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 ARID1A 8289 genome.wustl.edu 37 1 27087503 27087503 + Nonsense_Mutation SNP C C T novel TCGA-AX-A062-01A-11W-A027-09 TCGA-AX-A062-10A-01W-A027-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx a99ee1e9-1ef1-47ce-baec-3e785a7c4752 0fc17a40-535c-4202-86f4-5d8a3a0e4a3a NM_006015.4 +1 reviewed p.R693* 1.000 211 0% 228 89.9% 2 0% - - - NULL CTDSPL 10217 genome.wustl.edu 37 3 38017317 38017317 + Missense_Mutation SNP C C T novel TCGA-AX-A062-01A-11W-A027-09 TCGA-AX-A062-10A-01W-A027-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx a99ee1e9-1ef1-47ce-baec-3e785a7c4752 0fc17a40-535c-4202-86f4-5d8a3a0e4a3a NM_001008392.1 +1 validated p.R213W 1.000 129 0% 91 45.1% 2 0% probably_damaging(1) deleterious(0) deleterious(0.945) HMMPfam_NIF,HMMSmart_SM00577,superfamily_HAD-like SCN11A 11280 genome.wustl.edu 37 3 38888490 38888490 + Missense_Mutation SNP C C T novel TCGA-AX-A062-01A-11W-A027-09 TCGA-AX-A062-10A-01W-A027-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx a99ee1e9-1ef1-47ce-baec-3e785a7c4752 0fc17a40-535c-4202-86f4-5d8a3a0e4a3a NM_014139.2 -1 validated p.A1691T 0.997 197 0.5% 317 47% 0 - benign(0) tolerated(0.1) neutral(0.286) NULL CTNNB1 1499 genome.wustl.edu 37 3 41266101 41266101 + Missense_Mutation SNP C C G rs121913400 byCluster TCGA-AX-A062-01A-11W-A027-09 TCGA-AX-A062-10A-01W-A027-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx a99ee1e9-1ef1-47ce-baec-3e785a7c4752 0fc17a40-535c-4202-86f4-5d8a3a0e4a3a NM_001098209.1 +1 reviewed p.S33C 1.000 93 0% 124 49.2% 55 20% probably_damaging(1) deleterious(0) deleterious(0.945) NULL ZBBX 79740 genome.wustl.edu 37 3 166958670 166958670 + Missense_Mutation SNP A A G novel TCGA-AX-A062-01A-11W-A027-09 TCGA-AX-A062-10A-01W-A027-09 A A Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx a99ee1e9-1ef1-47ce-baec-3e785a7c4752 0fc17a40-535c-4202-86f4-5d8a3a0e4a3a NM_024687.2 -1 validated p.S772P 1.000 179 0% 258 43.8% 0 - benign(0.334) deleterious(0) deleterious(0.549) NULL PIK3CA 5290 genome.wustl.edu 37 3 178936082 178936082 + Missense_Mutation SNP G G A rs121913273 TCGA-AX-A062-01A-11W-A027-09 TCGA-AX-A062-10A-01W-A027-09 G G Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx a99ee1e9-1ef1-47ce-baec-3e785a7c4752 0fc17a40-535c-4202-86f4-5d8a3a0e4a3a NM_006218.2 +1 reviewed p.E542K 1.000 118 0% 147 42.2% 2 0% probably_damaging(0.989) deleterious(0.03) deleterious(0.804) HMMPfam_PI3Ka,HMMSmart_PI3Ka,superfamily_ARM-type_fold TM4SF19 116211 genome.wustl.edu 37 3 196053830 196053830 + Missense_Mutation SNP C C T novel TCGA-AX-A062-01A-11W-A027-09 TCGA-AX-A062-10A-01W-A027-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx a99ee1e9-1ef1-47ce-baec-3e785a7c4752 0fc17a40-535c-4202-86f4-5d8a3a0e4a3a NM_138461.2 -1 validated p.R92Q 0.000 34 0% 46 58.7% 1 