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 chromosome_name start stop reference variant type gene_name transcript_name transcript_species transcript_source transcript_version strand transcript_status trv_type c_position amino_acid_change ucsc_cons domain all_domains deletion_substructures transcript_error rsID rsID_ref_var_alleles CAF normal_ref_reads normal_var_reads normal_vaf tumor_ref_reads tumor_var_reads tumor_vaf normal_ref_reads_val normal_var_reads_val normal_vaf_val tumor_ref_reads_val tumor_var_reads_val tumor_vaf_val PABPC5 0 genome.wustl.edu 37 X 90691713 90691713 + Missense_Mutation SNP G G T TCGA-3G-AB19-01A-21D-A423-09 TCGA-3G-AB19-11A-22D-A426-09 G G G T G G Unknown Valid Somatic Phase_IV WXS Hybrid_Capture_Illumina_Seq Illumina HiSeq c4a51eb9-a828-443c-a8f7-20d9472e99c2 654ce79f-c5e7-44ed-b6b9-badc0c6469ef X 90691713 90691713 G T SNP PABPC5 ENST00000312600 human ensembl 74_37 1 known missense c.1137 p.R379S 0.99 tigrfam_PABP_1234 pfam_RRM_dom,smart_RRM_dom,smart_RRM_dom_euk,pfscan_RRM_dom,tigrfam_PABP_1234 0 no_errors 0 0 0 90 0 0 36 25 40.98 192 0 0.00 158 72 31.30 AVPR2 0 genome.wustl.edu 37 X 153171714 153171714 + Missense_Mutation SNP C C T TCGA-3G-AB19-01A-21D-A423-09 TCGA-3G-AB19-11A-22D-A426-09 C C C T C C Unknown Valid Somatic Phase_IV WXS Hybrid_Capture_Illumina_Seq Illumina HiSeq c4a51eb9-a828-443c-a8f7-20d9472e99c2 654ce79f-c5e7-44ed-b6b9-badc0c6469ef X 153171714 153171714 C T SNP AVPR2 ENST00000337474 human ensembl 74_37 1 known missense c.754 p.R252W 0.706 pfam_GPCR_Rhodpsn,pfam_7TM_GPCR_olfarory/Srsx,pfscan_GPCR_Rhodpsn_7TM,prints_Vprsn_rcpt_V2 pfam_GPCR_Rhodpsn,pfam_7TM_GPCR_olfarory/Srsx,pfscan_GPCR_Rhodpsn_7TM,prints_Vprsn_rcpt_V2,prints_Vasoprsn_rcpt,prints_GPCR_Rhodpsn 0 no_errors rs61733407 C->T 0 50 0 0 6 7 53.85 67 0 0.00 34 14 28.57 ZCCHC11 0 genome.wustl.edu 37 1 52929423 52929423 + RNA SNP G G C TCGA-3G-AB19-01A-21D-A423-09 TCGA-3G-AB19-11A-22D-A426-09 G G G C G G Unknown Valid Somatic Phase_IV WXS Hybrid_Capture_Illumina_Seq Illumina HiSeq c4a51eb9-a828-443c-a8f7-20d9472e99c2 654ce79f-c5e7-44ed-b6b9-badc0c6469ef 1 52929423 52929423 G C SNP ZCCHC11 ENST00000371541 human ensembl 74_37 -1 known rna NULL NULL 0.012 0 0 0 no_errors 0 0 0 91 0 0 46 39 45.35 334 2 0.60 209 99 32.14 TM2D1 0 genome.wustl.edu 37 1 62190776 62190776 + Missense_Mutation SNP G G C TCGA-3G-AB19-01A-21D-A423-09 TCGA-3G-AB19-11A-22D-A426-09 G G G C G G Unknown Valid Somatic Phase_IV WXS Hybrid_Capture_Illumina_Seq Illumina HiSeq c4a51eb9-a828-443c-a8f7-20d9472e99c2 654ce79f-c5e7-44ed-b6b9-badc0c6469ef 1 62190776 62190776 G C SNP TM2D1 ENST00000371180 human ensembl 74_37 -1 known missense c.203 p.P68R 0.004 NULL pfam_TM2 0 no_errors 0 0 0 42 