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 PITHD1 57095 hgsc.bcm.edu hg19 1 24105128 24105128 + Silent SNP A A G novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . PITHD1 NM_020362 exon1 c.A123G p.Q41Q GCTGCAATGCCTT . 17.0 7.0 4.0 0.0 . 20 . . . none . . PASS Atlas-SNP HFM1 164045 hgsc.bcm.edu hg19 1 91742587 91742587 + Missense_Mutation SNP C C G novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . HFM1 NM_001017975 exon31 c.G3424C p.E1142Q TGCATTCTCGGTT . 88.0 30.0 109.0 0.0 . 188 . . . none . . PASS Atlas-SNP SLC44A3 126969 hgsc.bcm.edu hg19 1 95330398 95330398 + Silent SNP T T A novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . SLC44A3 NM_001114106 exon11 c.T1338A p.S446S AATCTCTGTGGTG . 68.0 22.0 87.0 0.0 . 109 . . . none . . PASS Atlas-SNP DNAH14 127602 hgsc.bcm.edu hg19 1 225546329 225546329 + Silent SNP T T C novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . DNAH14 NM_001373 exon72 c.T11472C p.T3824T CAGAACTCCGCTG . 70.0 32.0 95.0 0.0 . 300 . . . none . . PASS Atlas-SNP DHX57 90957 hgsc.bcm.edu hg19 2 39088916 39088916 + Silent SNP T T C novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . DHX57 NM_198963 exon5 c.A636G p.A212A TAGTGATGCTCCC . 120.0 66.0 107.0 0.0 . 127 . . . none . . PASS Atlas-SNP STK11IP 114790 hgsc.bcm.edu hg19 2 220473931 220473931 + Missense_Mutation SNP T T C novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . STK11IP NM_052902 exon16 c.T1955C p.V652A CAGCTGTCCAGGT . 89.0 35.0 82.0 0.0 . 152 . . . none . . PASS Atlas-SNP ATXN7 6314 hgsc.bcm.edu hg19 3 63983337 63983337 + Missense_Mutation SNP C C T novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . ATXN7 NM_001177387 exon12 c.C2702T p.T901I CAGCAACATCACC . 66.0 27.0 64.0 0.0 . 126 . . . none . . PASS Atlas-SNP TOPBP1 11073 hgsc.bcm.edu hg19 3 133331389 133331389 + Silent SNP C C T novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . TOPBP1 NM_007027 exon24 c.G3879A p.L1293L TATCACCAATCCA . 52.0 20.0 69.0 0.0 . 218 . . . none . . PASS Atlas-SNP CLDN16 10686 hgsc.bcm.edu hg19 3 190126252 190126252 + Missense_Mutation SNP T T G rs143316426 bycluster;byfrequency;by1000genomes;alternate_allele TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . CLDN16 NM_006580 exon4 c.T742G p.L248V TGCTTTTTGGCTG . 78.0 40.0 69.0 0.0 . 59 . . . alt T|0.999;C|0.001 . PASS Atlas-SNP PLK4 10733 hgsc.bcm.edu hg19 4 128813596 128813596 + Silent SNP T T C novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . PLK4 NM_014264 exon10 c.T2115C p.Y705Y CACTTATTTTACA . 115.0 31.0 72.0 0.0 . 65 . . . none . . PASS Atlas-SNP CPE 1363 hgsc.bcm.edu hg19 4 166300624 166300624 + Missense_Mutation SNP A A C novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . CPE NM_001873 exon1 c.A251C p.E84A GCTTCGAGGGCCG . 156.0 91.0 111.0 0.0 . 65 . . . none . . PASS Atlas-SNP HIGD2A 192286 hgsc.bcm.edu hg19 5 175816407 175816407 + Missense_Mutation SNP T T A novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . HIGD2A NM_138820 exon2 c.T230A p.L77H CTCAGCTCATGAT . 141.0 35.0 135.0 0.0 . 7 . . . none . . PASS Atlas-SNP UNC5A 90249 hgsc.bcm.edu hg19 5 176300996 176300996 + Missense_Mutation SNP T T G novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . UNC5A NM_133369 exon7 c.T914G p.L305R TGGCCCTCTATGT . 113.0 68.0 102.0 0.0 . 76 . . . none . . PASS Atlas-SNP TNFRSF21 27242 hgsc.bcm.edu hg19 6 47254097 47254097 + Nonsense_Mutation SNP G G A novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . TNFRSF21 NM_014452 exon2 c.C331T p.Q111X ATGGCTGACTACA . 136.0 61.0 137.0 0.0 . 