0% benign(0.138) tolerated(0.34) neutral(0.035) HMMPfam_L6_membrane HERC3 8916 genome.wustl.edu 37 4 89574117 89574117 + Silent SNP G G A novel TCGA-AX-A062-01A-11W-A027-09 TCGA-AX-A062-10A-01W-A027-09 G G Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx a99ee1e9-1ef1-47ce-baec-3e785a7c4752 0fc17a40-535c-4202-86f4-5d8a3a0e4a3a NM_014606.1 +1 provisional p.L187 1.000 68 0% 113 46% 0 - - - - HMMPfam_RCC1,superfamily_RCC1/BLIP-II ADAMTS16 170690 genome.wustl.edu 37 5 5319209 5319209 + Silent SNP C C T novel TCGA-AX-A062-01A-11W-A027-09 TCGA-AX-A062-10A-01W-A027-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx a99ee1e9-1ef1-47ce-baec-3e785a7c4752 0fc17a40-535c-4202-86f4-5d8a3a0e4a3a NM_139056.2 +1 reviewed p.Y1211 1.000 19 0% 24 54.2% 0 - - - - HMMPfam_PLAC MBOAT1 154141 genome.wustl.edu 37 6 20113107 20113107 + Silent SNP C C T novel TCGA-AX-A062-01A-11W-A027-09 TCGA-AX-A062-10A-01W-A027-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx a99ee1e9-1ef1-47ce-baec-3e785a7c4752 0fc17a40-535c-4202-86f4-5d8a3a0e4a3a NM_001080480.1 -1 provisional p.A403 0.987 187 0% 198 45.5% 8 37.5% - - - HMMPfam_MBOAT MOG 4340 genome.wustl.edu 37 6 29638162 29638162 + Nonsense_Mutation SNP C C T novel TCGA-AX-A062-01A-11W-A027-09 TCGA-AX-A062-10A-01W-A027-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx a99ee1e9-1ef1-47ce-baec-3e785a7c4752 0fc17a40-535c-4202-86f4-5d8a3a0e4a3a NM_002433.4 +1 reviewed p.R233* 0.996 155 0% 160 51.2% 0 - - - - NULL PDE1C 5137 genome.wustl.edu 37 7 31887642 31887642 + Missense_Mutation SNP C C T novel TCGA-AX-A062-01A-11W-A027-09 TCGA-AX-A062-10A-01W-A027-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx a99ee1e9-1ef1-47ce-baec-3e785a7c4752 0fc17a40-535c-4202-86f4-5d8a3a0e4a3a NM_005020.1 -1 provisional p.R307H 1.000 343 0% 505 43.2% 0 - probably_damaging(0.999) deleterious(0) deleterious(0.935) HMMPfam_PDEase_I,HMMSmart_HDc,superfamily_SSF109604 GLI3 2737 genome.wustl.edu 37 7 42006178 42006178 + Silent SNP G G A novel TCGA-AX-A062-01A-11W-A027-09 TCGA-AX-A062-10A-01W-A027-09 G G Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx a99ee1e9-1ef1-47ce-baec-3e785a7c4752 0fc17a40-535c-4202-86f4-5d8a3a0e4a3a NM_000168.5 -1 reviewed p.S831 0.988 37 0% 60 41.7% 0 - - - - NULL C5 727 genome.wustl.edu 37 9 123742499 123742499 + Missense_Mutation SNP A A C novel TCGA-AX-A062-01A-11W-A027-09 TCGA-AX-A062-10A-01W-A027-09 A A Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx a99ee1e9-1ef1-47ce-baec-3e785a7c4752 0fc17a40-535c-4202-86f4-5d8a3a0e4a3a NM_001735.2 -1 reviewed p.F1174V 0.029 139 0% 153 52.3% 0 - possibly_damaging(0.833) deleterious(0.01) deleterious(0.723) superfamily_Terp_cyc_toroid,HMMPfam_A2M_comp TAF3 83860 genome.wustl.edu 37 10 8051225 8051225 + Missense_Mutation SNP G G A rs150758246 by1000genomes TCGA-AX-A062-01A-11W-A027-09 TCGA-AX-A062-10A-01W-A027-09 