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 MMEL1 79258 hgsc.bcm.edu hg19 1 2560862 2560862 + Missense_Mutation SNP C C A novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . MMEL1 NM_033467 exon2 c.G62T p.R21L CCCGGGCGCTTCT . 156.0 62.0 260.0 0.0 . 64 . . . none . . PASS Atlas-SNP CLSTN1 22883 hgsc.bcm.edu hg19 1 9815300 9815300 + Silent SNP G G T novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . CLSTN1 NM_001009566 exon4 c.C312A p.S104S ACCAGTGGATTTA . 121.0 44.0 127.0 0.0 . 88 . . . none . . PASS Atlas-SNP PRDM2 7799 hgsc.bcm.edu hg19 1 14075886 14075886 + Missense_Mutation SNP T T A novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . PRDM2 NM_015866 exon6 c.T415A p.W139R CTGGTCTGGTACA . 168.0 62.0 184.0 0.0 . 147 . . . none . . PASS Atlas-SNP MACF1 23499 hgsc.bcm.edu hg19 1 39760763 39760763 + Missense_Mutation SNP C C G novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . MACF1 NM_012090 exon20 c.C2215G p.L739V CGTTCTCTACAAG . 89.0 31.0 107.0 0.0 . 909 . . . none . . PASS Atlas-SNP ST6GALNAC5 81849 hgsc.bcm.edu hg19 1 77528710 77528710 + Missense_Mutation SNP C C T novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . ST6GALNAC5 NM_030965 exon5 c.C830T p.P277L TTGGACCTGATGA . 102.0 34.0 133.0 0.0 . 59 . . . none . . PASS Atlas-SNP C1orf51 148523 hgsc.bcm.edu hg19 1 150259058 150259058 + Missense_Mutation SNP T T G novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . C1orf51 NM_144697 exon5 c.T850G p.L284V GGTCCTTTAGGCA . 89.0 32.0 100.0 0.0 . 35 . . . none . . PASS Atlas-SNP GOLPH3L 55204 hgsc.bcm.edu hg19 1 150621097 150621097 + Silent SNP A A G novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . GOLPH3L NM_018178 exon5 c.T558C p.T186T ATGAGTAGTCATG . 171.0 57.0 180.0 0.0 . 20 . . . none . . PASS Atlas-SNP ARHGEF11 9826 hgsc.bcm.edu hg19 1 156906702 156906702 + Silent SNP A A C novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . ARHGEF11 NM_198236 exon40 c.T4536G p.A1512A CCATCTAGCTGCT . 95.0 33.0 119.0 0.0 . 168 . . . none . . PASS Atlas-SNP ATP1A4 480 hgsc.bcm.edu hg19 1 160144537 160144537 + Missense_Mutation SNP G G C novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . ATP1A4 NM_144699 exon15 c.G2311C p.G771R GAGGAGGGTGAGG . 94.0 39.0 97.0 0.0 . 167 . . . none . . PASS Atlas-SNP DNAH14 127602 hgsc.bcm.edu hg19 1 225555578 225555578 + Missense_Mutation SNP G G T novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . DNAH14 NM_001373 exon75 c.G11883T p.E3961D TGGAGAGGTAACA . 166.0 57.0 168.0 0.0 . 300 . . . none . . PASS Atlas-SNP GREB1 9687 hgsc.bcm.edu hg19 2 11706689 11706689 + Missense_Mutation SNP G G C novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . GREB1 NM_148903 exon4 c.G361C p.G121R CTCGTGGGGGTCA . 69.0 30.0 82.0 0.0 . 308 . . . none . . PASS Atlas-SNP CCDC121 79635 hgsc.bcm.edu hg19 2 27850108 27850108 + Missense_Mutation SNP A A G novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . CCDC121 NM_001142683 exon2 c.T1045C p.F349L AAATAAACCGCTT . 78.0 27.0 96.0 0.0 . 