0 0 23 19 45.24 67 0 0.00 34 18 34.62 KIF3C 0 genome.wustl.edu 37 2 26204457 26204457 + Silent SNP G G C TCGA-3G-AB19-01A-21D-A423-09 TCGA-3G-AB19-11A-22D-A426-09 G G G C G G Unknown Valid Somatic Phase_IV WXS Hybrid_Capture_Illumina_Seq Illumina HiSeq c4a51eb9-a828-443c-a8f7-20d9472e99c2 654ce79f-c5e7-44ed-b6b9-badc0c6469ef 2 26204457 26204457 G C SNP KIF3C ENST00000264712 human ensembl 74_37 -1 known silent c.330 p.T110 1 pfam_Kinesin_motor_dom,superfamily_P-loop_NTPase,smart_Kinesin_motor_dom,pfscan_Kinesin_motor_dom pfam_Kinesin_motor_dom,superfamily_P-loop_NTPase,smart_Kinesin_motor_dom,pfscan_Kinesin_motor_dom,prints_Kinesin_motor_dom 0 no_errors 0 0 0 57 0 0 25 20 44.44 230 1 0.43 96 65 40.37 NRXN1 0 genome.wustl.edu 37 2 50847200 50847200 + Missense_Mutation SNP C C A TCGA-3G-AB19-01A-21D-A423-09 TCGA-3G-AB19-11A-22D-A426-09 C C C A C C Unknown Valid Somatic Phase_IV WXS Hybrid_Capture_Illumina_Seq Illumina HiSeq c4a51eb9-a828-443c-a8f7-20d9472e99c2 654ce79f-c5e7-44ed-b6b9-badc0c6469ef 2 50847200 50847200 C A SNP NRXN1 ENST00000402717 human ensembl 74_37 -1 known missense c.1256 p.G419V 1 pfam_Laminin_G,superfamily_ConA-like_lec_gl_sf,smart_Laminin_G,pfscan_Laminin_G pfam_Laminin_G,superfamily_ConA-like_lec_gl_sf,smart_Laminin_G,smart_EG-like_dom,smart_Neurexin-like,pfscan_EG-like_dom,pfscan_Laminin_G 0 no_errors 0 0 0 29 0 0 39 20 33.9 215 0 0.00 144 61 29.76 HECW2 0 genome.wustl.edu 37 2 197172675 197172675 + Missense_Mutation SNP C C T TCGA-3G-AB19-01A-21D-A423-09 TCGA-3G-AB19-11A-22D-A426-09 C C C T C C Unknown Valid Somatic Phase_IV WXS Hybrid_Capture_Illumina_Seq Illumina HiSeq c4a51eb9-a828-443c-a8f7-20d9472e99c2 654ce79f-c5e7-44ed-b6b9-badc0c6469ef 2 197172675 197172675 C T SNP HECW2 ENST00000260983 human ensembl 74_37 -1 known missense c.2569 p.E857K 1 NULL pfam_HECT,pfam_WW_dom,pfam_C2_dom,superfamily_HECT,superfamily_WW_dom,superfamily_C2_dom,smart_C2_dom,smart_WW_dom,smart_HECT,pfscan_HECT,pfscan_C2_dom,pfscan_WW_dom 0 no_errors 0 0 0 57 0 0 26 13 33.33 258 2 0.77 123 75 37.88 BDP1 0 genome.wustl.edu 37 5 70763245 70763245 + Missense_Mutation SNP G G A TCGA-3G-AB19-01A-21D-A423-09 TCGA-3G-AB19-11A-22D-A426-09 G G G A G G Unknown Valid Somatic Phase_IV WXS Hybrid_Capture_Illumina_Seq Illumina HiSeq c4a51eb9-a828-443c-a8f7-20d9472e99c2 654ce79f-c5e7-44ed-b6b9-badc0c6469ef 5 70763245 70763245 G A SNP BDP1 ENST00000358731 human ensembl 74_37 1 known missense c.850 p.E284K 1 superfamily_Homeodomain-like superfamily_Homeodomain-like,smart_SANT/Myb 0 no_errors 0 0 0 64 0 0 62 43 40.95 356 2 0.56 292 119 28.95 KIF4B 0 genome.wustl.edu 37 5 154394947 154394947 + Missense_Mutation SNP G G A TCGA-3G-AB19-01A-21D-A423-09 TCGA-3G-AB19-11A-22D-A426-09 G G G