G G Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx a99ee1e9-1ef1-47ce-baec-3e785a7c4752 0fc17a40-535c-4202-86f4-5d8a3a0e4a3a NM_031923.2 +1 provisional p.A834T 0.016 4 0.000 8 0.625 0 - unknown(0) tolerated(0.24) - NULL NEBL 10529 genome.wustl.edu 37 10 21461311 21461311 + Splice_Site SNP C C G novel TCGA-AX-A062-01A-11W-A027-09 TCGA-AX-A062-10A-01W-A027-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx a99ee1e9-1ef1-47ce-baec-3e785a7c4752 0fc17a40-535c-4202-86f4-5d8a3a0e4a3a NM_213569.2 -1 reviewed e2+1 1.000 44 0% 68 35.3% 0 - - - - - ARMC4 55130 genome.wustl.edu 37 10 28260140 28260140 + Missense_Mutation SNP C C A novel TCGA-AX-A062-01A-11W-A027-09 TCGA-AX-A062-10A-01W-A027-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx a99ee1e9-1ef1-47ce-baec-3e785a7c4752 0fc17a40-535c-4202-86f4-5d8a3a0e4a3a NM_018076.2 -1 validated p.D347Y 0.002 300 0% 376 46% 0 - benign(0) deleterious(0.02) neutral(0.383) NULL CTSD 1509 genome.wustl.edu 37 11 1782613 1782613 + Missense_Mutation SNP C C A novel TCGA-AX-A062-01A-11W-A027-09 TCGA-AX-A062-10A-01W-A027-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx a99ee1e9-1ef1-47ce-baec-3e785a7c4752 0fc17a40-535c-4202-86f4-5d8a3a0e4a3a NM_001909.3 -1 reviewed p.V52F 0.000 6 0.000 15 0.733 65 13.8% benign(0) tolerated(0.69) neutral(0.002) superfamily_Pept_Aspartic ENSG00000180913 0 genome.wustl.edu 37 11 6150336 6150336 + Missense_Mutation SNP G G A novel TCGA-AX-A062-01A-11W-A027-09 TCGA-AX-A062-10A-01W-A027-09 G G Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx a99ee1e9-1ef1-47ce-baec-3e785a7c4752 0fc17a40-535c-4202-86f4-5d8a3a0e4a3a ENST00000316517 +1 known p.R166Q 0.000 47 0% 78 94.9% 0 - probably_damaging(0.999) deleterious(0.01) deleterious(0.896) HMMPfam_7tm_1,superfamily_SSF81321 OR4C13 283092 genome.wustl.edu 37 11 49974284 49974284 + Missense_Mutation SNP T T A novel TCGA-AX-A062-01A-11W-A027-09 TCGA-AX-A062-10A-01W-A027-09 T T Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx a99ee1e9-1ef1-47ce-baec-3e785a7c4752 0fc17a40-535c-4202-86f4-5d8a3a0e4a3a NM_001001955.2 +1 validated p.F104I 0.496 558 0% 884 44.3% 0 - benign(0.075) deleterious(0.04) neutral(0.354) HMMPfam_7tm_1,superfamily_SSF81321 MIR130A 406919 genome.wustl.edu 37 11 57408680 57408680 + RNA DEL C C - novel TCGA-AX-A062-01A-11W-A027-09 TCGA-AX-A062-10A-01W-A027-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx a99ee1e9-1ef1-47ce-baec-3e785a7c4752 0fc17a40-535c-4202-86f4-5d8a3a0e4a3a ENST00000385274 +1 known NULL 1.000 - - - - - - - - - - CCND1 595 genome.wustl.edu 37 11 69465985 69465985 + Nonsense_Mutation SNP G G T novel TCGA-AX-A062-01A-11W-A027-09 TCGA-AX-A062-10A-01W-A027-09 G G Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx a99ee1e9-1ef1-47ce-baec-3e785a7c4752 0fc17a40-535c-4202-86f4-5d8a3a0e4a3a NM_053056.2 +1 reviewed p.E275* 