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 transcript_name strand transcript_status amino_acid_change ucsc_cons normal_depth normal_vaf tumor_depth tumor_vaf rna_depth rna_vaf polyphen sift condel domain GNL2 29889 genome.wustl.edu 37 1 38059409 38059409 + Missense_Mutation SNP G G A novel TCGA-D1-A17N-01A-11D-A12J-09 TCGA-D1-A17N-10A-01D-A12J-09 G G Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx 3a0d98ba-0880-48c4-9014-35a8e2d38422 26af153d-84b6-4737-93d3-5da95cae3855 NM_013285.2 -1 validated p.R35W 1.000 139 0% 128 25.8% 5 40% probably_damaging(1) deleterious(0) deleterious(0.945) NULL BRDT 676 genome.wustl.edu 37 1 92446700 92446700 + Missense_Mutation SNP C C T novel TCGA-D1-A17N-01A-11D-A12J-09 TCGA-D1-A17N-10A-01D-A12J-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx 3a0d98ba-0880-48c4-9014-35a8e2d38422 26af153d-84b6-4737-93d3-5da95cae3855 NM_001726.3 +1 validated p.S572L 0.000 166 0% 166 25.9% 0 - benign(0.001) tolerated(0.44) neutral(0.013) NULL IL20 50604 genome.wustl.edu 37 1 207040742 207040742 + Missense_Mutation SNP C C T novel TCGA-D1-A17N-01A-11D-A12J-09 TCGA-D1-A17N-10A-01D-A12J-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx 3a0d98ba-0880-48c4-9014-35a8e2d38422 26af153d-84b6-4737-93d3-5da95cae3855 NM_018724.3 +1 reviewed p.T131I 0.760 469 0% 415 27% 0 - benign(0.004) tolerated(0.21) neutral(0.044) superfamily_4_helix_cytokine,HMMPfam_IL10,HMMSmart_IL10 TPO 7173 genome.wustl.edu 37 2 1437329 1437329 + Missense_Mutation SNP C C T novel TCGA-D1-A17N-01A-11D-A12J-09 TCGA-D1-A17N-10A-01D-A12J-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx 3a0d98ba-0880-48c4-9014-35a8e2d38422 26af153d-84b6-4737-93d3-5da95cae3855 NM_000547.5 +1 reviewed p.A100V 0.001 360 0% 357 15.1% 0 - benign(0.001) tolerated(0.54) neutral(0.007) NULL KCMF1 56888 genome.wustl.edu 37 2 85276556 85276556 + Silent SNP C C A novel TCGA-D1-A17N-01A-11D-A12J-09 TCGA-D1-A17N-10A-01D-A12J-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx 3a0d98ba-0880-48c4-9014-35a8e2d38422 26af153d-84b6-4737-93d3-5da95cae3855 NM_020122.4 +1 validated p.S223 1.000 194 0% 167 29.3% 93 25.8% - - - NULL KCMF1 56888 genome.wustl.edu 37 2 85276557 85276557 + Missense_Mutation SNP G G A novel TCGA-D1-A17N-01A-11D-A12J-09 TCGA-D1-A17N-10A-01D-A12J-09 G G Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx 3a0d98ba-0880-48c4-9014-35a8e2d38422 26af153d-84b6-4737-93d3-5da95cae3855 NM_020122.4 +1 validated p.A224T 1.000 195 0% 168 30.4% 89 26.9% benign(0.01) tolerated(1) neutral(0.001) NULL ASTL 431705 genome.wustl.edu 37 2 96789753 96789753 + Missense_Mutation SNP C C T novel TCGA-D1-A17N-01A-11D-A12J-09 TCGA-D1-A17N-10A-01D-A12J-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx 3a0d98ba-0880-48c4-9014-35a8e2d38422 26af153d-84b6-4737-93d3-5da95cae3855 NM_001002036.3 -1 validated p.A378T 0.000 29 0% 59 27.1% 0 - benign(0.316) deleterious(0) deleterious(0.543) NULL LOC653781 653781 genome.wustl.edu 37 2 131414646 131414646 + Silent SNP C C A novel TCGA-D1-A17N-01A-11D-A12J-09 TCGA-D1-A17N-10A-01D-A12J-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx 3a0d98ba-0880-48c4-9014-35a8e2d38422 26af153d-84b6-4737-93d3-5da95cae3855 XM_929706.3 +1 model p.A771 0.999 60 0% 64 32.8% 610 0% - - - HMMPfam_Actin,HMMSmart_SM00268,PatternScan_ACTINS_ACT_LIKE,superfamily_Actin-like ATPase domain ANKAR 150709 genome.wustl.edu 