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 ENO1 2023 genome.wustl.edu 37 1 8927201 8927201 + Missense_Mutation SNP T T C novel TCGA-B5-A121-01A-31D-A122-09 TCGA-B5-A121-10A-01D-A122-09 T T Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx d594d627-41ba-4f71-8838-ee617bf9e428 8e793ec2-e2cd-4242-b5d8-f6e93351e997 NM_001428.2 -1 reviewed p.N140S 0.999 57 0% 31 45.2% 1253 40.7% benign(0.209) deleterious(0.03) neutral(0.385) superfamily_Enolase N-terminal domain-like PLA2G2E 30814 genome.wustl.edu 37 1 20248863 20248863 + Missense_Mutation SNP G G T novel TCGA-B5-A121-01A-31D-A122-09 TCGA-B5-A121-10A-01D-A122-09 G G Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx d594d627-41ba-4f71-8838-ee617bf9e428 8e793ec2-e2cd-4242-b5d8-f6e93351e997 NM_014589.1 -1 provisional p.L72M 0.064 84 0% 49 38.8% 0 - benign(0.289) tolerated(0.07) neutral(0.408) HMMPfam_Phospholip_A2_1,HMMSmart_PA2c,superfamily_PhospholipaseA2 ARID1A 8289 genome.wustl.edu 37 1 27099325 27099325 + Nonsense_Mutation SNP C C T novel TCGA-B5-A121-01A-31D-A122-09 TCGA-B5-A121-10A-01D-A122-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx d594d627-41ba-4f71-8838-ee617bf9e428 8e793ec2-e2cd-4242-b5d8-f6e93351e997 NM_006015.4 +1 reviewed p.Q1188* 1.000 337 0% 264 28% 6 33.3% - - - NULL RNF19B 127544 genome.wustl.edu 37 1 33415339 33415339 + Silent SNP C C T novel TCGA-B5-A121-01A-31D-A122-09 TCGA-B5-A121-10A-01D-A122-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx d594d627-41ba-4f71-8838-ee617bf9e428 8e793ec2-e2cd-4242-b5d8-f6e93351e997 NM_153341.2 -1 validated p.P224 0.998 199 0% 90 28.9% 14 21.4% - - - HMMPfam_IBR,HMMSmart_SM00647,superfamily_RING/U-box FLG 2312 genome.wustl.edu 37 1 152286975 152286975 + Missense_Mutation SNP T T G novel TCGA-B5-A121-01A-31D-A122-09 TCGA-B5-A121-10A-01D-A122-09 T T Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx d594d627-41ba-4f71-8838-ee617bf9e428 8e793ec2-e2cd-4242-b5d8-f6e93351e997 NM_002016.1 -1 reviewed p.E129D 0.003 515 0% 631 34.5% 1 100% possibly_damaging(0.945) tolerated(0.43) neutral(0.403) NULL MTA3 57504 genome.wustl.edu 37 2 42936168 42936168 + Missense_Mutation SNP C C G novel TCGA-B5-A121-01A-31D-A122-09 TCGA-B5-A121-10A-01D-A122-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx d594d627-41ba-4f71-8838-ee617bf9e428 8e793ec2-e2cd-4242-b5d8-f6e93351e997 NM_020744.2 +1 provisional p.T486S 1.000 209 0% 193 33.2% 63 39.6% benign(0) deleterious(0.01) neutral(0.406) NULL XPO1 7514 genome.wustl.edu 37 2 61719862 61719862 + Missense_Mutation SNP T T C novel TCGA-B5-A121-01A-31D-A122-09 TCGA-B5-A121-10A-01D-A122-09 T T Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx d594d627-41ba-4f71-8838-ee617bf9e428 8e793ec2-e2cd-4242-b5d8-f6e93351e997 NM_003400.3 -1 reviewed p.Y469C 1.000 115 0% 130 35.4% 35 37.1% benign(0.004) tolerated(0.21) neutral(0.044) superfamily_ARM-type_fold RAPGEF4 11069 genome.wustl.edu 37 2 173830352 173830352 + Missense_Mutation SNP C