0.005 8 0.000 12 0.667 251 84% - - - HMMPfam_Cyclin_C CD163L1 283316 genome.wustl.edu 37 12 7528343 7528343 + Missense_Mutation SNP G G A novel TCGA-AX-A062-01A-11W-A027-09 TCGA-AX-A062-10A-01W-A027-09 G G Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx a99ee1e9-1ef1-47ce-baec-3e785a7c4752 0fc17a40-535c-4202-86f4-5d8a3a0e4a3a NM_174941.4 -1 reviewed p.P880L 0.000 230 0% 333 40.8% 0 - probably_damaging(0.999) tolerated(0.15) deleterious(0.732) HMMPfam_SRCR,HMMSmart_SM00202,superfamily_SRCR-like RIMBP2 23504 genome.wustl.edu 37 12 130926918 130926918 + Missense_Mutation SNP C C T novel TCGA-AX-A062-01A-11W-A027-09 TCGA-AX-A062-10A-01W-A027-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx a99ee1e9-1ef1-47ce-baec-3e785a7c4752 0fc17a40-535c-4202-86f4-5d8a3a0e4a3a NM_015347.4 -1 validated p.A310T 1.000 32 0% 83 43.4% 0 - probably_damaging(1) tolerated(0.25) deleterious(0.537) HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III AP1G2 8906 genome.wustl.edu 37 14 24031573 24031573 + Missense_Mutation SNP T T C novel TCGA-AX-A062-01A-11W-A027-09 TCGA-AX-A062-10A-01W-A027-09 T T Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx a99ee1e9-1ef1-47ce-baec-3e785a7c4752 0fc17a40-535c-4202-86f4-5d8a3a0e4a3a NM_003917.2 -1 reviewed p.M518V 0.041 109 0% 127 38.6% 25 56% benign(0) tolerated(0.27) neutral(0.034) HMMPfam_Adaptin_N,superfamily_ARM-type_fold MIR543 100126335 genome.wustl.edu 37 14 101498380 101498380 + RNA SNP G G A novel TCGA-AX-A062-01A-11W-A027-09 TCGA-AX-A062-10A-01W-A027-09 G G Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx a99ee1e9-1ef1-47ce-baec-3e785a7c4752 0fc17a40-535c-4202-86f4-5d8a3a0e4a3a ENST00000390751 +1 known NULL 1.000 44 0% 43 53.5% 0 - - - - - C15orf44 81556 genome.wustl.edu 37 15 65899781 65899781 + Splice_Site SNP C C T novel TCGA-AX-A062-01A-11W-A027-09 TCGA-AX-A062-10A-01W-A027-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx a99ee1e9-1ef1-47ce-baec-3e785a7c4752 0fc17a40-535c-4202-86f4-5d8a3a0e4a3a NM_030800.1 -1 predicted e1-1 0.962 17 0% 28 50% 0 - - - - - MON1B 22879 genome.wustl.edu 37 16 77228731 77228731 + Silent SNP G G A novel TCGA-AX-A062-01A-11W-A027-09 TCGA-AX-A062-10A-01W-A027-09 G G Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx a99ee1e9-1ef1-47ce-baec-3e785a7c4752 0fc17a40-535c-4202-86f4-5d8a3a0e4a3a NM_014940.2 +1 validated p.V325 1.000 56 0% 94 53.2% 6 16.6% - - - HMMPfam_Mon1 NUP88 4927 genome.wustl.edu 37 17 5289549 5289549 + Missense_Mutation SNP T T C novel TCGA-AX-A062-01A-11W-A027-09 TCGA-AX-A062-10A-01W-A027-09 T T Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx a99ee1e9-1ef1-47ce-baec-3e785a7c4752 0fc17a40-535c-4202-86f4-5d8a3a0e4a3a NM_002532.3 -1 reviewed p.I735V 0.983 299 0% 427 44% 56 39.2% benign(0.002) tolerated(0.29) neutral(0.029) HMMPfam_Nup88 STAT5B 6777 genome.wustl.edu 37 17 