A G G Unknown Valid Somatic Phase_IV WXS Hybrid_Capture_Illumina_Seq Illumina HiSeq c4a51eb9-a828-443c-a8f7-20d9472e99c2 654ce79f-c5e7-44ed-b6b9-badc0c6469ef 5 154394947 154394947 G A SNP KIF4B ENST00000435029 human ensembl 74_37 1 known missense c.1528 p.A510T 0.963 NULL pfam_Kinesin_motor_dom,superfamily_P-loop_NTPase,smart_Kinesin_motor_dom,pfscan_Kinesin_motor_dom,prints_Kinesin_motor_dom 0 no_errors 0 0 0 66 0 0 68 25 26.88 144 0 0.00 83 36 30.25 EHMT2 0 genome.wustl.edu 37 6 31850563 31850563 + Splice_Site SNP C C A TCGA-3G-AB19-01A-21D-A423-09 TCGA-3G-AB19-11A-22D-A426-09 C C C A C C Unknown Valid Somatic Phase_IV WXS Hybrid_Capture_Illumina_Seq Illumina HiSeq c4a51eb9-a828-443c-a8f7-20d9472e99c2 654ce79f-c5e7-44ed-b6b9-badc0c6469ef 6 31850563 31850563 C A SNP EHMT2 ENST00000395728 human ensembl 74_37 -1 known splice_site c.3282-1 e24-1 1 0 0 0 no_errors 0 0 0 39 0 0 16 9 34.62 105 0 0.00 60 16 21.05 GTF2I 0 genome.wustl.edu 37 7 74146970 74146970 + Missense_Mutation SNP T T A TCGA-3G-AB19-01A-21D-A423-09 TCGA-3G-AB19-11A-22D-A426-09 T T T A T T Unknown Valid Somatic Phase_IV WXS Hybrid_Capture_Illumina_Seq Illumina HiSeq c4a51eb9-a828-443c-a8f7-20d9472e99c2 654ce79f-c5e7-44ed-b6b9-badc0c6469ef 7 74146970 74146970 T A SNP GTF2I ENST00000324896 human ensembl 74_37 1 known missense c.1271 p.L424H 1 pfam_GTF2I,superfamily_GTF2I,pirsf_TF_II-I,pfscan_GTF2I pfam_GTF2I,superfamily_GTF2I,pirsf_TF_II-I,pfscan_GTF2I 0 no_errors 0 0 0 315 0 0 260 147 36.03 150 2 1.32 91 61 40.13 RIMS2 0 genome.wustl.edu 37 8 104948818 104948818 + Silent SNP A A G TCGA-3G-AB19-01A-21D-A423-09 TCGA-3G-AB19-11A-22D-A426-09 A A A G A A Unknown Valid Somatic Phase_IV WXS Hybrid_Capture_Illumina_Seq Illumina HiSeq c4a51eb9-a828-443c-a8f7-20d9472e99c2 654ce79f-c5e7-44ed-b6b9-badc0c6469ef 8 104948818 104948818 A G SNP RIMS2 ENST00000406091 human ensembl 74_37 1 known silent c.2415 p.T805 0.973 pfam_C2_dom,superfamily_C2_dom,smart_C2_dom,pfscan_C2_dom pfam_C2_dom,pfam_PDZ,superfamily_C2_dom,superfamily_Znf_FYVE_PHD,superfamily_PDZ,smart_PDZ,smart_C2_dom,pfscan_C2_dom,pfscan_PDZ,pfscan_Znf_FYVE-typ,pfscan_Znf_FYVE-rel 0 no_errors 0 0 0 64 0 0 105 62 36.9 279 0 0.00 195 108 35.64 TUBBP5 0 genome.wustl.edu 37 9 141069114 141069114 + RNA SNP G G A TCGA-3G-AB19-01A-21D-A423-09 TCGA-3G-AB19-11A-22D-A426-09 G G G A G G Unknown Valid Somatic Phase_IV WXS Hybrid_Capture_Illumina_Seq Illumina HiSeq c4a51eb9-a828-443c-a8f7-20d9472e99c2 654ce79f-c5e7-44ed-b6b9-badc0c6469ef 9 141069114 141069114 G A SNP TUBBP5 ENST00000503395 human ensembl 74_37 1 known rna NULL NULL 0.015 0 0 0 no_errors rs371804903 G->A 0 29 0 0 27 3 10 10 0 0.00 10 2 16.67 WDFY4 0 genome.wustl.edu 37 10 50151484 50151484 + Missense_Mutation