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 FAM110D 79927 hgsc.bcm.edu hg19 1 26488081 26488081 + Missense_Mutation SNP A A G novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . . NM_024869 exon2 c.A299G p.E100G ACAAAGAGAACGC . 124.0 62.0 124.0 0.0 . . . . . none . . PASS Atlas-SNP ZC3H12A 80149 hgsc.bcm.edu hg19 1 37948519 37948519 + Silent SNP A A T novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . ZC3H12A NM_025079 exon6 c.A1107T p.T369T GCTAACAGAGAGT . 159.0 76.0 196.0 0.0 . 58 . . . none . . PASS Atlas-SNP PRPF3 9129 hgsc.bcm.edu hg19 1 150325324 150325324 + Silent SNP C C A novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . PRPF3 NM_004698 exon16 c.C1921A p.R641R AAAGACCGGAGCT . 438.0 180.0 460.0 1.0 . 55 . . . none . . PASS Atlas-SNP MCL1 4170 hgsc.bcm.edu hg19 1 150551933 150551933 + Missense_Mutation SNP C C A novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . MCL1 NM_021960 exon1 c.G74T p.S25I CCGCCGCTGCCGG . 205.0 83.0 181.0 0.0 . 27 . . . none . . PASS Atlas-SNP TDRKH 11022 hgsc.bcm.edu hg19 1 151748012 151748012 + Missense_Mutation SNP C C G novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . TDRKH NM_001083965 exon10 c.G1290C p.Q430H TTCCCACTGGTCA . 120.0 59.0 137.0 0.0 . 45 . . . none . . PASS Atlas-SNP ASTN1 460 hgsc.bcm.edu hg19 1 176863825 176863825 + Missense_Mutation SNP C C G novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . ASTN1 NM_004319 exon17 c.G2813C p.R938P GGGCATCGTCCCT . 73.0 31.0 75.0 0.0 . 314 . . . none . . PASS Atlas-SNP RASAL2 9462 hgsc.bcm.edu hg19 1 178063695 178063695 + Missense_Mutation SNP T T C novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . RASAL2 NM_170692 exon1 c.T68C p.L23P CGGCGCTGGAGTC . 124.0 58.0 148.0 0.0 . 334 . . . none . . PASS Atlas-SNP OBSCN 84033 hgsc.bcm.edu hg19 1 228528466 228528466 + Silent SNP G G A novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . OBSCN NM_001271223 exon83 c.G20445A p.A6815A CTGCGCGCTGCTG . 190.0 87.0 225.0 1.0 . 2142 . . . none . . PASS Atlas-SNP EML6 400954 hgsc.bcm.edu hg19 2 55054726 55054726 + Silent SNP C C A novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . EML6 NM_001039753 exon5 c.C549A p.A183A AAATGCCCTGACT . 94.0 40.0 76.0 0.0 . 85 . . . none . . PASS Atlas-SNP ITPRIPL1 150771 hgsc.bcm.edu hg19 2 96993651 96993651 + Missense_Mutation SNP A A G rs35855657 bycluster;byfrequency;alternate_allele TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . ITPRIPL1 NM_178495 exon1 c.A1306G p.S436G ATTTTAAGTCTCC . 93.0 35.0 91.0 0.0 . 58 . . . alt A|0.643;T|0.357 . PASS Atlas-SNP CCNT2 905 hgsc.bcm.edu hg19 2 135710229 135710229 + Missense_Mutation SNP T T C novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . CCNT2 NM_058241 exon8 c.T722C p.L241P AGTTTCTACAAAT . 287.0 126.0 346.0 0.0 . 98 . . . none . . PASS Atlas-SNP MUC13 56667 hgsc.bcm.edu hg19 3 124632081 124632081 + Missense_Mutation SNP C C T novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . MUC13 NM_033049 exon8 c.G1088A p.S363N TTGAGACTGGAAG . 112.0 28.0 84.0 0.0 . 57 . . . none . . PASS Atlas-SNP ISY1 57461 hgsc.bcm.edu hg19 3 128852942 128852942 + Missense_Mutation SNP T T C novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . ISY1 NM_001199469 exon10 c.A704G p.N235S TAGATGTTGATCT . 92.0 54.0 57.0 0.0 . 36 . . . none . . PASS Atlas-SNP HTR3D 200909 hgsc.bcm.edu hg19 3 183756384 183756384 + Silent SNP C C T novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . HTR3D NM_001163646 exon7 c.C1107T p.G369G TAAGGGCCCGGGT . 234.0 60.0 150.0 0.0 . 