43 . . . none . . PASS Atlas-SNP SLC38A11 151258 hgsc.bcm.edu hg19 2 165809229 165809229 + Missense_Mutation SNP A A T novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . SLC38A11 NM_173512 exon2 c.T49A p.S17T CATATGAAACCCA . 157.0 40.0 163.0 0.0 . 41 . . . none . . PASS Atlas-SNP MAGI1 9223 hgsc.bcm.edu hg19 3 65350346 65350346 + Silent SNP T T A novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . MAGI1 NM_004742 exon21 c.A3432T p.A1144A CTGTGTTGCTTGG . 166.0 69.0 212.0 0.0 . 481 . . . none . . PASS Atlas-SNP LAMP3 27074 hgsc.bcm.edu hg19 3 182871611 182871611 + Silent SNP T T A rs201353315 bycluster TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . LAMP3 NM_014398 exon2 c.A618T p.A206A GGCAGGTGCAGCT . 145.0 50.0 159.0 0.0 . 48 . . . weak G|0.001;T|0.999 . PASS Atlas-SNP AFP 174 hgsc.bcm.edu hg19 4 74316462 74316462 + Missense_Mutation SNP G G A novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . AFP NM_001134 exon11 c.G1420A p.E474K TGTGGCGAGGGAG . 147.0 28.0 125.0 0.0 . 60 . . . none . . PASS Atlas-SNP KIAA1109 84162 hgsc.bcm.edu hg19 4 123175369 123175369 + Missense_Mutation SNP A A C novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . KIAA1109 NM_015312 exon36 c.A5942C p.D1981A AATCTGATGATTT . 141.0 64.0 79.0 0.0 . 424 . . . none . . PASS Atlas-SNP HMGCS1 3157 hgsc.bcm.edu hg19 5 43294814 43294814 + Missense_Mutation SNP G G C novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . HMGCS1 NM_001098272 exon7 c.C1055G p.S352C GCAAGGGAACCAT . 54.0 17.0 89.0 0.0 . 33 . . . none . . PASS Atlas-SNP EDIL3 10085 hgsc.bcm.edu hg19 5 83362406 83362406 + Missense_Mutation SNP A A C novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . EDIL3 NM_005711 exon7 c.T671G p.M224R ACTCTCATTTTCC . 119.0 45.0 101.0 0.0 . 94 . . . none . . PASS Atlas-SNP SLC35A4 113829 hgsc.bcm.edu hg19 5 139947338 139947338 + Missense_Mutation SNP A A T novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . SLC35A4 NM_080670 exon3 c.A584T p.Y195F TTCTGTACTGCCT . 57.0 20.0 69.0 0.0 . 25 . . . none . . PASS Atlas-SNP DCTN4 51164 hgsc.bcm.edu hg19 5 150111032 150111032 + Missense_Mutation SNP G G A novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . DCTN4 NM_001135643 exon7 c.C578T p.T193I AGCCTGGTTCCAA . 60.0 17.0 73.0 0.0 . 35 . . . none . . PASS Atlas-SNP CDHR2 54825 hgsc.bcm.edu hg19 5 176019773 176019773 + Missense_Mutation SNP G G A novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 CDHR2,NS,malignant_melanoma,0,1 CDHR2 NM_017675 exon31 c.G3784A p.E1262K AGTCAGGAAATCA . 84.0 29.0 143.0 0.0 . 152 . . . none . . PASS Atlas-SNP PPARD 5467 hgsc.bcm.edu hg19 6 35387920 35387920 + Silent SNP C C A novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . PPARD NM_001171818 exon5 c.C147A p.S49S GAGCTCCTCGCCA . 40.0 16.0 52.0 0.0 . 46 . . . none . . PASS Atlas-SNP RUNX2 860 hgsc.bcm.edu hg19 6 45390463 45390463 + Silent SNP G G A novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 RUNX2_ENST00000352853,NS,carcinoma,0,2 RUNX2 NM_001024630 exon3 c.G192A p.Q64Q GCAGCAGCAACAG . 