61 . . . none . . PASS Atlas-SNP CEP85L 387119 hgsc.bcm.edu hg19 6 118790282 118790282 + Missense_Mutation SNP C C T rs371610026 TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . CEP85L NM_001178035 exon13 c.G2216A p.R739H TGAGCACGCTGAT . 105.0 22.0 121.0 0.0 . 26 . . . weak . . PASS Atlas-SNP KIAA1244 57221 hgsc.bcm.edu hg19 6 138656258 138656258 + Missense_Mutation SNP G G A novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . KIAA1244 NM_020340 exon33 c.G6275A p.R2092K ACAAGAGGCCCCG . 19.0 8.0 28.0 0.0 . 236 . . . none . . PASS Atlas-SNP ANLN 54443 hgsc.bcm.edu hg19 7 36446013 36446013 + Missense_Mutation SNP A A C novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . ANLN NM_018685 exon4 c.A711C p.K237N ATCCAAATTTTCC . 89.0 49.0 104.0 0.0 . 101 . . . none . . PASS Atlas-SNP C8orf82 414919 hgsc.bcm.edu hg19 8 145753110 145753110 + Missense_Mutation SNP C C A novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . C8orf82 NM_001001795 exon3 c.G267T p.E89D AGCGGCCTCGTAG . 30.0 16.0 8.0 0.0 . 7 . . . none . . PASS Atlas-SNP HK1 3098 hgsc.bcm.edu hg19 10 71128300 71128300 + Silent SNP G G A novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . HK1 NM_033498 exon8 c.G516A p.L172L CATCCTGATCACC . 171.0 68.0 180.0 0.0 . 170 . . . none . . PASS Atlas-SNP HOGA1 112817 hgsc.bcm.edu hg19 10 99358955 99358955 + Silent SNP C C T novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . HOGA1 NM_138413 exon3 c.C450T p.L150L GGCCCTCATTCAC . 88.0 35.0 124.0 0.0 . 25 . . . none . . PASS Atlas-SNP SLC18A2 6571 hgsc.bcm.edu hg19 10 119003520 119003520 + Nonsense_Mutation SNP G G T novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 SLC18A2,right_lower_lobe,carcinoma,0,1 SLC18A2 NM_003054 exon3 c.G160T p.E54X AAGCATGAGAAGA . 64.0 29.0 88.0 0.0 . 58 . . . none . . PASS Atlas-SNP ARL14EP 120534 hgsc.bcm.edu hg19 11 30352522 30352522 + Silent SNP C C T novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . . NM_152316 exon2 c.C27T p.V9V TGGAGTCCAGCTT . 328.0 142.0 360.0 0.0 . . . . . none . . PASS Atlas-SNP CCDC85B 11007 hgsc.bcm.edu hg19 11 65658488 65658488 + Silent SNP C C T novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . CCDC85B NM_006848 exon1 c.C234T p.R78R GCTGCGCGACCTC . 19.0 9.0 0.0 0.0 . 1 . . . none . . PASS Atlas-SNP SDHD 6392 hgsc.bcm.edu hg19 11 111958619 111958619 + Missense_Mutation SNP A A G novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . SDHD NM_003002 exon2 c.A91G p.T31A GCTCATATCTCAG . 60.0 26.0 67.0 0.0 . 19 . . . none . . PASS Atlas-SNP GXYLT1 283464 hgsc.bcm.edu hg19 12 42481671 42481671 + Missense_Mutation SNP A A G rs202200134 bycluster TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 Q8IXV1_HUMAN,NS,carcinoma,0,2 GXYLT1 NM_173601 exon8 c.T1240C p.C414R TTCCACAGTATGT . 67.0 5.0 50.0 0.0 . 47 . . . weak . . PASS Atlas-SNP MLL2 8085 hgsc.bcm.edu hg19 12 49432161 49432161 + Missense_Mutation SNP A A C novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . MLL2 NM_003482 exon34 c.T8978G p.L2993R TCATCCAGCTCGG . 173.0 49.0 153.0 0.0 . 1173 . . . none . . PASS Atlas-SNP RAB5B 5869 hgsc.bcm.edu hg19 12 56384574 56384574 + Missense_Mutation SNP A A G novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . RAB5B NM_002868 exon4 c.A424G p.M142V AAACGTATGGTGG . 151.0 87.0 102.0 0.0 . 22 . . . none . . PASS Atlas-SNP SLC17A8 246213 hgsc.bcm.edu hg19 12 100811853 100811853 + Missense_Mutation SNP T T G novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . SLC17A8 NM_139319 exon11 c.T1344G p.I448M CAGCATTCTCATG . 103.0 73.0 86.0 0.0 . 