65 . . . none . . PASS Atlas-SNP FAM131A 131408 hgsc.bcm.edu hg19 3 184062687 184062687 + Missense_Mutation SNP C C A novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . FAM131A NM_144635 exon6 c.C1030A p.Q344K CAGCGGCAAGCCT . 90.0 46.0 59.0 0.0 . 37 . . . none . . PASS Atlas-SNP IDUA 3425 hgsc.bcm.edu hg19 4 995927 995927 + Missense_Mutation SNP C C T novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . IDUA NM_000203 exon7 c.C950T p.T317I ACGTGACCTACGC . 120.0 55.0 107.0 0.0 . 33 . . . none . . PASS Atlas-SNP HTT 3064 hgsc.bcm.edu hg19 4 3076668 3076668 + Missense_Mutation SNP C C A novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . HTT NM_002111 exon1 c.C116A p.P39Q AACAGCCGCCACC . 16.0 4.0 11.0 0.0 . 221 . . . none . . PASS Atlas-SNP SPINK5 11005 hgsc.bcm.edu hg19 5 147484531 147484531 + Missense_Mutation SNP G G A novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . SPINK5 NM_001127699 exon16 c.G1447A p.A483T GAAAGAGCAAGAG . 323.0 146.0 332.0 1.0 . 245 . . . none . . PASS Atlas-SNP SLU7 10569 hgsc.bcm.edu hg19 5 159831848 159831848 + Nonsense_Mutation SNP C C A novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . SLU7 NM_006425 exon14 c.G1432T p.E478X CAGATTCTTCCCC . 94.0 36.0 74.0 0.0 . 35 . . . none . . PASS Atlas-SNP F12 2161 hgsc.bcm.edu hg19 5 176831333 176831333 + Silent SNP C C T novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 F12,NS,carcinoma,0,1 F12 NM_000505 exon9 c.G882A p.Q294Q CTGGCACTGTGCC . 160.0 81.0 204.0 0.0 . 35 . . . none . . PASS Atlas-SNP SCGN 10590 hgsc.bcm.edu hg19 6 25665199 25665199 + Missense_Mutation SNP A A C novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . SCGN NM_006998 exon4 c.A275C p.E92A AGGATGAAAACTT . 40.0 15.0 33.0 0.0 . 57 . . . none . . PASS Atlas-SNP HIST1H2AD 3013 hgsc.bcm.edu hg19 6 26199103 26199103 + Missense_Mutation SNP A A C novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . HIST1H2AD NM_021065 exon1 c.T369G p.S123R GTGGTGACTCTCA . 131.0 58.0 151.0 0.0 . 20 . . . none . . PASS Atlas-SNP HSD17B8 7923 hgsc.bcm.edu hg19 6 33173455 33173455 + Silent SNP G G A novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . HSD17B8 NM_014234 exon5 c.G519A p.K173K ATCCAAGGCTGGA . 101.0 42.0 80.0 0.0 . 20 . . . none . . PASS Atlas-SNP SYNE1 23345 hgsc.bcm.edu hg19 6 152462387 152462387 + Silent SNP C C T novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . SYNE1 NM_182961 exon139 c.G25197A p.E8399E AAGGCTCTCCTCT . 82.0 36.0 92.0 0.0 . 3227 . . . none . . PASS Atlas-SNP SSPO 23145 hgsc.bcm.edu hg19 7 149499004 149499004 + Missense_Mutation SNP C C T rs376985175 TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . . NM_198455 exon50 c.C7456T p.R2486W GACCTGCGGCCTG . 70.0 27.0 40.0 0.0 . . . . . weak . . PASS Atlas-SNP FPGS 2356 hgsc.bcm.edu hg19 9 130570589 130570589 + Nonsense_Mutation SNP C C A novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . FPGS NM_004957 exon9 c.C821A p.S274X AGATCTCAGTAAG . 48.0 18.0 52.0 0.0 . 30 . . . none . . PASS Atlas-SNP PRKG1 5592 hgsc.bcm.edu hg19 10 54053646 54053646 + Missense_Mutation SNP G G T novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . PRKG1 NM_006258 exon18 c.G2047T p.D683Y GGATGGGATATAG . 70.0 34.0 69.0 0.0 . 167 . . . none . . PASS Atlas-SNP SMPD1 6609 hgsc.bcm.edu hg19 11 6411941 6411941 + Missense_Mutation SNP C C T rs78250081 bycluster TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . SMPD1 NM_000543 exon1 c.C113T p.A38V TGCTGGCGCTGGC . 102.0 11.0 74.0 0.0 . 