45.0 4.0 63.0 0.0 . 128 . . . none . . PASS Atlas-SNP LAMB1 3912 hgsc.bcm.edu hg19 7 107572669 107572669 + Missense_Mutation SNP C C T novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . LAMB1 NM_002291 exon28 c.G4342A p.D1448N CTTGGTCCAAGTC . 145.0 63.0 152.0 0.0 . 185 . . . none . . PASS Atlas-SNP ABCB8 11194 hgsc.bcm.edu hg19 7 150725694 150725694 + Missense_Mutation SNP T T A novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . ABCB8 NM_007188 exon1 c.T92A p.V31D CAGCTGTCAGGTA . 69.0 11.0 81.0 0.0 . 65 . . . none . . PASS Atlas-SNP NUGGC 389643 hgsc.bcm.edu hg19 8 27918040 27918040 + Missense_Mutation SNP G G T novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . . NM_001010906 exon8 c.C1000A p.L334M CATTCAGAAGGTC . 91.0 29.0 100.0 0.0 . . . . . none . . PASS Atlas-SNP ANKS6 203286 hgsc.bcm.edu hg19 9 101540705 101540705 + Missense_Mutation SNP G G A novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . ANKS6 NM_173551 exon7 c.C1370T p.S457F CACCAGGACTGCC . 125.0 48.0 169.0 0.0 . 59 . . . none . . PASS Atlas-SNP PPP6C 5537 hgsc.bcm.edu hg19 9 127916020 127916020 + Nonsense_Mutation SNP A A T novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . PPP6C NM_001123355 exon7 c.T572A p.L191X TCTATTAACTAGC . 50.0 20.0 57.0 0.0 . 108 . . . none . . PASS Atlas-SNP SH2D3C 10044 hgsc.bcm.edu hg19 9 130502080 130502080 + Missense_Mutation SNP G G A novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . SH2D3C NM_170600 exon11 c.C2288T p.P763L GGCTCAGGGCCCT . 149.0 47.0 173.0 0.0 . 102 . . . none . . PASS Atlas-SNP GBGT1 26301 hgsc.bcm.edu hg19 9 136030630 136030630 + Missense_Mutation SNP C C G novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . GBGT1 NM_021996 exon6 c.G294C p.E98D CAGAAGCTCTGGG . 89.0 27.0 142.0 0.0 . 25 . . . none . . PASS Atlas-SNP DPP7 29952 hgsc.bcm.edu hg19 9 140008368 140008368 + Missense_Mutation SNP A A G novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . DPP7 NM_013379 exon4 c.T434C p.L145P CGTCGTAGCGCGC . 47.0 13.0 57.0 0.0 . 22 . . . none . . PASS Atlas-SNP CUBN 8029 hgsc.bcm.edu hg19 10 17164807 17164807 + Missense_Mutation SNP T T C novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . CUBN NM_001081 exon6 c.A580G p.M194V TTCCCATTGTATT . 132.0 53.0 145.0 0.0 . 515 . . . none . . PASS Atlas-SNP TUBGCP2 10844 hgsc.bcm.edu hg19 10 135095734 135095734 + Missense_Mutation SNP G G A novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . TUBGCP2 NM_001256617 exon17 c.C2486T p.A829V TTCCTGGCGAGCT . 54.0 17.0 75.0 0.0 . 79 . . . none . . PASS Atlas-SNP TUBGCP2 10844 hgsc.bcm.edu hg19 10 135095735 135095735 + Missense_Mutation SNP C C T novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . TUBGCP2 NM_001256617 exon17 c.G2485A p.A829T TCCTGGCGAGCTC . 53.0 17.0 73.0 0.0 . 79 . . . none . . PASS Atlas-SNP PIK3C2A 5286 hgsc.bcm.edu hg19 11 17156501 17156501 + Missense_Mutation SNP A A G novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . PIK3C2A NM_002645 exon10 c.T1973C p.L658P GCATGGAGTCTGA . 89.0 32.0 95.0 0.0 . 