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 UBR4 23352 hgsc.bcm.edu hg19 1 19504023 19504023 + Missense_Mutation SNP G G C novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . UBR4 NM_020765 exon19 c.C2569G p.R857G GGAGGCGAGCCAA . 256.0 130.0 248.0 0.0 . 415 . . . none . . PASS Atlas-SNP GJB5 2709 hgsc.bcm.edu hg19 1 35223633 35223633 + Silent SNP C C T novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . GJB5 NM_005268 exon2 c.C702T p.T234T CGGTACCACCTCT . 332.0 145.0 415.0 0.0 . 35 . . . none . . PASS Atlas-SNP GNL2 29889 hgsc.bcm.edu hg19 1 38040324 38040324 + Missense_Mutation SNP C C G novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . GNL2 NM_013285 exon11 c.G1244C p.W415S TTCTCCCAAGAAT . 92.0 46.0 93.0 0.0 . 58 . . . none . . PASS Atlas-SNP ATP1A1 476 hgsc.bcm.edu hg19 1 116941337 116941337 + Missense_Mutation SNP A A G novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . ATP1A1 NM_001160233 exon16 c.A2219G p.D740G GCTCAGATGTGTC . 152.0 60.0 165.0 0.0 . 87 . . . none . . PASS Atlas-SNP LCE2A 353139 hgsc.bcm.edu hg19 1 152671534 152671534 + Missense_Mutation SNP G G A novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 LCE2A,NS,carcinoma,0,1 LCE2A NM_178428 exon2 c.G157A p.G53S TGCTGCGGCTCCA . 40.0 6.0 16.0 0.0 . 22 . . . none . . PASS Atlas-SNP OR6Y1 391112 hgsc.bcm.edu hg19 1 158517180 158517180 + Missense_Mutation SNP C C T novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . OR6Y1 NM_001005189 exon1 c.G716A p.R239H TTTTGGCGGCCCT . 173.0 81.0 179.0 0.0 . 73 . . . none . . PASS Atlas-SNP OBSCN 84033 hgsc.bcm.edu hg19 1 228469852 228469852 + Nonsense_Mutation SNP G G T novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . OBSCN NM_001271223 exon36 c.G9703T p.E3235X GCCGGGGAGGTGG . 232.0 108.0 154.0 0.0 . 2142 . . . none . . PASS Atlas-SNP LYST 1130 hgsc.bcm.edu hg19 1 235884164 235884164 + Silent SNP G G A novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . LYST NM_000081 exon40 c.C9357T p.L3119L ATTAGGGAGGTTA . 71.0 28.0 76.0 0.0 . 370 . . . none . . PASS Atlas-SNP FAM110C 642273 hgsc.bcm.edu hg19 2 45688 45688 + Missense_Mutation SNP C C T novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . FAM110C NM_001077710 exon1 c.G698A p.G233E TCCCTCCCCAGGG . 18.0 10.0 15.0 0.0 . 11 . . . none . . PASS Atlas-SNP DNMT3A 1788 hgsc.bcm.edu hg19 2 25469542 25469542 + Nonsense_Mutation SNP C C T novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . DNMT3A NM_175629 exon10 c.G1226A p.W409X AGGGCCCATTCAA . 112.0 48.0 124.0 0.0 . 1807 . . . none . . PASS Atlas-SNP C2orf16 84226 hgsc.bcm.edu hg19 2 27801772 27801772 + Missense_Mutation SNP A A T novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . C2orf16 NM_032266 exon1 c.A2333T p.E778V AGCCTGAAGAGAC . 39.0 16.0 44.0 0.0 . 357 . . . none . . PASS Atlas-SNP GEMIN6 79833 hgsc.bcm.edu hg19 2 39008788 39008788 + Silent SNP C C T novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . GEMIN6 NM_024775 exon3 c.C258T p.F86F TTTGTTCACGTCT . 127.0 43.0 127.0 0.0 . 