C A novel TCGA-B5-A121-01A-31D-A122-09 TCGA-B5-A121-10A-01D-A122-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx d594d627-41ba-4f71-8838-ee617bf9e428 8e793ec2-e2cd-4242-b5d8-f6e93351e997 NM_007023.3 +1 validated p.S254Y 1.000 413 0% 277 41.2% 2 50% benign(0.398) deleterious(0) deleterious(0.573) "HMMPfam_DEP,HMMSmart_SM00049,superfamily_""Winged helix"" DNA-binding domain" CTNNB1 1499 genome.wustl.edu 37 3 41266137 41266137 + Missense_Mutation SNP C C G rs121913409 byCluster TCGA-B5-A121-01A-31D-A122-09 TCGA-B5-A121-10A-01D-A122-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx d594d627-41ba-4f71-8838-ee617bf9e428 8e793ec2-e2cd-4242-b5d8-f6e93351e997 NM_001098209.1 +1 reviewed p.S45C 1.000 141 0% 120 45% 108 59.2% probably_damaging(0.997) deleterious(0) deleterious(0.911) NULL ROBO1 6091 genome.wustl.edu 37 3 78708849 78708849 + Missense_Mutation SNP A A C novel TCGA-B5-A121-01A-31D-A122-09 TCGA-B5-A121-10A-01D-A122-09 A A Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx d594d627-41ba-4f71-8838-ee617bf9e428 8e793ec2-e2cd-4242-b5d8-f6e93351e997 NM_002941.3 -1 reviewed p.V810G 1.000 135 0% 122 37.7% 3 0% benign(0.408) deleterious(0) deleterious(0.577) HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III NAA15 80155 genome.wustl.edu 37 4 140258087 140258091 + Frame_Shift_Del DEL TGACT TGACT - novel TCGA-B5-A121-01A-31D-A122-09 TCGA-B5-A121-10A-01D-A122-09 TGACT TGACT Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx d594d627-41ba-4f71-8838-ee617bf9e428 8e793ec2-e2cd-4242-b5d8-f6e93351e997 NM_057175.3 +1 validated p.D76fs 1.000:1.000:1.000:1.000:1.000 - - - - - - - - - HMMSmart_SM00028,superfamily_TPR-like MAML3 55534 genome.wustl.edu 37 4 140812062 140812062 + Silent SNP C C T novel TCGA-B5-A121-01A-31D-A122-09 TCGA-B5-A121-10A-01D-A122-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx d594d627-41ba-4f71-8838-ee617bf9e428 8e793ec2-e2cd-4242-b5d8-f6e93351e997 NM_018717.4 -1 validated p.Q176 1.000 311 0% 225 35.6% 1 100% - - - NULL ITK 3702 genome.wustl.edu 37 5 156671410 156671410 + Silent SNP G G A novel TCGA-B5-A121-01A-31D-A122-09 TCGA-B5-A121-10A-01D-A122-09 G G Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx d594d627-41ba-4f71-8838-ee617bf9e428 8e793ec2-e2cd-4242-b5d8-f6e93351e997 NM_005546.3 +1 reviewed p.E457 0.204 287 0% 179 35.8% 1 0% - - - HMMPfam_Pkinase_Tyr,HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like) EDN1 1906 genome.wustl.edu 37 6 12294263 12294263 + Missense_Mutation SNP G G C novel TCGA-B5-A121-01A-31D-A122-09 TCGA-B5-A121-10A-01D-A122-09 G G Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx d594d627-41ba-4f71-8838-ee617bf9e428 8e793ec2-e2cd-4242-b5d8-f6e93351e997 NM_001955.4 +1 reviewed p.R108T 1.000 112 0% 106 35.8% 14 14.2% probably_damaging(1) deleterious(0) deleterious(0.945) HMMSmart_SM00272 LOC340268 340268 genome.wustl.edu 37 7 9767549 9767549 + RNA SNP C C T novel TCGA-B5-A121-01A-31D-A122-09 