148 . . . none . . PASS Atlas-SNP FJX1 24147 hgsc.bcm.edu hg19 11 35641396 35641396 + Silent SNP C C G novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . FJX1 NM_014344 exon1 c.C1212G p.A404A GGCCGCCCTTGCA . 112.0 28.0 142.0 0.0 . 32 . . . none . . PASS Atlas-SNP UCP3 7352 hgsc.bcm.edu hg19 11 73715620 73715620 + Silent SNP G G T novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . UCP3 NM_003356 exon5 c.C552A p.P184P GATGTTGGGCAAA . 63.0 14.0 103.0 0.0 . 31 . . . none . . PASS Atlas-SNP PDE3A 5139 hgsc.bcm.edu hg19 12 20803382 20803382 + Missense_Mutation SNP A A T novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . PDE3A NM_000921 exon14 c.A2773T p.N925Y TAGGTAAATGATG . 161.0 33.0 131.0 0.0 . 184 . . . none . . PASS Atlas-SNP KRT5 3852 hgsc.bcm.edu hg19 12 52913749 52913749 + Missense_Mutation SNP G G T novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . KRT5 NM_000424 exon1 c.C332A p.A111D CCACCAGCTCCAC . 120.0 30.0 95.0 0.0 . 88 . . . none . . PASS Atlas-SNP SDR9C7 121214 hgsc.bcm.edu hg19 12 57324030 57324030 + Silent SNP C C T novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . SDR9C7 NM_148897 exon2 c.G540A p.E180E GAAGGCCTCAACG . 111.0 44.0 92.0 0.0 . 31 . . . none . . PASS Atlas-SNP PAWR 5074 hgsc.bcm.edu hg19 12 80083574 80083574 + Missense_Mutation SNP T T A novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . PAWR NM_002583 exon2 c.A451T p.I151F TCTCGATCTGCCC . 83.0 20.0 86.0 0.0 . 14 . . . none . . PASS Atlas-SNP NUDT4 11163 hgsc.bcm.edu hg19 12 93793130 93793130 + Missense_Mutation SNP C C A rs142846389 alternate_allele TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . NUDT4 NM_199040 exon5 c.C521A p.S174Y AGACCTCTGGGTT . 145.0 19.0 139.0 0.0 . 6 . . . alt C|1.000;T|0.000 . PASS Atlas-SNP METAP2 10988 hgsc.bcm.edu hg19 12 95907668 95907668 + Silent SNP A A T novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . METAP2 NM_006838 exon11 c.A1425T p.G475G CAGAGGAGATGAC . 127.0 36.0 107.0 0.0 . 28 . . . none . . PASS Atlas-SNP ATXN2 6311 hgsc.bcm.edu hg19 12 112036794 112036794 + Silent SNP C C T novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . ATXN2 NM_002973 exon1 c.G525A p.Q175Q CTGCTGCTGCTGC . 20.0 7.0 15.0 0.0 . 99 . . . none . . PASS Atlas-SNP ANAPC5 51433 hgsc.bcm.edu hg19 12 121747554 121747554 + Missense_Mutation SNP T T C novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . ANAPC5 NM_016237 exon16 c.A2006G p.K669R TGGCACTTGGCCA . 115.0 49.0 100.0 0.0 . 60 . . . none . . PASS Atlas-SNP NEK3 4752 hgsc.bcm.edu hg19 13 52730287 52730287 + Missense_Mutation SNP A A G novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . NEK3 NM_002498 exon2 c.T40C p.S14P CGAAGGAGCCCTC . 83.0 28.0 76.0 0.0 . 41 . . . none . . PASS Atlas-SNP MYCBP2 23077 hgsc.bcm.edu hg19 13 77853046 77853046 + Missense_Mutation SNP T T G novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . MYCBP2 NM_015057 exon4 c.A595C p.I199L CAATAATCTATTT . 120.0 42.0 119.0 0.0 . 