13 . . . none . . PASS Atlas-SNP ZNF638 27332 hgsc.bcm.edu hg19 2 71607375 71607375 + Silent SNP T T C novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . ZNF638 NM_014497 exon9 c.T2289C p.T763T AAAGACTTTAGAG . 118.0 49.0 85.0 0.0 . 179 . . . none . . PASS Atlas-SNP C2orf81 388963 hgsc.bcm.edu hg19 2 74643027 74643027 + Silent SNP G G T novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . C2orf81 NM_001145054 exon3 c.C286A p.R96R CCTCCCGGGCCTG . 117.0 49.0 85.0 0.0 . 23 . . . none . . PASS Atlas-SNP FER1L5 90342 hgsc.bcm.edu hg19 2 97359251 97359251 + Missense_Mutation SNP A A T novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . FER1L5 NM_001113382 exon31 c.A3382T p.I1128F CCCTTCATTCGGG . 85.0 34.0 78.0 0.0 . 113 . . . none . . PASS Atlas-SNP ST6GAL2 84620 hgsc.bcm.edu hg19 2 107459932 107459932 + Missense_Mutation SNP C C G novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . ST6GAL2 NM_032528 exon2 c.G502C p.V168L TCTGGACCTGTGC . 165.0 63.0 123.0 0.0 . 159 . . . none . . PASS Atlas-SNP TNFAIP6 7130 hgsc.bcm.edu hg19 2 152235994 152235994 + Missense_Mutation SNP A A T novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . TNFAIP6 NM_007115 exon6 c.A781T p.T261S ACAAGTACTACTT . 83.0 39.0 56.0 0.0 . 98 . . . none . . PASS Atlas-SNP UNC80 285175 hgsc.bcm.edu hg19 2 210742711 210742711 + Missense_Mutation SNP G G A novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 UNC80_ENST00000439458,colon,carcinoma,0,1 UNC80 NM_032504 exon24 c.G3880A p.G1294R TGCCACGGGGAAA . 112.0 36.0 98.0 0.0 . 280 . . . none . . PASS Atlas-SNP SMARCAL1 50485 hgsc.bcm.edu hg19 2 217285132 217285132 + Missense_Mutation SNP G G A novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . SMARCAL1 NM_014140 exon5 c.G973A p.A325T CCATCAGCTCCAT . 249.0 93.0 237.0 0.0 . 93 . . . none . . PASS Atlas-SNP KCNJ13 3769 hgsc.bcm.edu hg19 2 233633228 233633228 + Silent SNP A A T novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . KCNJ13 NM_002242 exon3 c.T756A p.P252P AGCCAGAGGACTT . 200.0 87.0 164.0 0.0 . 18 . . . none . . PASS Atlas-SNP GIGYF2 26058 hgsc.bcm.edu hg19 2 233659498 233659498 + Silent SNP T T A novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . GIGYF2 NM_001103147 exon15 c.T1386A p.P462P GATTCCTTCAGAT . 92.0 44.0 94.0 0.0 . 288 . . . none . . PASS Atlas-SNP KIAA1407 57577 hgsc.bcm.edu hg19 3 113697143 113697143 + Missense_Mutation SNP A A C novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . KIAA1407 NM_020817 exon16 c.T2496G p.F832L TACACAAAATTTT . 63.0 27.0 45.0 0.0 . 80 . . . none . . PASS Atlas-SNP ABCC5 10057 hgsc.bcm.edu hg19 3 183669307 183669307 + Missense_Mutation SNP G G C novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . ABCC5 NM_005688 exon20 c.C2866G p.L956V TTCGAAGGATCCT . 71.0 41.0 86.0 0.0 . 142 . . . none . . PASS Atlas-SNP KIAA0226 9711 hgsc.bcm.edu hg19 3 197408102 197408102 + Silent SNP G G A novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . KIAA0226 NM_014687 exon16 c.C2328T p.F776F CTTGGAGAAGTTG . 154.0 72.0 177.0 0.0 . 136 . . . none . . PASS Atlas-SNP GAK 2580 hgsc.bcm.edu hg19 4 882734 882734 + Missense_Mutation SNP T T A novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . GAK NM_005255 exon11 c.A1106T p.Q369L TACGGCTGGTCGT . 