89 . . . none . . PASS Atlas-SNP PEBP1 5037 hgsc.bcm.edu hg19 12 118575948 118575948 + Missense_Mutation SNP A A C novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . PEBP1 NM_002567 exon2 c.A240C p.K80N TCCCAAATACAGG . 73.0 24.0 35.0 0.0 . 13 . . . none . . PASS Atlas-SNP KDM2B 84678 hgsc.bcm.edu hg19 12 121881832 121881832 + Silent SNP G G A novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . KDM2B NM_032590 exon16 c.C2434T p.L812L CACTCAGCTCCTG . 52.0 12.0 54.0 0.0 . 218 . . . none . . PASS Atlas-SNP KDM2B 84678 hgsc.bcm.edu hg19 12 121881833 121881833 + Missense_Mutation SNP C C A novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . KDM2B NM_032590 exon16 c.G2433T p.E811D ACTCAGCTCCTGG . 53.0 12.0 55.0 0.0 . 218 . . . none . . PASS Atlas-SNP MYCBP2 23077 hgsc.bcm.edu hg19 13 77714983 77714983 + Missense_Mutation SNP T T C novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . MYCBP2 NM_015057 exon50 c.A7399G p.K2467E TAACCTTATTAGG . 107.0 6.0 124.0 0.0 . 1029 . . . none . . PASS Atlas-SNP SPTB 6710 hgsc.bcm.edu hg19 14 65253201 65253201 + Missense_Mutation SNP C C T novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . SPTB NM_001024858 exon15 c.G3482A p.S1161N GTGTGGCTGCGGC . 80.0 30.0 98.0 0.0 . 378 . . . none . . PASS Atlas-SNP SPTBN5 51332 hgsc.bcm.edu hg19 15 42166194 42166194 + Missense_Mutation SNP A A C rs199969875 bycluster;alternate_allele TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . SPTBN5 NM_016642 exon25 c.T4634G p.L1545R GAACTCAGCACCC . 26.0 10.0 29.0 0.0 . 171 . . . alt . . PASS Atlas-SNP GPR97 222487 hgsc.bcm.edu hg19 16 57713092 57713092 + Missense_Mutation SNP C C T novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . GPR97 NM_170776 exon5 c.C496T p.P166S CAGGGCCCCCGGC . 90.0 25.0 68.0 0.0 . 74 . . . none . . PASS Atlas-SNP ZFHX3 463 hgsc.bcm.edu hg19 16 72821093 72821093 + Silent SNP G G T novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . ZFHX3 NM_006885 exon10 c.C11082A p.T3694T TACACTGGTCAGA . 127.0 37.0 112.0 0.0 . 404 . . . none . . PASS Atlas-SNP GALNS 2588 hgsc.bcm.edu hg19 16 88889080 88889080 + Silent SNP G G A novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . GALNS NM_000512 exon12 c.C1281T p.V427V AGTTGTGACCCCT . 251.0 75.0 205.0 0.0 . 37 . . . none . . PASS Atlas-SNP MYO15A 51168 hgsc.bcm.edu hg19 17 18058522 18058522 + Missense_Mutation SNP C C T novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . MYO15A NM_016239 exon45 c.C8323T p.R2775C TTCTCCCGCATCT . 108.0 12.0 65.0 0.0 . 268 . . . none . . PASS Atlas-SNP AATF 26574 hgsc.bcm.edu hg19 17 35345926 35345926 + Missense_Mutation SNP G G A novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . AATF NM_012138 exon6 c.G1056A p.M352I CTTCATGGCAAAG . 157.0 84.0 82.0 0.0 . 36 . . . none . . PASS Atlas-SNP SCPEP1 59342 hgsc.bcm.edu hg19 17 55058480 55058480 + Missense_Mutation SNP A A C novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . SCPEP1 NM_021626 exon2 c.A114C p.E38D CAAGGAAGTATGG . 338.0 161.0 235.0 1.0 . 35 . . . none . . PASS Atlas-SNP GREB1L 80000 hgsc.bcm.edu hg19 18 19020247 19020247 + Missense_Mutation SNP G G C novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . GREB1L NM_001142966 exon9 c.G967C p.G323R ATTTCTGGGCCAC . 67.0 26.0 66.0 0.0 . 69 . . . none . . PASS Atlas-SNP PODNL1 79883 hgsc.bcm.edu hg19 19 14044012 14044012 + Silent SNP G G A rs79400921 bycluster TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . PODNL1 NM_024825 exon8 c.C1045T p.L349L GGTCCAGCCCATT . 24.0 9.0 0.0 0.0 . 27 . . . weak . . PASS Atlas-SNP CYP4F3 4051 hgsc.bcm.edu hg19 19 15760902 15760902 + Missense_Mutation SNP G G A rs113330239 bycluster TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 CYP4F3,colon,NS,0,1 CYP4F3 NM_001199209 exon7 c.G827A p.R276H GGCGCCGCACCCT . 