1029 . . . none . . PASS Atlas-SNP ATL1 51062 hgsc.bcm.edu hg19 14 51081222 51081222 + Missense_Mutation SNP A A T novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . ATL1 NM_015915 exon8 c.A855T p.K285N TGGAAAATTGAAA . 131.0 43.0 136.0 0.0 . 46 . . . none . . PASS Atlas-SNP GNPNAT1 64841 hgsc.bcm.edu hg19 14 53248584 53248584 + Missense_Mutation SNP A A T novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . GNPNAT1 NM_198066 exon4 c.T263A p.V88D TCTACAACTGTAA . 87.0 29.0 74.0 0.0 . 14 . . . none . . PASS Atlas-SNP PTPN21 11099 hgsc.bcm.edu hg19 14 88945296 88945296 + Nonsense_Mutation SNP T T A novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . PTPN21 NM_007039 exon13 c.A2479T p.K827X TGTTCTTCTTCCC . 67.0 16.0 87.0 0.0 . 113 . . . none . . PASS Atlas-SNP MTA1 9112 hgsc.bcm.edu hg19 14 105930891 105930891 + Missense_Mutation SNP A A T novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . MTA1 NM_004689 exon14 c.A1331T p.N444I GACCAAACCGCAG . 76.0 27.0 117.0 0.0 . 61 . . . none . . PASS Atlas-SNP RASGRF1 5923 hgsc.bcm.edu hg19 15 79339110 79339110 + Missense_Mutation SNP C C T novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . RASGRF1 NM_001145648 exon5 c.G856A p.V286I TGCTGACGTCGTC . 66.0 20.0 107.0 0.0 . 168 . . . none . . PASS Atlas-SNP CHD9 80205 hgsc.bcm.edu hg19 16 53301317 53301317 + Missense_Mutation SNP C C G novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . CHD9 NM_025134 exon21 c.C4432G p.P1478A GAAAAGCCCAAAC . 146.0 75.0 113.0 0.0 . 203 . . . none . . PASS Atlas-SNP CCDC135 84229 hgsc.bcm.edu hg19 16 57735929 57735929 + Missense_Mutation SNP A A T novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . CCDC135 NM_032269 exon5 c.A586T p.M196L TGCTCCATGCTTA . 72.0 31.0 92.0 0.0 . 97 . . . none . . PASS Atlas-SNP SGSM2 9905 hgsc.bcm.edu hg19 17 2274584 2274584 + Silent SNP C C A novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . SGSM2 NM_014853 exon13 c.C1452A p.G484G GCAGGGCTTTGGG . 84.0 18.0 72.0 0.0 . 60 . . . none . . PASS Atlas-SNP CYB5D2 124936 hgsc.bcm.edu hg19 17 4060165 4060165 + Missense_Mutation SNP G G T novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . CYB5D2 NM_144611 exon4 c.G584T p.G195V GTGGAGGTGTGAG . 110.0 49.0 129.0 0.0 . 22 . . . none . . PASS Atlas-SNP CYB5D2 124936 hgsc.bcm.edu hg19 17 4060190 4060190 + Silent SNP C C T novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . CYB5D2 NM_144611 exon4 c.C609T p.V203V TGGCGTCCCCAGG . 104.0 46.0 128.0 0.0 . 22 . . . none . . PASS Atlas-SNP ULK2 9706 hgsc.bcm.edu hg19 17 19720216 19720216 + Silent SNP C C T novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . ULK2 NM_001142610 exon13 c.G942A p.Q314Q AATATGCTGCATA . 165.0 74.0 157.0 0.0 . 142 . . . none . . PASS Atlas-SNP EFCAB5 374786 hgsc.bcm.edu hg19 17 28418892 28418892 + Missense_Mutation SNP T T C novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . EFCAB5 NM_198529 exon21 c.T3941C p.I1314T CAGAGATTGAAAA . 126.0 39.0 115.0 0.0 . 122 . . . none . . PASS Atlas-SNP CRLF3 51379 hgsc.bcm.edu hg19 17 29120581 29120581 + Missense_Mutation SNP T T A novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . CRLF3 NM_015986 exon5 c.A713T p.H238L TCTATGTGCAATA . 