63.0 29.0 46.0 0.0 . 104 . . . none . . PASS Atlas-SNP ADD1 118 hgsc.bcm.edu hg19 4 2916729 2916729 + Missense_Mutation SNP A A G novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . ADD1 NM_176801 exon13 c.A1817G p.Y606C AGGAGTACCGCAG . 196.0 89.0 197.0 0.0 . 56 . . . none . . PASS Atlas-SNP SLC10A4 201780 hgsc.bcm.edu hg19 4 48487158 48487158 + Missense_Mutation SNP A A C novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . SLC10A4 NM_152679 exon2 c.A800C p.K267T TTGTGAAGGTAAG . 198.0 71.0 157.0 0.0 . 23 . . . none . . PASS Atlas-SNP KIAA1211 57482 hgsc.bcm.edu hg19 4 57182735 57182735 + Missense_Mutation SNP G G A novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . KIAA1211 NM_020722 exon8 c.G3067A p.E1023K CCCGAGGAAAGGA . 66.0 18.0 68.0 0.0 . 178 . . . none . . PASS Atlas-SNP C4orf17 84103 hgsc.bcm.edu hg19 4 100434294 100434294 + Missense_Mutation SNP T T C novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . C4orf17 NM_032149 exon2 c.T56C p.I19T GCCATATTATGGC . 151.0 65.0 132.0 0.0 . 42 . . . none . . PASS Atlas-SNP SH3D19 152503 hgsc.bcm.edu hg19 4 152096316 152096316 + Missense_Mutation SNP T T A novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . SH3D19 NM_001128924 exon1 c.A200T p.E67V TCCCACTCTCCAG . 76.0 34.0 80.0 0.0 . 54 . . . none . . PASS Atlas-SNP SH3D19 152503 hgsc.bcm.edu hg19 4 152096322 152096322 + Missense_Mutation SNP G G A novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . SH3D19 NM_001128924 exon1 c.C194T p.S65F TCTCCAGAAGCTC . 83.0 40.0 85.0 0.0 . 54 . . . none . . PASS Atlas-SNP FSTL5 56884 hgsc.bcm.edu hg19 4 162307106 162307106 + Silent SNP T T A novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . FSTL5 NM_020116 exon16 c.A2337T p.I779I ACTCTTTATCATC . 153.0 74.0 132.0 0.0 . 207 . . . none . . PASS Atlas-SNP WDR17 116966 hgsc.bcm.edu hg19 4 177089815 177089815 + Missense_Mutation SNP G G C rs371828424 alternate_allele TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . WDR17 NM_170710 exon25 c.G3100C p.V1034L TGTTACGTTAACA . 77.0 30.0 63.0 0.0 . 198 . . . alt . . PASS Atlas-SNP TNPO1 3842 hgsc.bcm.edu hg19 5 72183032 72183032 + Nonsense_Mutation SNP T T G novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . TNPO1 NM_002270 exon12 c.T1286G p.L429X TGGTTTTAGGAGC . 72.0 10.0 72.0 0.0 . 90 . . . none . . PASS Atlas-SNP SLC23A1 9963 hgsc.bcm.edu hg19 5 138718252 138718252 + Missense_Mutation SNP G G A novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . SLC23A1 NM_005847 exon2 c.C79T p.P27S ACTTAGGCTCTGT . 170.0 76.0 199.0 0.0 . 51 . . . none . . PASS Atlas-SNP FAT2 2196 hgsc.bcm.edu hg19 5 150911353 150911353 + Silent SNP G G A novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . FAT2 NM_001447 exon13 c.C9606T p.G3202G GACGGTGCCCAGC . 16.0 7.0 9.0 0.0 . 465 . . . none . . PASS Atlas-SNP LCP2 3937 hgsc.bcm.edu hg19 5 169680134 169680134 + Missense_Mutation SNP C C T novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . LCP2 NM_005565 exon18 c.G1234A p.A412T CCTCCGCGGGGGA . 