcm.edu hg19 17 40262859 40262859 + Missense_Mutation SNP T T A novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . DHX58 NM_024119 exon5 c.A443T p.Q148L AGGTACTGGCTCA . 140.0 24.0 152.0 0.0 . 39 . . . none . . PASS Atlas-SNP MYO5B 4645 hgsc.bcm.edu hg19 18 47375980 47375980 + Missense_Mutation SNP T T A novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . MYO5B NM_001080467 exon32 c.A4272T p.K1424N TTGCTTTTTGAGC . 494.0 65.0 475.0 0.0 . 178 . . . none . . PASS Atlas-SNP ZNF254 9534 hgsc.bcm.edu hg19 19 24309780 24309780 + Silent SNP A A G novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . ZNF254 NM_203282 exon4 c.A978G p.E326E TGAAGAATGTGGC . 94.0 12.0 123.0 0.0 . 88 . . . none . . PASS Atlas-SNP UBA2 10054 hgsc.bcm.edu hg19 19 34924279 34924279 + Missense_Mutation SNP G G A rs370848936 TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . UBA2 NM_005499 exon4 c.G320A p.R107Q TTTTCCGACAGTT . 197.0 36.0 223.0 0.0 . 53 . . . weak . . PASS Atlas-SNP LAIR1 3903 hgsc.bcm.edu hg19 19 54872527 54872527 + Silent SNP C C A novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . LAIR1 NM_021706 exon3 c.G360T p.V120V ACCTTTCACCAGC . 197.0 37.0 226.0 0.0 . 44 . . . none . . PASS Atlas-SNP ZNF773 374928 hgsc.bcm.edu hg19 19 58018029 58018029 + Missense_Mutation SNP G G A novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . ZNF773 NM_198542 exon4 c.G566A p.R189K GAAAAAGGCATTA . 56.0 5.0 45.0 0.0 . 62 . . . none . . PASS Atlas-SNP ZNF773 374928 hgsc.bcm.edu hg19 19 58018032 58018032 + Missense_Mutation SNP A A G novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . ZNF773 NM_198542 exon4 c.A569G p.H190R AAAGGCATTACAA . 61.0 5.0 45.0 0.0 . 62 . . . none . . PASS Atlas-SNP COL18A1 80781 hgsc.bcm.edu hg19 21 46902710 46902710 + Missense_Mutation SNP G G A novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . COL18A1 NM_030582 exon14 c.G2216A p.G739D TACAGGGTGAAGC . 98.0 16.0 126.0 0.0 . 129 . . . none . . PASS Atlas-SNP MCHR1 2847 hgsc.bcm.edu hg19 22 41076973 41076973 + Missense_Mutation SNP A A T novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . MCHR1 NM_005297 exon2 c.A310T p.S104C ACGGGGAGCATCT . 89.0 12.0 81.0 0.0 . 45 . . . none . . PASS Atlas-SNP CELSR1 9620 hgsc.bcm.edu hg19 22 46790151 46790151 + Missense_Mutation SNP A A T novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . CELSR1 NM_014246 exon14 c.T5852A p.L1951H CACGGAAGGTCGA . 60.0 10.0 68.0 0.0 . 242 . . . none . . PASS Atlas-SNP GRIP1 23426 hgsc.bcm.edu hg19 12 66838463 66838463 + Frame_Shift_Del DEL T T - novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . GRIP1 NM_001178074 exon12 c.1433delT p.I478fs . . 106.0 22.0 118.0 0.0 . 106 . 0.207547 0 none . . PASS Atlas-INDEL SH3BP4 23677 hgsc.bcm.edu hg19 2 235962373 235962373 + Frame_Shift_Del DEL C C - novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . SH3BP4 NM_014521 exon6 c.2804delT p.L935fs . . 163.0 34.0 247.0 0.0 . 109 . 0.208589 0 none . . PASS Atlas-INDEL LMBRD1 55788 hgsc.bcm.edu hg19 6 70451754 70451755 + Frame_Shift_Ins INS - - AA novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . LMBRD1 NM_018368 exon6 c.489_490insTT p.L163fs . . 90.0 14.0 95.0 0.0 . 61 . 0.155556 0 none . . PASS Atlas-INDEL TPBG 7162 hgsc.bcm.edu hg19 6 83075159 83075159 + Frame_Shift_Del DEL G G - novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . TPBG NM_001166392 exon2 c.480delC p.F160fs . . 204.0 31.0 245.0 0.0 . 37 . 0.151961 0 none . . PASS Atlas-INDEL F10 2159 hgsc.bcm.edu hg19 13 113803360 113803360 + Frame_Shift_Del DEL C C - novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . F10 NM_000504 exon8 c.995delT p.I332fs . . 191.0 28.0 174.0 0.0 . 53 . 0.146597 0 none . . PASS Atlas-INDEL CNOT1 23019 hgsc.bcm.edu hg19 16 58633189 58633190 + Frame_Shift_Ins INS - - CCAC novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . CNOT1 NM_001265612 exon2 c.53_54insGTGG p.D18fs . . 121.0 25.0 95.0 0.0 . 359 . 0.206612 0 none . . PASS Atlas-INDEL SCN11A 11280 hgsc.bcm.edu hg19 3 38891987 38891988 + Frame_Shift_Del DEL GC GC - novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 GC GC . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . SCN11A NM_014139 exon25 c.4312_4313del p.1438_1438del . . 136.0 39.0 121.0 0.0 . 296 . 0.286765 0 none . . PASS Atlas-INDEL FANCM 57697 hgsc.bcm.edu hg19 14 45667882 45667882 + Frame_Shift_Del DEL T T - novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . FANCM NM_020937 exon22 c.5751delC p.S1917fs . . 107.0 22.0 126.0 0.0 . 225 . 0.205607 0 none . . PASS Atlas-INDEL DCLK1 9201 hgsc.bcm.edu hg19 13 36382392 36382396 + Frame_Shift_Del DEL GGAGA GGAGA - novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 GGAGA GGAGA . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . DCLK1 NM_004734 exon14 c.1829_1833del p.610_611del . . 175.0 35.0 170.0 0.0 . 350 . 0.2 0 none . . PASS Atlas-INDEL SRCAP 10847 hgsc.bcm.edu hg19 16 30723210 30723210 + Frame_Shift_Del DEL A A - novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 . SRCAP NM_006662 exon12 c.1546delG p.E516fs . . 78.0 13.0 73.0 0.0 . 298 . 0.166667 0 none . . PASS Atlas-INDEL CABS1 85438 hgsc.bcm.edu hg19 4 71201158 71201158 + Frame_Shift_Del DEL T T - novel TCGA-B1-5398-01A-02D-1589-08 TCGA-B1-5398-10A-01D-1589-08 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq de6c652a-86c7-4cc3-b7ad-db199a1c4c7a b2dcd77d-e773-4e2b-9af9-173ffcc421d0 .,1 CABS1 NM_033122 exon1 c.401delA p.D134fs . . 116.0 23.0 95.0 0.0 . 75 . 0.198276 0 none . . PASS Atlas-INDEL