108 . . . weak . . PASS Atlas-SNP PLEKHA7 144100 hgsc.bcm.edu hg19 11 16816490 16816490 + Missense_Mutation SNP A A G novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . PLEKHA7 NM_175058 exon18 c.T2485C p.F829L TTCTGAAGTTCTC . 94.0 42.0 77.0 0.0 . 120 . . . none . . PASS Atlas-SNP ARFGAP2 84364 hgsc.bcm.edu hg19 11 47198367 47198367 + Missense_Mutation SNP A A G novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . ARFGAP2 NM_001242832 exon1 c.T38C p.L13P TTAAAAAGAGTCT . 79.0 40.0 57.0 0.0 . 43 . . . none . . PASS Atlas-SNP BCL9L 283149 hgsc.bcm.edu hg19 11 118772132 118772132 + Missense_Mutation SNP T T C novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . BCL9L NM_182557 exon6 c.A2320G p.M774V CATTCATGTTCAT . 43.0 22.0 34.0 0.0 . 254 . . . none . . PASS Atlas-SNP NCAPD3 23310 hgsc.bcm.edu hg19 11 134038058 134038058 + Missense_Mutation SNP G G C novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . NCAPD3 NM_015261 exon27 c.C3406G p.L1136V CGTCCAGGTCCAG . 70.0 43.0 71.0 0.0 . 141 . . . none . . PASS Atlas-SNP KRT82 3888 hgsc.bcm.edu hg19 12 52789833 52789833 + Missense_Mutation SNP C C T rs377127392 TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . KRT82 NM_033033 exon7 c.G1252A p.A418T AGGTGGCGATCTC . 76.0 32.0 91.0 0.0 . 45 . . . weak . . PASS Atlas-SNP RDH5 5959 hgsc.bcm.edu hg19 12 56115699 56115699 + Missense_Mutation SNP A A C novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . RDH5 NM_001199771 exon3 c.A537C p.K179N CTCCAAATTTGGC . 365.0 142.0 345.0 0.0 . 25 . . . none . . PASS Atlas-SNP PAN2 9924 hgsc.bcm.edu hg19 12 56720417 56720417 + Missense_Mutation SNP A A G novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . PAN2 NM_014871 exon7 c.T1246C p.S416P GAGCAGAGTTGGC . 127.0 53.0 131.0 0.0 . 107 . . . none . . PASS Atlas-SNP ATP5B 506 hgsc.bcm.edu hg19 12 57033773 57033773 + Missense_Mutation SNP C C A novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . ATP5B NM_001686 exon8 c.G1278T p.K426N CAGGATCTTTTGC . 85.0 31.0 74.0 0.0 . 48 . . . none . . PASS Atlas-SNP SCYL2 55681 hgsc.bcm.edu hg19 12 100717393 100717393 + Missense_Mutation SNP T T A novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . SCYL2 NM_017988 exon11 c.T1486A p.C496S AATGCTTGTCTAC . 80.0 30.0 73.0 0.0 . 99 . . . none . . PASS Atlas-SNP HPD 3242 hgsc.bcm.edu hg19 12 122295709 122295709 + Missense_Mutation SNP A A G novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . HPD NM_002150 exon3 c.T47C p.F16S TGGAGGAATCGGC . 160.0 68.0 168.0 0.0 . 46 . . . none . . PASS Atlas-SNP B3GNT4 79369 hgsc.bcm.edu hg19 12 122691299 122691299 + Silent SNP A A T novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . B3GNT4 NM_030765 exon3 c.A501T p.P167P TCCCCCAGCCCAG . 43.0 17.0 37.0 0.0 . 35 . . . none . . PASS Atlas-SNP GOLGA3 2802 hgsc.bcm.edu hg19 12 133385055 133385055 + Missense_Mutation SNP C C A novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . GOLGA3 NM_001172557 exon5 c.G600T p.R200S ACTGGCCCTTGGT . 110.0 54.0 95.0 0.0 . 234 . . . none . . PASS Atlas-SNP COG3 83548 hgsc.bcm.edu hg19 13 46066332 46066332 + Missense_Mutation SNP G G T novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . COG3 NM_031431 exon11 c.G1134T p.Q378H CTGCCAGGATGAA . 106.0 5.0 107.0 0.0 . 52 . . . none . . PASS Atlas-SNP ACTR10 55860 hgsc.bcm.edu hg19 14 58675768 58675768 + Silent SNP A A G novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . ACTR10 NM_018477 exon4 c.A285G p.V95V ATCGGTATTATGT . 62.0 21.0 86.0 0.0 . 33 . . . none . . PASS Atlas-SNP SNAPC1 6617 hgsc.bcm.edu hg19 14 62229244 62229244 + Silent SNP C C T novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . SNAPC1 NM_003082 exon1 c.C66T p.D22D GACGGACAGTGTA . 