43.0 12.0 38.0 0.0 . 133 . . . none . . PASS Atlas-SNP ZSCAN12 9753 hgsc.bcm.edu hg19 6 28359289 28359289 + Missense_Mutation SNP C C G novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . ZSCAN12 NM_001163391 exon4 c.G778C p.D260H TATGGTCAGAGTT . 141.0 51.0 161.0 0.0 . 35 . . . none . . PASS Atlas-SNP C6orf211 79624 hgsc.bcm.edu hg19 6 151790234 151790234 + Missense_Mutation SNP G G A novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . C6orf211 NM_024573 exon5 c.G1315A p.G439S TACGATGGTCCCC . 64.0 24.0 65.0 0.0 . 30 . . . none . . PASS Atlas-SNP EIF2AK1 27102 hgsc.bcm.edu hg19 7 6078297 6078297 + Missense_Mutation SNP C C G novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . EIF2AK1 NM_014413 exon10 c.G1125C p.Q375H GTGGTACTGTGCC . 134.0 21.0 93.0 0.0 . 76 . . . none . . PASS Atlas-SNP PLEKHA8 84725 hgsc.bcm.edu hg19 7 30094389 30094389 + Silent SNP T T C novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . PLEKHA8 NM_001197027 exon8 c.T861C p.T287T CTTGACTCAGTCT . 353.0 139.0 143.0 0.0 . 68 . . . none . . PASS Atlas-SNP POLM 27434 hgsc.bcm.edu hg19 7 44114102 44114102 + Missense_Mutation SNP G G A novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . POLM NM_013284 exon7 c.C863T p.T288I ACTGGGGTGCTCA . 130.0 40.0 31.0 0.0 . 50 . . . none . . PASS Atlas-SNP OGDH 4967 hgsc.bcm.edu hg19 7 44735721 44735721 + Missense_Mutation SNP G G T novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . OGDH NM_002541 exon13 c.G1766T p.W589L CTCCCTGGCCTGG . 155.0 35.0 84.0 0.0 . 145 . . . none . . PASS Atlas-SNP OGDH 4967 hgsc.bcm.edu hg19 7 44735723 44735723 + Missense_Mutation SNP C C A novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . OGDH NM_002541 exon13 c.C1768A p.P590T CCCTGGCCTGGTG . 153.0 34.0 81.0 0.0 . 145 . . . none . . PASS Atlas-SNP ZNF727 442319 hgsc.bcm.edu hg19 7 63538568 63538568 + Missense_Mutation SNP T T C novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . ZNF727 NM_001159522 exon4 c.T1141C p.S381P TGGTTCTCAGACC . 171.0 7.0 63.0 0.0 . 35 . . . none . . PASS Atlas-SNP MUC12 10071 hgsc.bcm.edu hg19 7 100646199 100646199 + Missense_Mutation SNP T T C rs4632981 TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 MUC12,NS,carcinoma,0,1 MUC12 NM_001164462 exon2 c.T12355C p.F4119L ACACACTTTTCTG . 3.0 2.0 3.0 0.0 . 140 . . . weak C|1.000;|0.000 1.000 PASS Atlas-SNP CSPP1 79848 hgsc.bcm.edu hg19 8 68107797 68107797 + Missense_Mutation SNP C C T novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . CSPP1 NM_024790 exon29 c.C3635T p.T1212I CTTTCACTTGGCA . 263.0 84.0 222.0 0.0 . 129 . . . none . . PASS Atlas-SNP PUF60 22827 hgsc.bcm.edu hg19 8 144902839 144902839 + Silent SNP T T C novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . PUF60 NM_078480 exon5 c.A345G p.Q115Q GACCGATTGCAAA . 62.0 26.0 82.0 0.0 . 26 . . . none . . PASS Atlas-SNP ZNF438 220929 hgsc.bcm.edu hg19 10 31134006 31134006 + Missense_Mutation SNP G G A novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . ZNF438 NM_182755 exon8 c.C2371T p.L791F GGAGGAGGTCCTC . 143.0 53.0 152.0 0.0 . 