37 2 190606138 190606138 + Silent SNP C C A novel TCGA-D1-A17N-01A-11D-A12J-09 TCGA-D1-A17N-10A-01D-A12J-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx 3a0d98ba-0880-48c4-9014-35a8e2d38422 26af153d-84b6-4737-93d3-5da95cae3855 NM_144708.3 +1 validated p.I1186 0.370 183 0% 181 29.8% 0 - - - - HMMSmart_SM00185,superfamily_ARM repeat KIF1A 547 genome.wustl.edu 37 2 241722015 241722015 + Missense_Mutation SNP G G A novel TCGA-D1-A17N-01A-11D-A12J-09 TCGA-D1-A17N-10A-01D-A12J-09 G G Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx 3a0d98ba-0880-48c4-9014-35a8e2d38422 26af153d-84b6-4737-93d3-5da95cae3855 NM_004321.4 -1 reviewed p.P292S 1.000 85 0% 100 22% 0 - benign(0) tolerated(0.59) neutral(0.004) HMMPfam_Kinesin,HMMSmart_SM00129,superfamily_P-loop containing nucleoside triphosphate hydrolases CTNNB1 1499 genome.wustl.edu 37 3 41266103 41266103 + Missense_Mutation SNP G G A rs121913399 TCGA-D1-A17N-01A-11D-A12J-09 TCGA-D1-A17N-10A-01D-A12J-09 G G Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx 3a0d98ba-0880-48c4-9014-35a8e2d38422 26af153d-84b6-4737-93d3-5da95cae3855 NM_001098209.1 +1 reviewed p.G34R 1.000 104 0% 129 23.3% 57 26.3% probably_damaging(1) deleterious(0) deleterious(0.945) NULL COPG1 22820 genome.wustl.edu 37 3 128991187 128991187 + Missense_Mutation SNP G G A novel TCGA-D1-A17N-01A-11D-A12J-09 TCGA-D1-A17N-10A-01D-A12J-09 G G Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx 3a0d98ba-0880-48c4-9014-35a8e2d38422 26af153d-84b6-4737-93d3-5da95cae3855 NM_016128.3 +1 validated p.R696Q 0.446 111 0% 100 26% 585 38.4% benign(0) tolerated(0.32) neutral(0.024) superfamily_Clathrin adaptor appendage domain,HMMPfam_Gamma-COP P4HA2 8974 genome.wustl.edu 37 5 131546193 131546193 + Missense_Mutation SNP T T G novel TCGA-D1-A17N-01A-11D-A12J-09 TCGA-D1-A17N-10A-01D-A12J-09 T T Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx 3a0d98ba-0880-48c4-9014-35a8e2d38422 26af153d-84b6-4737-93d3-5da95cae3855 NM_001142599.1 -1 reviewed p.S165R 1.000 185 0% 166 23.5% 42 47.6% possibly_damaging(0.947) deleterious(0) deleterious(0.835) NULL TCERG1 10915 genome.wustl.edu 37 5 145862252 145862252 + Nonsense_Mutation SNP C C T novel TCGA-D1-A17N-01A-11D-A12J-09 TCGA-D1-A17N-10A-01D-A12J-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx 3a0d98ba-0880-48c4-9014-35a8e2d38422 26af153d-84b6-4737-93d3-5da95cae3855 NM_006706.3 +1 reviewed p.R662* 1.000 167 0.6% 168 30.4% 0 - - - - HMMPfam_FF,HMMSmart_SM00441,superfamily_FF domain REV3L 5980 genome.wustl.edu 37 6 111688528 111688528 + Silent SNP A A G novel TCGA-D1-A17N-01A-11D-A12J-09 TCGA-D1-A17N-10A-01D-A12J-09 A A Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx 3a0d98ba-0880-48c4-9014-35a8e2d38422 26af153d-84b6-4737-93d3-5da95cae3855 NM_002912.3 -1 validated p.L2155 0.000 159 0% 160 21.2% 0 - - - - superfamily_Ribonuclease H-like GTF2IRD1 9569 genome.wustl.edu 37 7 73969767 73969767 + Nonsense_Mutation SNP G G T novel TCGA-D1-A17N-01A-11D-A12J-09 TCGA-D1-A17N-10A-01D-A12J-09 G G Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx 3a0d98ba-0880-48c4-9014-35a8e2d38422 26af153d-84b6-4737-93d3-5da95cae3855 NM_016328.1 +1 reviewed p.E671* 0.997 289 0% 301 25.6% 2 0% - - - NULL ZNF425 155054 genome.wustl.edu 37 7 148801598 148801598 + Silent SNP G G A novel TCGA-D1-A17N-01A-11D-A12J-09 TCGA-D1-A17N-10A-01D-A12J-09 G G Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx 3a0d98ba-0880-48c4-9014-35a8e2d38422 26af153d-84b6-4737-93d3-5da95cae3855 NM_001001661.2 -1 validated p.N455 0.000 25 0% 23 17.4% 2 50% - - - HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667 TNFRSF11B 4982 genome.wustl.edu 37 8 119936815 119936815 + Missense_Mutation SNP T T A novel TCGA-D1-A17N-01A-11D-A12J-09 TCGA-D1-A17N-10A-01D-A12J-09 T T Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx 3a0d98ba-0880-48c4-9014-35a8e2d38422 26af153d-84b6-4737-93d3-5da95cae3855 NM_002546.3 -1 reviewed p.K335I 0.717 542 0% 529 27.8% 8 25% probably_damaging(0.998) deleterious(0) deleterious(0.919) HMMPfam_Death,HMMSmart_SM00005,superfamily_DEATH domain ABL1 25 genome.wustl.edu 37 9 133760367 133760367 + Missense_Mutation SNP C C A novel TCGA-D1-A17N-01A-11D-A12J-09 TCGA-D1-A17N-10A-01D-A12J-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx 3a0d98ba-0880-48c4-9014-35a8e2d38422 26af153d-84b6-4737-93d3-5da95cae3855 NM_007313.2 +1 reviewed p.P916H 1.000 11 0.000 9 0.444 3 33.3% possibly_damaging(0.922) deleterious(0) deleterious(0.816) NULL PTEN 5728 genome.wustl.edu 37 10 89624305 89624305 + Splice_Site SNP T T G novel TCGA-D1-A17N-01A-11D-A12J-09 TCGA-D1-A17N-10A-01D-A12J-09 T T Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx 3a0d98ba-0880-48c4-9014-35a8e2d38422 26af153d-84b6-4737-93d3-5da95cae3855 NM_000314.4 +1 reviewed e1+1 1.000 312 0% 332 24.1% 6 33.3% probably_damaging(1) deleterious(0) deleterious(0.945) - PTEN 5728 genome.wustl.edu 37 10 89653821 89653821 + Frame_Shift_Del DEL A A - novel TCGA-D1-A17N-01A-11D-A12J-09 TCGA-D1-A17N-10A-01D-A12J-09 A A Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx 3a0d98ba-0880-48c4-9014-35a8e2d38422 26af153d-84b6-4737-93d3-5da95cae3855 ENST00000371953 +1 known p.R41fs 1.000 - - - - - - - - - HMMSmart_SM00404,superfamily_(Phosphotyrosine protein) phosphatases II PTEN 5728 genome.wustl.edu 37 10 89692918 89692918 + Missense_Mutation SNP G G C novel TCGA-D1-A17N-01A-11D-A12J-09 TCGA-D1-A17N-10A-01D-A12J-09 G G Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx 3a0d98ba-0880-48c4-9014-35a8e2d38422 26af153d-84b6-4737-93d3-5da95cae3855 ENST00000371953 +1 known p.M134I 1.000 311 0% 325 28.3% 4 0% possibly_damaging(0.576) deleterious(0) deleterious(0.642) HMMPfam_DSPc,HMMSmart_SM00404,superfamily_(Phosphotyrosine protein) phosphatases II DCHS1 8642 genome.wustl.edu 37 11 6646607 6646607 + Missense_Mutation SNP C C T novel TCGA-D1-A17N-01A-11D-A12J-09 TCGA-D1-A17N-10A-01D-A12J-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx 3a0d98ba-0880-48c4-9014-35a8e2d38422 26af153d-84b6-4737-93d3-5da95cae3855 NM_003737.2 -1 reviewed p.S2323N 1.000 97 0% 66 15.2% 17 0% possibly_damaging(0.496) deleterious(0.01) deleterious(0.571) HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin SPATA19 219938 genome.wustl.edu 37 11 133715304 133715304 + Missense_Mutation SNP C C T rs184572110 by1000genomes TCGA-D1-A17N-01A-11D-A12J-09 TCGA-D1-A17N-10A-01D-A12J-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx 3a0d98ba-0880-48c4-9014-35a8e2d38422 26af153d-84b6-4737-93d3-5da95cae3855 NM_174927.1 -1 provisional p.R13Q 0.991 183 0% 155 19.4% 0 - possibly_damaging(0.852) deleterious(0) deleterious(0.772) NULL CCDC60 160777 genome.wustl.edu 37 12 119968853 119968853 + Silent SNP C C T novel TCGA-D1-A17N-01A-11D-A12J-09 