202.0 91.0 254.0 2.0 . 69 . . . weak G|0.500;A|0.500 0.500 PASS Atlas-SNP LRRC25 126364 hgsc.bcm.edu hg19 19 18507658 18507658 + Missense_Mutation SNP C C G novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . LRRC25 NM_145256 exon1 c.G116C p.S39T GTGGCACTGAACT . 195.0 85.0 256.0 1.0 . 16 . . . none . . PASS Atlas-SNP ZNF14 7561 hgsc.bcm.edu hg19 19 19822257 19822257 + Silent SNP T T G novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . ZNF14 NM_021030 exon4 c.A1833C p.G611G TTTCTCTCCAGTG . 84.0 38.0 64.0 0.0 . 89 . . . none . . PASS Atlas-SNP ZNF835 90485 hgsc.bcm.edu hg19 19 57175950 57175950 + Missense_Mutation SNP A A G rs369897881 TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . ZNF835 NM_001005850 exon2 c.T617C p.V206A TGCGTGACGCGCG . 46.0 19.0 0.0 0.0 . 106 . . . weak . . PASS Atlas-SNP BPIFB4 149954 hgsc.bcm.edu hg19 20 31685559 31685559 + Missense_Mutation SNP A A T novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . . NM_182519 exon11 c.A1535T p.K512I AGCCCAAAGACCT . 169.0 79.0 137.0 0.0 . . . . . none . . PASS Atlas-SNP KIAA1210 57481 hgsc.bcm.edu hg19 X 118219440 118219440 + Missense_Mutation SNP T T G novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . KIAA1210 NM_020721 exon12 c.A4754C p.K1585T TTCTGCTTCTGCT . 46.0 6.0 29.0 0.0 . 171 . . . none . . PASS Atlas-SNP NBEAL1 65065 hgsc.bcm.edu hg19 2 204009565 204009566 + Frame_Shift_Ins INS - - T novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . NBEAL1 NM_001114132 exon31 c.5004_5005insT p.S1668fs . . 45.0 16.0 52.0 0.0 . 266 . 0.355556 0 none . . PASS Atlas-Indel,Pindel KANSL2 54934 hgsc.bcm.edu hg19 12 49073468 49073468 + Frame_Shift_Del DEL T T - novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . . NM_017822 exon3 c.401delG p.S134fs . . 122.0 64.0 81.0 0.0 . . . 0.52459 0 none . . PASS Atlas-INDEL NCOR2 9612 hgsc.bcm.edu hg19 12 124824739 124824740 + Frame_Shift_Ins INS - - GCCG rs61519723 bycluster;alternate_allele TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 .,14 NCOR2 NM_006312 exon39 c.5500_5501insCGGC p.S1834fs . . 61.0 11.0 10.0 0.0 . 475 . 0.180328 0 alt GCCGCTGCT|1.000;|0.000 . PASS Atlas-INDEL TM9SF1 10548 hgsc.bcm.edu hg19 14 24661497 24661519 + Frame_Shift_Del DEL CTGCTGAGTTAATGGCCCCATGA CTGCTGAGTTAATGGCCCCATGA - novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 CTGCTGAGTTAATGGCCCCATGA CTGCTGAGTTAATGGCCCCATGA . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . TM9SF1 NM_001014842 exon4 c.1012_1034del p.338_345del . . 209.0 48.0 253.0 0.0 . 58 . 0.229665 0 none . . PASS Atlas-Indel,Pindel LIN37 55957 hgsc.bcm.edu hg19 19 36243734 36243734 + Frame_Shift_Del DEL G G - novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . LIN37 NM_019104 exon4 c.190delA p.R64fs . . 73.0 28.0 83.0 0.0 . 17 . 0.383562 0 none . . PASS Atlas-Indel,Pindel DOCK3 1795 hgsc.bcm.edu hg19 3 51393580 51393580 + Frame_Shift_Del DEL G G - novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . DOCK3 NM_004947 exon42 c.4309delA p.R1437fs . . 199.0 65.0 232.0 0.0 . 397 . 0.326633 0 none . . PASS Atlas-Indel,Pindel KANSL2 54934 hgsc.bcm.edu hg19 12 49073468 49073469 + Frame_Shift_Del DEL TT TT - novel TCGA-B9-A5W9-01A-11D-A28G-10 TCGA-B9-A5W9-10A-01D-A28G-10 TT TT . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq ad4535df-a616-4440-8204-9a498d22beb5 869fc941-e464-4427-8385-d302bb618ea9 . . NM_017822 exon3 c.400_401del p.134_134del . . 122.0 41.0 82.0 0.0 . . . 0.336 . none . . PASS Pindel