90 . . . none . . PASS Atlas-SNP ZNF33B 7582 hgsc.bcm.edu hg19 10 43088357 43088357 + Missense_Mutation SNP T T C novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . ZNF33B NM_006955 exon5 c.A2041G p.I681V GTAAAATAAGTCC . 76.0 32.0 60.0 0.0 . 78 . . . none . . PASS Atlas-SNP AFAP1L2 84632 hgsc.bcm.edu hg19 10 116100456 116100456 + Silent SNP G G A novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . AFAP1L2 NM_032550 exon2 c.C51T p.F17F CTTGAGGAAGTCA . 95.0 33.0 106.0 0.0 . 90 . . . none . . PASS Atlas-SNP OR51G2 81282 hgsc.bcm.edu hg19 11 4936503 4936503 + Missense_Mutation SNP T T C novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . OR51G2 NM_001005238 exon1 c.A391G p.I131V GGCAGATAGCCAC . 56.0 23.0 52.0 0.0 . 70 . . . none . . PASS Atlas-SNP SYT13 57586 hgsc.bcm.edu hg19 11 45277229 45277229 + Missense_Mutation SNP G G C novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . SYT13 NM_020826 exon2 c.C397G p.L133V GAGGGAGGATGAA . 39.0 17.0 52.0 0.0 . 45 . . . none . . PASS Atlas-SNP LTBP3 4054 hgsc.bcm.edu hg19 11 65319017 65319017 + Splice_Site SNP A A T novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . LTBP3 NM_001164266 exon10 c.1197+2T>A . ATACTCACTGAGT . 107.0 35.0 128.0 0.0 . 55 . . . none . . PASS Atlas-SNP SIPA1 6494 hgsc.bcm.edu hg19 11 65412463 65412463 + Missense_Mutation SNP G G A rs146916012 bycluster TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . SIPA1 NM_006747 exon5 c.G1022A p.R341Q ACTGCCGGGCGGG . 187.0 88.0 142.0 0.0 . 45 . . . weak G|1.000;A|0.000 0.000 PASS Atlas-SNP CHEK1 1111 hgsc.bcm.edu hg19 11 125497532 125497532 + Missense_Mutation SNP A A C novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . CHEK1 NM_001244846 exon3 c.A96C p.E32D AACTGAAGAAGCA . 71.0 34.0 61.0 0.0 . 44 . . . none . . PASS Atlas-SNP NFRKB 4798 hgsc.bcm.edu hg19 11 129747271 129747271 + Silent SNP G G A novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . NFRKB NM_006165 exon14 c.C1596T p.D532D CACATAGTCAGTT . 74.0 27.0 111.0 0.0 . 101 . . . none . . PASS Atlas-SNP C12orf57 113246 hgsc.bcm.edu hg19 12 7053729 7053729 + Missense_Mutation SNP G G T novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . C12orf57 NM_138425 exon2 c.G143T p.G48V ACATGGGTAAGAT . 203.0 118.0 95.0 0.0 . 10 . . . none . . PASS Atlas-SNP APOBEC1 339 hgsc.bcm.edu hg19 12 7818467 7818467 + Missense_Mutation SNP A A G novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . APOBEC1 NM_001644 exon1 c.T2C p.M1T GAAGTCATGGTGC . 226.0 54.0 153.0 0.0 . 43 . . . none . . PASS Atlas-SNP PLEKHA5 54477 hgsc.bcm.edu hg19 12 19500042 19500042 + Missense_Mutation SNP A A G novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . PLEKHA5 NM_001256470 exon24 c.A2824G p.R942G TATAGCAGGGGCC . 172.0 47.0 118.0 0.0 . 198 . . . none . . PASS Atlas-SNP SPRYD4 283377 hgsc.bcm.edu hg19 12 56862411 56862411 + Silent SNP C C T novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . SPRYD4 NM_207344 exon1 c.C36T p.C12C CTTGTGCCGCTGG . 110.0 5.0 85.0 0.0 . 