61.0 20.0 66.0 0.0 . 32 . . . none . . PASS Atlas-SNP SYNE2 23224 hgsc.bcm.edu hg19 14 64595265 64595265 + Silent SNP G G A novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . SYNE2 NM_182914 exon74 c.G14013A p.Q4671Q TGAACAGCTTCAG . 143.0 55.0 151.0 0.0 . 577 . . . none . . PASS Atlas-SNP GPHN 10243 hgsc.bcm.edu hg19 14 67646373 67646373 + Missense_Mutation SNP C C A novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . GPHN NM_020806 exon22 c.C2158A p.P720T CCACTACCTTGGG . 77.0 41.0 96.0 0.0 . 79 . . . none . . PASS Atlas-SNP VRTN 55237 hgsc.bcm.edu hg19 14 74824607 74824607 + Missense_Mutation SNP T T A novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . VRTN NM_018228 exon2 c.T1121A p.L374Q AGGAGCTAGAGAA . 55.0 23.0 61.0 0.0 . 79 . . . none . . PASS Atlas-SNP PLA2G4E 123745 hgsc.bcm.edu hg19 15 42298282 42298282 + Missense_Mutation SNP A A G novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . PLA2G4E NM_001206670 exon4 c.T431C p.V144A GGTGTCACTGTGT . 101.0 52.0 106.0 0.0 . 60 . . . none . . PASS Atlas-SNP SLC24A1 9187 hgsc.bcm.edu hg19 15 65943100 65943100 + Silent SNP A A G novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . SLC24A1 NM_004727 exon7 c.A2613G p.E871E GGAGGAAGAGGAG . 79.0 10.0 84.0 0.0 . 58 . . . none . . PASS Atlas-SNP NR2F2 7026 hgsc.bcm.edu hg19 15 96875660 96875660 + Missense_Mutation SNP G G T novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . NR2F2 NM_021005 exon1 c.G326T p.R109M TGCGGAGGAACCT . 86.0 32.0 100.0 0.0 . 35 . . . none . . PASS Atlas-SNP NTN3 4917 hgsc.bcm.edu hg19 16 2522514 2522514 + Missense_Mutation SNP A A C novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . NTN3 NM_006181 exon1 c.A812C p.H271P AGGGCCACCTGAT . 47.0 5.0 41.0 0.0 . 28 . . . none . . PASS Atlas-SNP TANGO6 79613 hgsc.bcm.edu hg19 16 68914532 68914532 + Missense_Mutation SNP A A C novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . . NM_024562 exon7 c.A1376C p.K459T TGTTTAAGGTTGG . 163.0 41.0 115.0 0.0 . . . . . none . . PASS Atlas-SNP BANP 54971 hgsc.bcm.edu hg19 16 88039824 88039824 + Missense_Mutation SNP G G A novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . BANP NM_001173542 exon6 c.G608A p.S203N CGGGCAGTCAGAG . 58.0 31.0 49.0 0.0 . 67 . . . none . . PASS Atlas-SNP NTN1 9423 hgsc.bcm.edu hg19 17 9066277 9066277 + Missense_Mutation SNP G G T novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . NTN1 NM_004822 exon3 c.G1166T p.R389L ACTACCGCGACAT . 139.0 87.0 83.0 0.0 . 31 . . . none . . PASS Atlas-SNP ACACA 31 hgsc.bcm.edu hg19 17 35609953 35609953 + Silent SNP C C A novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . ACACA NM_198834 exon15 c.G1836T p.V612V AGCCACCACCATG . 93.0 59.0 88.0 0.0 . 395 . . . none . . PASS Atlas-SNP UBE2O 63893 hgsc.bcm.edu hg19 17 74398143 74398143 + Splice_Site SNP A A G novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . UBE2O NM_022066 exon6 c.750+2T>C . CACACTACCGAGT . 135.0 85.0 76.0 0.0 . 207 . . . none . . PASS Atlas-SNP SMARCA4 6597 hgsc.bcm.edu hg19 19 11138579 11138579 + Missense_Mutation SNP T T G novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . SMARCA4 NM_003072 exon24 c.T3335G p.M1112R CCATCATGGAAGA . 145.0 71.0 151.0 0.0 . 502 . . . none . . PASS Atlas-SNP PAK4 10298 hgsc.bcm.edu hg19 19 39664225 39664225 + Missense_Mutation SNP C C A novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . PAK4 NM_001014832 exon4 c.C673A p.H225N GAGCCTCATGACG . 66.0 22.0 65.0 0.0 . 