40354455 40354455 + Missense_Mutation SNP C C T novel TCGA-AX-A062-01A-11W-A027-09 TCGA-AX-A062-10A-01W-A027-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx a99ee1e9-1ef1-47ce-baec-3e785a7c4752 0fc17a40-535c-4202-86f4-5d8a3a0e4a3a NM_012448.3 -1 reviewed p.A714T 0.163 38 0% 39 41% 10 10% benign(0) tolerated(1) - NULL SPOP 8405 genome.wustl.edu 37 17 47696405 47696405 + Missense_Mutation SNP C C T novel TCGA-AX-A062-01A-11W-A027-09 TCGA-AX-A062-10A-01W-A027-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx a99ee1e9-1ef1-47ce-baec-3e785a7c4752 0fc17a40-535c-4202-86f4-5d8a3a0e4a3a NM_001007226.1 -1 reviewed p.D140N 1.000 460 0% 489 44.6% 2 0% probably_damaging(0.999) deleterious(0.03) deleterious(0.855) HMMPfam_MATH,HMMSmart_SM00061,superfamily_TRAF domain-like PRX 57716 genome.wustl.edu 37 19 40900505 40900505 + Missense_Mutation SNP C C T novel TCGA-AX-A062-01A-11W-A027-09 TCGA-AX-A062-10A-01W-A027-09 C C Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx a99ee1e9-1ef1-47ce-baec-3e785a7c4752 0fc17a40-535c-4202-86f4-5d8a3a0e4a3a NM_181882.2 -1 reviewed p.A1252T 0.001 45 0% 44 31.8% 0 - benign(0) tolerated(0.86) neutral(0.001) NULL CLASRP 11129 genome.wustl.edu 37 19 45572491 45572494 + Frame_Shift_Del DEL GCAA GCAA - novel TCGA-AX-A062-01A-11W-A027-09 TCGA-AX-A062-10A-01W-A027-09 GCAA GCAA Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx a99ee1e9-1ef1-47ce-baec-3e785a7c4752 0fc17a40-535c-4202-86f4-5d8a3a0e4a3a NM_007056.2 +1 validated p.K621fs 1.000:1.000:1.000:1.000 - - - - - - - - - NULL CRYBB2 1415 genome.wustl.edu 37 22 25625530 25625530 + Missense_Mutation SNP G G A novel TCGA-AX-A062-01A-11W-A027-09 TCGA-AX-A062-10A-01W-A027-09 G G Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx a99ee1e9-1ef1-47ce-baec-3e785a7c4752 0fc17a40-535c-4202-86f4-5d8a3a0e4a3a NM_000496.2 +1 reviewed p.R145Q 1.000 73 0% 73 47.9% 0 - benign(0.305) tolerated(0.21) neutral(0.139) HMMPfam_Crystall,HMMSmart_XTALbg,superfamily_G_crystallin_SF PPEF1 5475 genome.wustl.edu 37 X 18836172 18836172 + Silent SNP A A G novel TCGA-AX-A062-01A-11W-A027-09 TCGA-AX-A062-10A-01W-A027-09 A A Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx a99ee1e9-1ef1-47ce-baec-3e785a7c4752 0fc17a40-535c-4202-86f4-5d8a3a0e4a3a NM_006240.2 +1 reviewed p.E470 0.660 346 0% 325 46.5% 0 - benign(0.003) - - superfamily_Metallo-dependent phosphatases RPL39 6170 genome.wustl.edu 37 X 118923932 118923932 + Missense_Mutation SNP T T C novel TCGA-AX-A062-01A-11W-A027-09 TCGA-AX-A062-10A-01W-A027-09 T T Unknown Untested Somatic Phase_IV WXS none 1 dbGAP Illumina GAIIx a99ee1e9-1ef1-47ce-baec-3e785a7c4752 0fc17a40-535c-4202-86f4-5d8a3a0e4a3a NM_001000.2 -1 reviewed p.K16E 1.000 218 0% 209 46.9% 985 0% possibly_damaging(0.493) deleterious(0.01) deleterious(0.570) HMMPfam_Ribosomal_L39,superfamily_Ribosomal protein L39e