TCGA-B5-A121-10A-01D-A122-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx d594d627-41ba-4f71-8838-ee617bf9e428 8e793ec2-e2cd-4242-b5d8-f6e93351e997 XR_041608.1 +1 model NULL 0.972 126 0.8% 88 13.6% 0 - - - - - GRM3 2913 genome.wustl.edu 37 7 86415969 86415969 + Silent SNP C C T novel TCGA-B5-A121-01A-31D-A122-09 TCGA-B5-A121-10A-01D-A122-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx d594d627-41ba-4f71-8838-ee617bf9e428 8e793ec2-e2cd-4242-b5d8-f6e93351e997 NM_000840.2 +1 reviewed p.A287 0.000 30 0% 12 33.3% 0 - - - - HMMPfam_ANF_receptor,superfamily_Periplasmic binding protein-like I CDK14 5218 genome.wustl.edu 37 7 90747378 90747378 + Splice_Site SNP A A G novel TCGA-B5-A121-01A-31D-A122-09 TCGA-B5-A121-10A-01D-A122-09 A A Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx d594d627-41ba-4f71-8838-ee617bf9e428 8e793ec2-e2cd-4242-b5d8-f6e93351e997 NM_012395.2 +1 validated e13-2 1.000 206 0% 215 35.8% 0 - - - - - CNPY4 245812 genome.wustl.edu 37 7 99722197 99722197 + Missense_Mutation SNP G G A novel TCGA-B5-A121-01A-31D-A122-09 TCGA-B5-A121-10A-01D-A122-09 G G Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx d594d627-41ba-4f71-8838-ee617bf9e428 8e793ec2-e2cd-4242-b5d8-f6e93351e997 NM_152755.1 +1 validated p.E176K 1.000 268 0% 215 34.4% 14 35.7% possibly_damaging(0.521) tolerated(0.18) neutral(0.231) NULL CSMD3 114788 genome.wustl.edu 37 8 113395845 113395845 + Missense_Mutation SNP G G T novel TCGA-B5-A121-01A-31D-A122-09 TCGA-B5-A121-10A-01D-A122-09 G G Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx d594d627-41ba-4f71-8838-ee617bf9e428 8e793ec2-e2cd-4242-b5d8-f6e93351e997 NM_198123.1 -1 validated p.D1994E 1.000 300 0% 234 31.2% 0 - probably_damaging(0.998) tolerated(1) deleterious(0.474) HMMPfam_CUB,HMMSmart_SM00042,superfamily_Spermadhesin CUB domain IFNA17 3451 genome.wustl.edu 37 9 21227716 21227717 + Frame_Shift_Del DEL AA AA - novel TCGA-B5-A121-01A-31D-A122-09 TCGA-B5-A121-10A-01D-A122-09 AA AA Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx d594d627-41ba-4f71-8838-ee617bf9e428 8e793ec2-e2cd-4242-b5d8-f6e93351e997 NM_021268.2 -1 validated p.Y153fs 0.053:0.006 - - - - - - - - - HMMPfam_Interferon,HMMSmart_IFabd,PatternScan_INTERFERON_A_B_D,superfamily_4_helix_cytokine FGFR2 2263 genome.wustl.edu 37 10 123279677 123279677 + Missense_Mutation SNP G G C rs79184941 byCluster TCGA-B5-A121-01A-31D-A122-09 TCGA-B5-A121-10A-01D-A122-09 G G Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx d594d627-41ba-4f71-8838-ee617bf9e428 8e793ec2-e2cd-4242-b5d8-f6e93351e997 NM_022970.3 -1 reviewed p.S252W 1.000 138 0% 109 56.9% 27 77.7% probably_damaging(0.963) tolerated(0.07) deleterious(0.725) NULL RAG2 5897 genome.wustl.edu 37 11 36614483 36614483 + Missense_Mutation SNP C C A novel TCGA-B5-A121-01A-31D-A122-09 TCGA-B5-A121-10A-01D-A122-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx d594d627-41ba-4f71-8838-ee617bf9e428 8e793ec2-e2cd-4242-b5d8-f6e93351e997 NM_000536.3 -1 