129.0 74.0 127.0 0.0 . 36 . . . none . . PASS Atlas-SNP KRTAP16-1 100505753 hgsc.bcm.edu hg19 17 39465268 39465268 + Missense_Mutation SNP C C T novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . KRTAP16-1 NM_001146182 exon1 c.G238A p.E80K AAGGCTCACAAAT . 293.0 156.0 322.0 0.0 . 12 . . . none . . PASS Atlas-SNP SCRN2 90507 hgsc.bcm.edu hg19 17 45916327 45916327 + Missense_Mutation SNP A A G novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . SCRN2 NM_138355 exon5 c.T602C p.I201T GCCGAGATGTCCG . 52.0 10.0 67.0 0.0 . 35 . . . none . . PASS Atlas-SNP CACNA1G 8913 hgsc.bcm.edu hg19 17 48674235 48674235 + Missense_Mutation SNP G G T novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . CACNA1G NM_001256360 exon16 c.G3209T p.S1070I GCACCAGCAGCAG . 118.0 5.0 110.0 0.0 . 659 . . . none . . PASS Atlas-SNP NT5C 30833 hgsc.bcm.edu hg19 17 73127154 73127154 + Missense_Mutation SNP A A T novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . NT5C NM_001252377 exon3 c.T322A p.C108S CCACACAGTGGTG . 223.0 52.0 225.0 0.0 . 3 . . . none . . PASS Atlas-SNP LPPR3 0 hgsc.bcm.edu hg19 19 814451 814451 + Missense_Mutation SNP C C T novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . . NM_024888 exon6 c.G898A p.G300S CGATGCCCGCCCC . 29.0 15.0 60.0 0.0 . . . . . none . . PASS Atlas-SNP MKNK2 2872 hgsc.bcm.edu hg19 19 2041888 2041888 + Missense_Mutation SNP C C T novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . MKNK2 NM_017572 exon11 c.G896A p.C299Y CTGCCACAGCGGC . 57.0 24.0 98.0 0.0 . 56 . . . none . . PASS Atlas-SNP KLK7 5650 hgsc.bcm.edu hg19 19 51485606 51485606 + Missense_Mutation SNP G G T novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . KLK7 NM_001243126 exon2 c.C177A p.S59R TCCAAGGCTAAGG . 50.0 9.0 70.0 0.0 . 40 . . . none . . PASS Atlas-SNP EPS8L1 54869 hgsc.bcm.edu hg19 19 55591174 55591174 + Silent SNP G G A novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . EPS8L1 NM_133180 exon5 c.G234A p.L78L GCTGCTGCGAGTG . 67.0 21.0 91.0 0.0 . 122 . . . none . . PASS Atlas-SNP NNAT 4826 hgsc.bcm.edu hg19 20 36151076 36151076 + Missense_Mutation SNP G G T novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 NNAT,NS,carcinoma,0,1 NNAT NM_005386 exon3 c.G161T p.R54M TGTTCAGGTACTC . 71.0 30.0 96.0 0.0 . 8 . . . none . . PASS Atlas-SNP GTSF1L 149699 hgsc.bcm.edu hg19 20 42355169 42355169 + Silent SNP G G A rs17826038 bycluster;byfrequency;byhapmap;by1000genomes;alternate_allele TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . GTSF1L NM_001008901 exon1 c.C166T p.L56L CCTCCAGATTTTT . 132.0 48.0 173.0 0.0 . 14 . . . alt G|0.981;C|0.019 . PASS Atlas-SNP HELZ2 85441 hgsc.bcm.edu hg19 20 62198210 62198210 + Missense_Mutation SNP G G C novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 G G . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . . NM_001037335 exon7 c.C2501G p.S834C CCGTGGGAAACGA . 