13 . . . none . . PASS Atlas-SNP SLC5A8 160728 hgsc.bcm.edu hg19 12 101588897 101588897 + Silent SNP C C T novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . SLC5A8 NM_145913 exon4 c.G513A p.V171V GCAGACCACCCCC . 108.0 61.0 101.0 0.0 . 102 . . . none . . PASS Atlas-SNP BTBD11 121551 hgsc.bcm.edu hg19 12 107713245 107713245 + Silent SNP G G A novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . BTBD11 NM_001018072 exon1 c.G528A p.A176A GGCCGCGCACTGT . 10.0 7.0 2.0 0.0 . 122 . . . none . . PASS Atlas-SNP GPC6 10082 hgsc.bcm.edu hg19 13 94197565 94197565 + Missense_Mutation SNP A A T novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . GPC6 NM_005708 exon2 c.A210T p.E70D CACAGAAATGGAA . 95.0 42.0 82.0 0.0 . 102 . . . none . . PASS Atlas-SNP LRFN5 145581 hgsc.bcm.edu hg19 14 42360768 42360768 + Silent SNP C C T novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . LRFN5 NM_152447 exon4 c.C1701T p.S567S GGTTAGCAATGTT . 113.0 43.0 102.0 0.0 . 269 . . . none . . PASS Atlas-SNP NEK9 91754 hgsc.bcm.edu hg19 14 75558059 75558059 + Nonsense_Mutation SNP G G A novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . NEK9 NM_033116 exon19 c.C2356T p.R786X TTCCTCGGTCTGC . 70.0 32.0 74.0 0.0 . 64 . . . none . . PASS Atlas-SNP ZBTB42 100128927 hgsc.bcm.edu hg19 14 105268528 105268528 + Missense_Mutation SNP G G A novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . ZBTB42 NM_001137601 exon2 c.G994A p.V332M GACGGCGTGGCAC . 53.0 22.0 28.0 0.0 . 10 . . . none . . PASS Atlas-SNP MTMR10 54893 hgsc.bcm.edu hg19 15 31251264 31251264 + Silent SNP G G C novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . MTMR10 NM_017762 exon8 c.C819G p.S273S AGAATGGGAAAAG . 85.0 38.0 82.0 0.0 . 74 . . . none . . PASS Atlas-SNP COPS2 9318 hgsc.bcm.edu hg19 15 49421727 49421727 + Missense_Mutation SNP G G A novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . COPS2 NM_001143887 exon11 c.C1096T p.L366F TTATAAGCACTTG . 85.0 35.0 104.0 0.0 . 41 . . . none . . PASS Atlas-SNP AP4E1 23431 hgsc.bcm.edu hg19 15 51294808 51294808 + Silent SNP T T G novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . AP4E1 NM_007347 exon21 c.T3363G p.T1121T TTCTACTCTTCCT . 128.0 69.0 169.0 0.0 . 78 . . . none . . PASS Atlas-SNP ADCY9 115 hgsc.bcm.edu hg19 16 4164714 4164714 + Silent SNP G G A novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . ADCY9 NM_001116 exon2 c.C730T p.L244L AACTCAGGTACAA . 154.0 55.0 170.0 0.0 . 151 . . . none . . PASS Atlas-SNP MPRIP 23164 hgsc.bcm.edu hg19 17 17075111 17075111 + Missense_Mutation SNP G G A novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . MPRIP NM_015134 exon16 c.G2243A p.R748Q ACCAGCGGGAGCT . 288.0 176.0 195.0 0.0 . 87 . . . none . . PASS Atlas-SNP PSMC3IP 29893 hgsc.bcm.edu hg19 17 40729246 40729246 + Missense_Mutation SNP G G C novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 PSMC3IP,NS,carcinoma,0,1 PSMC3IP NM_016556 exon3 c.C210G p.I70M AAAATAGATCTTC . 173.0 66.0 118.0 0.0 . 23 . . . none . . PASS Atlas-SNP TRIM25 7706 hgsc.bcm.edu hg19 17 54969126 54969126 + Missense_Mutation SNP C C G novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . TRIM25 NM_005082 exon9 c.G1828C p.A610P ACAAAGCCTCAGT . 