reviewed p.E412D 0.993 373 0% 321 33.6% 0 - possibly_damaging(0.788) deleterious(0) deleterious(0.740) HMMPfam_RAG2 F2 2147 genome.wustl.edu 37 11 46748089 46748089 + Missense_Mutation SNP G G A novel TCGA-B5-A121-01A-31D-A122-09 TCGA-B5-A121-10A-01D-A122-09 G G Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx d594d627-41ba-4f71-8838-ee617bf9e428 8e793ec2-e2cd-4242-b5d8-f6e93351e997 NM_000506.3 +1 reviewed p.D306N 0.929 101 0% 69 30.4% 0 - benign(0.001) tolerated(0.25) neutral(0.037) NULL LRIG3 121227 genome.wustl.edu 37 12 59276692 59276692 + Frame_Shift_Del DEL C C - novel TCGA-B5-A121-01A-31D-A122-09 TCGA-B5-A121-10A-01D-A122-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx d594d627-41ba-4f71-8838-ee617bf9e428 8e793ec2-e2cd-4242-b5d8-f6e93351e997 NM_153377.3 -1 provisional p.G480fs 1.000 - - - - - - - - - HMMPfam_LRRCT,HMMSmart_SM00082,superfamily_RNI-like F7 2155 genome.wustl.edu 37 13 113772917 113772917 + Silent SNP G G A novel TCGA-B5-A121-01A-31D-A122-09 TCGA-B5-A121-10A-01D-A122-09 G G Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx d594d627-41ba-4f71-8838-ee617bf9e428 8e793ec2-e2cd-4242-b5d8-f6e93351e997 NM_000131.3 +1 reviewed p.T332 0.004 27 0% 28 53.6% 0 - - - - HMMPfam_Trypsin,HMMSmart_SM00020,superfamily_Trypsin-like serine proteases ADAM21 8747 genome.wustl.edu 37 14 70926271 70926271 + Silent SNP G G A novel TCGA-B5-A121-01A-31D-A122-09 TCGA-B5-A121-10A-01D-A122-09 G G Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx d594d627-41ba-4f71-8838-ee617bf9e428 8e793ec2-e2cd-4242-b5d8-f6e93351e997 NM_003813.2 +1 reviewed p.P685 0.000 274 0% 181 28.7% 0 - - - - NULL C15orf55 256646 genome.wustl.edu 37 15 34640630 34640630 + Silent SNP G G A novel TCGA-B5-A121-01A-31D-A122-09 TCGA-B5-A121-10A-01D-A122-09 G G Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx d594d627-41ba-4f71-8838-ee617bf9e428 8e793ec2-e2cd-4242-b5d8-f6e93351e997 NM_175741.1 +1 validated p.P159 0.008 88 0% 45 35.6% 0 - - - - NULL WDR90 197335 genome.wustl.edu 37 16 706010 706011 + Frame_Shift_Ins INS - - A novel TCGA-B5-A121-01A-31D-A122-09 TCGA-B5-A121-10A-01D-A122-09 - - Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx d594d627-41ba-4f71-8838-ee617bf9e428 8e793ec2-e2cd-4242-b5d8-f6e93351e997 ENST00000429287 +1 known p.R698fs 0.000:0.000 - - - - - - - - - NULL NLRC5 84166 genome.wustl.edu 37 16 57095843 57095846 + Frame_Shift_Del DEL AAAG AAAG - rs142124514 byCluster;by1000genomes TCGA-B5-A121-01A-31D-A122-09 TCGA-B5-A121-10A-01D-A122-09 AAAG AAAG Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx d594d627-41ba-4f71-8838-ee617bf9e428 8e793ec2-e2cd-4242-b5d8-f6e93351e997 ENST00000327982 +1 known p.K1096fs 0.005:0.002:0.000:0.000 - - - - - - - - - NULL H3F3B 3021 genome.wustl.edu 37 17 73775127 73775127 + Splice_Site SNP C C A novel TCGA-B5-A121-01A-31D-A122-09 TCGA-B5-A121-10A-01D-A122-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx d594d627-41ba-4f71-8838-ee617bf9e428 