36.0 12.0 48.0 0.0 . . . . . none . . PASS Atlas-SNP MX2 4600 hgsc.bcm.edu hg19 21 42770936 42770936 + Missense_Mutation SNP T T C novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . MX2 NM_002463 exon9 c.T1262C p.F421S TGTTCTTTCTAAT . 79.0 28.0 111.0 0.0 . 84 . . . none . . PASS Atlas-SNP TBC1D10A 83874 hgsc.bcm.edu hg19 22 30690962 30690962 + Missense_Mutation SNP C C A novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . TBC1D10A NM_001204240 exon5 c.G628T p.A210S CAGCGGCAATGGG . 68.0 20.0 101.0 0.0 . 49 . . . none . . PASS Atlas-SNP MORC2 22880 hgsc.bcm.edu hg19 22 31331096 31331096 + Missense_Mutation SNP A A G novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . MORC2 NM_014941 exon20 c.T1679C p.I560T TTCCTGATCACAG . 78.0 31.0 117.0 0.0 . 78 . . . none . . PASS Atlas-SNP ARHGAP6 395 hgsc.bcm.edu hg19 X 11160422 11160422 + Missense_Mutation SNP C C T novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . ARHGAP6 NM_013427 exon12 c.G2188A p.E730K AAGGCTCCTCTGA . 151.0 95.0 200.0 0.0 . 130 . . . none . . PASS Atlas-SNP GPRASP1 9737 hgsc.bcm.edu hg19 X 101909675 101909675 + Silent SNP T T C rs369864268 alternate_allele TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . GPRASP1 NM_001099411 exon3 c.T834C p.D278D GGAAGATCCCAAT . 61.0 43.0 91.0 0.0 . 140 . . . alt . . PASS Atlas-SNP RGAG1 57529 hgsc.bcm.edu hg19 X 109697329 109697329 + Missense_Mutation SNP T T C novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . RGAG1 NM_020769 exon3 c.T3484C p.C1162R GGCTCATGCTCTG . 160.0 121.0 178.0 0.0 . 168 . . . none . . PASS Atlas-SNP TEX9 374618 hgsc.bcm.edu hg19 15 56686971 56686972 + Frame_Shift_Del DEL TT TT - novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 TT TT . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . TEX9 NM_198524 exon9 c.766_767del p.256_256del . . 447.0 161.0 535.0 0.0 . 29 . 0.360179 0 none . . PASS Atlas-Indel,Pindel KIAA0146 23514 hgsc.bcm.edu hg19 8 48625228 48625240 + Frame_Shift_Del DEL AGAGTCTGCTGCT AGAGTCTGCTGCT - novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 AGAGTCTGCTGCT AGAGTCTGCTGCT . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . KIAA0146 NM_001080394 exon15 c.1981_1993del p.661_665del . . 78.0 15.0 85.0 0.0 . 64 . 0.192308 0 none . . PASS Atlas-Indel,Pindel XDH 7498 hgsc.bcm.edu hg19 2 31600100 31600100 + Frame_Shift_Del DEL C C - novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . XDH NM_000379 exon14 c.1247delA p.E416fs . . 72.0 31.0 77.0 0.0 . 191 . 0.430556 0 none . . PASS Atlas-Indel,Pindel NET1 10276 hgsc.bcm.edu hg19 10 5494436 5494436 + Frame_Shift_Del DEL T T - novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . NET1 NM_001047160 exon5 c.478delC p.L160fs . . 106.0 35.0 76.0 0.0 . 82 . 0.330189 0 none . . PASS Atlas-Indel,Pindel SLC41A3 54946 hgsc.bcm.edu hg19 3 125725271 125725271 + Frame_Shift_Del DEL C C - rs377657493 alternate_allele TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 C C . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . SLC41A3 NM_001008485 exon12 c.1504delT p.L502X . . 219.0 72.0 322.0 0.0 . 80 . 