194.0 116.0 138.0 0.0 . 52 . . . none . . PASS Atlas-SNP LAMA3 3909 hgsc.bcm.edu hg19 18 21508090 21508090 + Silent SNP T T C novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . LAMA3 NM_198129 exon63 c.T8181C p.F2727F CAGATTTAACATT . 137.0 50.0 117.0 0.0 . 397 . . . none . . PASS Atlas-SNP ZNF407 55628 hgsc.bcm.edu hg19 18 72345617 72345617 + Missense_Mutation SNP G G A novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . ZNF407 NM_001146190 exon1 c.G2642A p.C881Y ATTTATGCAAAGT . 136.0 39.0 126.0 0.0 . 231 . . . none . . PASS Atlas-SNP ZNF407 55628 hgsc.bcm.edu hg19 18 72345618 72345618 + Silent SNP C C T novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . ZNF407 NM_001146190 exon1 c.C2643T p.C881C TTTATGCAAAGTG . 132.0 38.0 126.0 0.0 . 231 . . . none . . PASS Atlas-SNP SMARCA4 6597 hgsc.bcm.edu hg19 19 11134305 11134305 + Missense_Mutation SNP A A G novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . SMARCA4 NM_003072 exon20 c.A2971G p.K991E CCCGAAAAGGTGA . 86.0 32.0 106.0 0.0 . 502 . . . none . . PASS Atlas-SNP CYP2A13 1553 hgsc.bcm.edu hg19 19 41599643 41599643 + Missense_Mutation SNP T T G novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . CYP2A13 NM_000766 exon6 c.T940G p.F314V TACGGTTTCCTGC . 113.0 43.0 116.0 0.0 . 90 . . . none . . PASS Atlas-SNP SOGA1 140710 hgsc.bcm.edu hg19 20 35438421 35438421 + Missense_Mutation SNP C C G novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . SOGA1 NM_080627 exon7 c.G2547C p.K849N CTCCTCCTTTCGT . 69.0 26.0 61.0 0.0 . 136 . . . none . . PASS Atlas-SNP NPEPL1 79716 hgsc.bcm.edu hg19 20 57282247 57282247 + Silent SNP A A C novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . NPEPL1 NM_024663 exon7 c.A891C p.A297A AGCCGCAATCAAG . 20.0 9.0 30.0 0.0 . 36 . . . none . . PASS Atlas-SNP BID 637 hgsc.bcm.edu hg19 22 18226632 18226632 + Missense_Mutation SNP A A G novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . BID NM_197966 exon3 c.T298C p.Y100H CATCGTAGCCCTC . 58.0 16.0 61.0 0.0 . 18 . . . none . . PASS Atlas-SNP AKAP17A 8227 hgsc.bcm.edu hg19 X 1719998 1719998 + Silent SNP C C T novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . AKAP17A NM_005088 exon5 c.C1599T p.P533P GGTCCCCGAGGAT . 96.0 7.0 113.0 0.0 . 46 . . . none . . PASS Atlas-SNP LPAR4 2846 hgsc.bcm.edu hg19 X 78010716 78010716 + Missense_Mutation SNP C C A novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . LPAR4 NM_005296 exon2 c.C350A p.A117E GAACTGCATTCCT . 110.0 92.0 128.0 0.0 . 83 . . . none . . PASS Atlas-SNP MKI67 4288 hgsc.bcm.edu hg19 10 129902143 129902143 + Frame_Shift_Del DEL G G - novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . MKI67 NM_002417 exon13 c.7962delA p.P2654fs . . 118.0 50.0 131.0 0.0 . 363 . 0.423729 0 none . . PASS Atlas-Indel,Pindel EIF2AK1 27102 hgsc.bcm.edu hg19 7 6078295 6078296 + Frame_Shift_Ins INS - - A novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . EIF2AK1 NM_014413 exon10 c.1127_1128insT p.Y376fs . . 137.0 20.0 92.0 0.0 . 76 . 