40 . . . none . . PASS Atlas-SNP C20orf144 128864 hgsc.bcm.edu hg19 20 32251357 32251357 + Missense_Mutation SNP T T C novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . C20orf144 NM_080825 exon2 c.T146C p.L49P TGATTCTCCCCCT . 141.0 7.0 106.0 0.0 . 4 . . . none . . PASS Atlas-SNP SDF2L1 23753 hgsc.bcm.edu hg19 22 21996638 21996638 + Missense_Mutation SNP G G A novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . SDF2L1 NM_022044 exon1 c.G13A p.G5S AGCGCGGGCCGCG . 49.0 24.0 46.0 0.0 . 5 . . . none . . PASS Atlas-SNP COX1 5742 hgsc.bcm.edu hg19 MT 6481 6481 + Missense_Mutation SNP T T C rs199476128 bycluster;alternate_allele TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . . ENST00000361624 exon1 c.T578C p.V193A CAGCAGTCCTACT . 12.0 10.0 42.0 0.0 . . . . . alt A|0.006;G|0.994 . PASS Atlas-SNP COX3 5742 hgsc.bcm.edu hg19 MT 9420 9420 + Missense_Mutation SNP A A G novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . . ENST00000362079 exon1 c.A214G p.T72A CACCACACACCAC . 16.0 15.0 46.0 0.0 . . . . . none . . PASS Atlas-SNP DFNA5 1687 hgsc.bcm.edu hg19 7 24742409 24742409 + Frame_Shift_Del DEL T T - novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . DFNA5 NM_001127453 exon9 c.1228delC p.L410fs . . 120.0 75.0 70.0 0.0 . 51 . 0.625 0 none . . PASS Atlas-Indel,Pindel MAGI1 9223 hgsc.bcm.edu hg19 3 65342733 65342733 + Frame_Shift_Del DEL G G - novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . MAGI1 NM_001033057 exon23 c.3710delG p.R1237fs . . 107.0 40.0 93.0 0.0 . 481 . 0.373832 0 none . . PASS Atlas-Indel,Pindel ZNF582 147948 hgsc.bcm.edu hg19 19 56895643 56895643 + Frame_Shift_Del DEL T T - novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . ZNF582 NM_144690 exon5 c.1144delC p.L382fs . . 93.0 46.0 125.0 0.0 . 56 . 0.494624 0 none . . PASS Atlas-Indel,Pindel USP25 29761 hgsc.bcm.edu hg19 21 17214827 17214829 + In_Frame_Del DEL GAA GAA - novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 GAA GAA . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . USP25 NM_013396 exon18 c.2304_2306del p.768_769del . . 217.0 125.0 178.0 0.0 . 156 . 0.576037 0 none . . PASS Atlas-Indel,Pindel ZSWIM8 23053 hgsc.bcm.edu hg19 10 75548546 75548546 + Frame_Shift_Del DEL T T - novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . . NM_015037 exon2 c.326delC p.A109fs . . 56.0 19.0 56.0 0.0 . . . 0.339286 0 none . . PASS Atlas-Indel,Pindel STXBP5L 9515 hgsc.bcm.edu hg19 3 121100364 121100367 + Frame_Shift_Del DEL ATGG ATGG - novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 ATGG ATGG . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . STXBP5L NM_014980 exon23 c.2643_2646del p.881_882del . . 118.0 31.0 75.0 0.0 . 159 . 0.262712 0 none . . PASS Atlas-Indel,Pindel ARID1A 8289 hgsc.bcm.edu hg19 1 27105645 27105645 + Frame_Shift_Del DEL G G - novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . ARID1A NM_006015 exon20 c.5255delA p.K1752fs . . 130.0 55.0 136.0 0.0 . 842 . 0.423077 0 none . . PASS Atlas-Indel,Pindel CFC1 55997 hgsc.bcm.edu hg19 2 131356313 131356313 + Frame_Shift_Del DEL G G - novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . CFC1 NM_001270420 exon3 c.150delG p.P50fs . . 1015.0 120.0 957.0 0.0 . 14 . 0.118 . none . . PASS Pindel CFC1B 653275 hgsc.bcm.edu hg19 2 131279604 131279604 + Frame_Shift_Del DEL C C - novel TCGA-UZ-A9Q0-01A-12D-A42J-10 TCGA-UZ-A9Q0-10A-01D-A42M-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 1ade8c1b-f1d7-49ad-a7f1-d7b91dd79670 43bffa96-ab4f-4ba3-b15b-918e180d7be6 . . NM_001079530 exon3 c.147delA p.S49fs . . 381.0 39.0 396.0 0.0 . . . 0.102 . none . . PASS Pindel