0.328767 0 alt . . PASS Atlas-Indel,Pindel LRRK1 79705 hgsc.bcm.edu hg19 15 101550745 101550745 + Frame_Shift_Del DEL A A - novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . LRRK1 NM_024652 exon8 c.1079delC p.S360X . . 216.0 67.0 285.0 0.0 . 310 . 0.310185 0 none . . PASS Atlas-Indel,Pindel TTC28 23331 hgsc.bcm.edu hg19 22 28490116 28490118 + In_Frame_Del DEL TGC TGC - novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 TGC TGC . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . TTC28 NM_001145418 exon12 c.3883_3885del p.1295_1295del . . 73.0 26.0 82.0 0.0 . 84 . 0.356164 0 none . . PASS Atlas-Indel,Pindel TEP1 7011 hgsc.bcm.edu hg19 14 20839416 20839416 + Frame_Shift_Del DEL A A - novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . TEP1 NM_007110 exon51 c.7279delG p.V2427fs . . 113.0 32.0 174.0 0.0 . 224 . 0.283186 0 none . . PASS Atlas-Indel,Pindel SMC6 79677 hgsc.bcm.edu hg19 2 17902443 17902443 + Frame_Shift_Del DEL A A - novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . SMC6 NM_001142286 exon10 c.813delA p.L271fs . . 366.0 114.0 341.0 0.0 . 102 . 0.311475 0 none . . PASS Atlas-Indel,Pindel TF 7018 hgsc.bcm.edu hg19 3 133497449 133497449 + Frame_Shift_Del DEL T T - novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . TF NM_001063 exon17 c.2081delC p.T694fs . . 90.0 26.0 100.0 0.0 . 116 . 0.288889 0 none . . PASS Atlas-Indel,Pindel CERS3 204219 hgsc.bcm.edu hg19 15 100943017 100943018 + Frame_Shift_Ins INS - - T novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 LASS3,colon,carcinoma,0,1 . NM_178842 exon13 c.1053_1054insA p.E351fs . . 67.0 25.0 58.0 0.0 . . . 0.373134 0 none . . PASS Atlas-INDEL CNTF 1270 hgsc.bcm.edu hg19 11 58391563 58391569 + Frame_Shift_Del DEL AGTGGCA AGTGGCA - novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 AGTGGCA AGTGGCA . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . CNTF NM_000614 exon2 c.170_176del p.57_59del . . 108.0 33.0 91.0 0.0 . 22 . 0.305556 0 none . . PASS Atlas-Indel,Pindel RBMS2 5939 hgsc.bcm.edu hg19 12 56975006 56975007 + Frame_Shift_Ins INS - - T novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 - - . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . RBMS2 NM_002898 exon6 c.581_582insT p.H194fs . . 110.0 59.0 101.0 0.0 . 29 . 0.536364 0 none . . PASS Atlas-Indel,Pindel CNST 163882 hgsc.bcm.edu hg19 1 246829056 246829056 + Frame_Shift_Del DEL T T - novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 T T . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . CNST NM_152609 exon11 c.2026delG p.V676fs . . 88.0 29.0 117.0 0.0 . 73 . 0.329545 0 none . . PASS Atlas-Indel,Pindel SPATA8 145946 hgsc.bcm.edu hg19 15 97328262 97328262 + Frame_Shift_Del DEL A A - novel TCGA-SX-A7SR-01A-12D-A35Z-10 TCGA-SX-A7SR-10A-01D-A35Z-10 A A . . . . Unknown Untested Somatic PhaseI WXS none . . Illumina HiSeq 4ac24403-4088-4192-a6ee-57913809b464 3c89ac32-79c6-4277-ace0-1bc1779f3be8 . SPATA8 NM_173499 exon3 c.232delC p.Q78fs . . 43.0 15.0 66.0 0.0 . 42 . 0.348837 0 none . . PASS Atlas-Indel,Pindel