0.145985 0 none . . PASS Atlas-INDEL EIF2AK1 27102 hgsc.bcm.edu hg19 7 6078298 6078299 + Frame_Shift_Ins INS - - A novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . EIF2AK1 NM_014413 exon10 c.1124_1125insT p.Q375fs . . 134.0 20.0 92.0 0.0 . 76 . 0.149254 0 none . . PASS Atlas-INDEL BDNF 627 hgsc.bcm.edu hg19 11 27680049 27680056 + Frame_Shift_Del DEL CATGGGGG CATGGGGG - novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 CATGGGGG CATGGGGG . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . BDNF NM_001143810 exon3 c.303_310del p.101_104del . . 91.0 27.0 121.0 0.0 . 63 . 0.296703 0 none . . PASS Atlas-Indel,Pindel NFE2L3 9603 hgsc.bcm.edu hg19 7 26224635 26224636 + Frame_Shift_Del DEL CT CT - novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 CT CT . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . NFE2L3 NM_004289 exon4 c.1316_1317del p.439_439del . . 172.0 42.0 97.0 0.0 . 77 . 0.244186 0 none . . PASS Atlas-Indel,Pindel SH3D19 152503 hgsc.bcm.edu hg19 4 152096326 152096326 + Frame_Shift_Del DEL C C - novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . SH3D19 NM_001128924 exon1 c.191delC p.A64fs . . 81.0 39.0 84.0 0.0 . 54 . 0.481481 0 none . . PASS Atlas-Indel,Pindel VLDLR 7436 hgsc.bcm.edu hg19 9 2643309 2643310 + In_Frame_Ins INS - - GCA novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . VLDLR NM_003383 exon5 c.598_599insGCA p.C200delinsCS . . 141.0 52.0 131.0 0.0 . 68 . 0.368794 0 none . . PASS Atlas-Indel,Pindel TBCK 93627 hgsc.bcm.edu hg19 4 107163709 107163709 + Frame_Shift_Del DEL C C - novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . TBCK NM_001163435 exon12 c.1089delT p.G363fs . . 28.0 17.0 27.0 0.0 . 89 . 0.607143 0 none . . PASS Atlas-Indel,Pindel TAS2R43 259289 hgsc.bcm.edu hg19 12 11244149 11244149 + Frame_Shift_Del DEL G G - novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . TAS2R43 NM_176884 exon1 c.681delT p.A227fs . . 32.0 17.0 10.0 0.0 . 19 . 0.53125 0 none . . PASS Atlas-INDEL SLC38A10 124565 hgsc.bcm.edu hg19 17 79225020 79225080 + Frame_Shift_Del DEL GGGGAGCAAGGGAGATAAAACGGTAATCACAAGCCATGTGACGATGCCGCAGGTGTTTAAA GGGGAGCAAGGGAGATAAAACGGTAATCACAAGCCATGTGACGATGCCGCAGGTGTTTAAA - novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 GGGGAGCAAGGGAGATAAAACGGTAATCACAAGCCATGTGACGATGCCGCAGGTGTTTAAA GGGGAGCAAGGGAGATAAAACGGTAATCACAAGCCATGTGACGATGCCGCAGGTGTTTAAA . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . SLC38A10 NM_138570 exon14 c.2279_2339del p.760_780del . . 138.0 16.0 138.0 0.0 . 133 . 0.116 . none . . PASS Pindel CANX 821 hgsc.bcm.edu hg19 5 179136997 179136997 + Frame_Shift_Del DEL C C - novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . CANX NM_001746 exon7 c.651delA p.K217fs . . 59.0 19.0 61.0 0.0 . 47 . 0.322 . none . . PASS Pindel EIF2AK1 27102 hgsc.bcm.edu hg19 7 6078297 6078298 + Frame_Shift_Del DEL CT CT - novel TCGA-MH-A55Z-01A-11D-A26P-10 TCGA-MH-A55Z-10A-01D-A26P-10 CT CT . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15 3d292f02-ebb2-457b-b5a3-1590b60833a6 . EIF2AK1 NM_014413 exon10 c.1125_1126del p.375_376del . . 135.0 17.0 92.0 0.0 . 76 . 0.126 . none . . PASS Pindel