8e793ec2-e2cd-4242-b5d8-f6e93351e997 NM_005324.3 -1 reviewed e1+1 1.000 61 0% 42 42.9% 28 67.8% - - - - GAA 2548 genome.wustl.edu 37 17 78081684 78081684 + Missense_Mutation SNP G G C novel TCGA-B5-A121-01A-31D-A122-09 TCGA-B5-A121-10A-01D-A122-09 G G Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx d594d627-41ba-4f71-8838-ee617bf9e428 8e793ec2-e2cd-4242-b5d8-f6e93351e997 NM_000152.3 +1 reviewed p.S315T 1.000 33 0% 18 33.3% 22 27.2% probably_damaging(0.999) deleterious(0.01) deleterious(0.896) NULL DCAF15 90379 genome.wustl.edu 37 19 14067218 14067218 + Missense_Mutation SNP A A T novel TCGA-B5-A121-01A-31D-A122-09 TCGA-B5-A121-10A-01D-A122-09 A A Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx d594d627-41ba-4f71-8838-ee617bf9e428 8e793ec2-e2cd-4242-b5d8-f6e93351e997 NM_138353.2 +1 provisional p.Q223L 1.000 55 0% 47 19.1% 31 41.9% probably_damaging(0.962) deleterious(0.01) deleterious(0.810) NULL MYO9B 4650 genome.wustl.edu 37 19 17278772 17278772 + Missense_Mutation SNP G G A novel TCGA-B5-A121-01A-31D-A122-09 TCGA-B5-A121-10A-01D-A122-09 G G Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx d594d627-41ba-4f71-8838-ee617bf9e428 8e793ec2-e2cd-4242-b5d8-f6e93351e997 NM_004145.3 +1 reviewed p.G564E 1.000 162 0% 96 36.5% 11 36.3% probably_damaging(1) deleterious(0) deleterious(0.945) HMMPfam_Myosin_head,HMMSmart_MYSc,superfamily_SSF52540 TTC28 23331 genome.wustl.edu 37 22 28559321 28559321 + Silent SNP C C A novel TCGA-B5-A121-01A-31D-A122-09 TCGA-B5-A121-10A-01D-A122-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx d594d627-41ba-4f71-8838-ee617bf9e428 8e793ec2-e2cd-4242-b5d8-f6e93351e997 NM_001145418.1 -1 validated p.L400 1.000 248 0% 167 34.7% 2 50% - - - HMMPfam_TPR_1,HMMSmart_TPR,superfamily_SSF48452 DRG1 4733 genome.wustl.edu 37 22 31807065 31807065 + Missense_Mutation SNP C C T novel TCGA-B5-A121-01A-31D-A122-09 TCGA-B5-A121-10A-01D-A122-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx d594d627-41ba-4f71-8838-ee617bf9e428 8e793ec2-e2cd-4242-b5d8-f6e93351e997 NM_004147.3 +1 validated p.A137V 1.000 555 0% 450 37.6% 43 41.8% probably_damaging(0.989) deleterious(0) deleterious(0.884) HMMPfam_MMR_HSR1,superfamily_P-loop containing nucleoside triphosphate hydrolases DRP2 1821 genome.wustl.edu 37 X 100513384 100513384 + Missense_Mutation SNP C C A novel TCGA-B5-A121-01A-31D-A122-09 TCGA-B5-A121-10A-01D-A122-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx d594d627-41ba-4f71-8838-ee617bf9e428 8e793ec2-e2cd-4242-b5d8-f6e93351e997 NM_001939.2 +1 reviewed p.A826E 0.004 80 0% 61 41% 0 - benign(0.007) tolerated(0.52) neutral(0.009) NULL MCF2 4168 genome.wustl.edu 37 X 138727727 138727727 + Silent SNP C C T novel TCGA-B5-A121-01A-31D-A122-09 TCGA-B5-A121-10A-01D-A122-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx d594d627-41ba-4f71-8838-ee617bf9e428 8e793ec2-e2cd-4242-b5d8-f6e93351e997 NM_001099855.1 -1 reviewed p.S77 0.514 195 0% 215 31.6% 0 - - - - HMMSmart_SEC14