TCGA-D1-A17N-10A-01D-A12J-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx 3a0d98ba-0880-48c4-9014-35a8e2d38422 26af153d-84b6-4737-93d3-5da95cae3855 NM_178499.3 +1 validated p.I512 0.028 198 0% 163 22.7% 6 33.3% - - - NULL PRKCH 5583 genome.wustl.edu 37 14 61909894 61909894 + Nonsense_Mutation SNP C C T novel TCGA-D1-A17N-01A-11D-A12J-09 TCGA-D1-A17N-10A-01D-A12J-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx 3a0d98ba-0880-48c4-9014-35a8e2d38422 26af153d-84b6-4737-93d3-5da95cae3855 NM_006255.3 +1 reviewed p.R165* 0.998 207 0% 157 27.4% 7 0% - - - superfamily_Cysteine-rich domain AHNAK2 113146 genome.wustl.edu 37 14 105414186 105414186 + Missense_Mutation SNP C C A novel TCGA-D1-A17N-01A-11D-A12J-09 TCGA-D1-A17N-10A-01D-A12J-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx 3a0d98ba-0880-48c4-9014-35a8e2d38422 26af153d-84b6-4737-93d3-5da95cae3855 NM_138420.2 -1 validated p.Q2534H 0.000 169 0% 139 26.6% 0 - unknown(0) deleterious(0.04) - NULL SPATA22 84690 genome.wustl.edu 37 17 3370770 3370770 + Missense_Mutation SNP G G A novel TCGA-D1-A17N-01A-11D-A12J-09 TCGA-D1-A17N-10A-01D-A12J-09 G G Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx 3a0d98ba-0880-48c4-9014-35a8e2d38422 26af153d-84b6-4737-93d3-5da95cae3855 NM_032598.4 -1 validated p.S41L 1.000 386 0% 365 23.8% 0 - benign(0.032) deleterious(0.01) neutral(0.407) NULL C18orf21 83608 genome.wustl.edu 37 18 33557506 33557506 + Missense_Mutation SNP C C G novel TCGA-D1-A17N-01A-11D-A12J-09 TCGA-D1-A17N-10A-01D-A12J-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx 3a0d98ba-0880-48c4-9014-35a8e2d38422 26af153d-84b6-4737-93d3-5da95cae3855 NM_031446.3 +1 validated p.A145G 0.000 183 0% 159 33.3% 14 28.5% benign(0.003) tolerated(0.13) neutral(0.253) NULL SPTBN4 57731 genome.wustl.edu 37 19 41021261 41021261 + Missense_Mutation SNP G G A novel TCGA-D1-A17N-01A-11D-A12J-09 TCGA-D1-A17N-10A-01D-A12J-09 G G Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx 3a0d98ba-0880-48c4-9014-35a8e2d38422 26af153d-84b6-4737-93d3-5da95cae3855 NM_020971.2 +1 reviewed p.V937I 0.853 54 0% 55 27.3% 0 - benign(0.017) tolerated(0.23) neutral(0.042) HMMPfam_Spectrin,HMMSmart_SM00150,superfamily_Spectrin repeat RTN2 6253 genome.wustl.edu 37 19 45997526 45997526 + Nonsense_Mutation SNP C C A novel TCGA-D1-A17N-01A-11D-A12J-09 TCGA-D1-A17N-10A-01D-A12J-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx 3a0d98ba-0880-48c4-9014-35a8e2d38422 26af153d-84b6-4737-93d3-5da95cae3855 NM_005619.3 -1 reviewed p.E238* 0.026 143 0% 150 24% 1 0% - - - NULL TMPRSS15 5651 genome.wustl.edu 37 21 19687506 19687506 + Silent SNP G G A novel TCGA-D1-A17N-01A-11D-A12J-09 TCGA-D1-A17N-10A-01D-A12J-09 G G Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx 3a0d98ba-0880-48c4-9014-35a8e2d38422 26af153d-84b6-4737-93d3-5da95cae3855 NM_002772.2 -1 reviewed p.D663 0.000 234 0% 223 24.7% 0 - - - - HMMPfam_Ldl_recept_a,HMMSmart_SM00192,PatternScan_LDLRA_1,superfamily_LDL receptor-like module TREX2 11219 genome.wustl.edu 37 X 152710630 152710630 + Nonsense_Mutation SNP G G A novel TCGA-D1-A17N-01A-11D-A12J-09 TCGA-D1-A17N-10A-01D-A12J-09 G G Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx 3a0d98ba-0880-48c4-9014-35a8e2d38422 26af153d-84b6-4737-93d3-5da95cae3855 NM_080701.3 -1 reviewed p.R87* 0.000 23 0% 20 20% 11 0% - - - HMMSmart_EXOIII,superfamily_RNaseH_fold,HMMPfam_Exonuc_X-T