SNP A A T TCGA-3G-AB19-01A-21D-A423-09 TCGA-3G-AB19-11A-22D-A426-09 A A A T A A Unknown Valid Somatic Phase_IV WXS Hybrid_Capture_Illumina_Seq Illumina HiSeq c4a51eb9-a828-443c-a8f7-20d9472e99c2 654ce79f-c5e7-44ed-b6b9-badc0c6469ef 10 50151484 50151484 A T SNP WDFY4 ENST00000325239 human ensembl 74_37 1 known missense c.7739 p.Y2580F 1 pfam_BEACH_dom,superfamily_BEACH_dom,pfscan_BEACH_dom pfam_BEACH_dom,pfam_WD40_repeat,superfamily_BEACH_dom,superfamily_WD40_repeat_dom,superfamily_ARM-type_fold,smart_WD40_repeat,pfscan_BEACH_dom,pfscan_WD40_repeat,pfscan_WD40_repeat_dom 0 no_errors 0 0 0 36 1 2.7 38 13 25.49 170 1 0.58 79 67 45.89 HRAS 0 genome.wustl.edu 37 11 533553 533553 + Missense_Mutation SNP T T C TCGA-3G-AB19-01A-21D-A423-09 TCGA-3G-AB19-11A-22D-A426-09 T T T C T T Unknown Valid Somatic Phase_IV WXS Hybrid_Capture_Illumina_Seq Illumina HiSeq c4a51eb9-a828-443c-a8f7-20d9472e99c2 654ce79f-c5e7-44ed-b6b9-badc0c6469ef 11 533553 533553 T C SNP HRAS ENST00000311189 human ensembl 74_37 -1 known missense c.350 p.K117R 1 pfam_Small_GTPase,pfam_MIRO-like,pfam_Small_GTPase_ARF/SAR,pfam_EF_GTP-bd_dom,pfam_Fe2_transport_prot_B_N,superfamily_P-loop_NTPase,smart_Small_GTPase_Ras,smart_Small_GTPase_Rab_type,smart_Small_GTPase_Rho,prints_Small_GTPase,tigrfam_Small_GTP-bd_dom pfam_Small_GTPase,pfam_MIRO-like,pfam_Small_GTPase_ARF/SAR,pfam_EF_GTP-bd_dom,pfam_Fe2_transport_prot_B_N,superfamily_P-loop_NTPase,smart_Small_GTPase_Ras,smart_Small_GTPase_Rab_type,smart_Small_GTPase_Rho,prints_Small_GTPase,tigrfam_Small_GTP-bd_dom 0 no_errors rs104894227 T->C 0 48 0 0 33 12 26.67 204 0 0.00 72 43 37.39 TEAD4 0 genome.wustl.edu 37 12 3120212 3120212 + Missense_Mutation SNP G G A TCGA-3G-AB19-01A-21D-A423-09 TCGA-3G-AB19-11A-22D-A426-09 G G G A G G Unknown Valid Somatic Phase_IV WXS Hybrid_Capture_Illumina_Seq Illumina HiSeq c4a51eb9-a828-443c-a8f7-20d9472e99c2 654ce79f-c5e7-44ed-b6b9-badc0c6469ef 12 3120212 3120212 G A SNP TEAD4 ENST00000359864 human ensembl 74_37 1 known missense c.269 p.G90E 1 pfam_TEA/ATTS,smart_TEA/ATTS,pirsf_TEF,pfscan_TEA/ATTS,prints_TEA/ATTS pfam_TEA/ATTS,smart_TEA/ATTS,pirsf_TEF,pfscan_TEA/ATTS,prints_TEA/ATTS 0 no_errors 0 0 0 28 0 0 16 9 36 71 0 0.00 43 36 45.00 PPTC7 0 genome.wustl.edu 37 12 110989715 110989715 + Silent SNP T T A TCGA-3G-AB19-01A-21D-A423-09 TCGA-3G-AB19-11A-22D-A426-09 T T T A T T Unknown Valid Somatic Phase_IV WXS Hybrid_Capture_Illumina_Seq Illumina HiSeq c4a51eb9-a828-443c-a8f7-20d9472e99c2 654ce79f-c5e7-44ed-b6b9-badc0c6469ef 12 110989715 110989715 T A SNP PPTC7 ENST00000354300 human ensembl 74_37 -1 known silent c.282 p.S94 1 pfam_PP2C-like_dom,superfamily_PP2C-like_dom,smart_PP2C-like_dom pfam_PP2C-like_dom,superfamily_PP2C-like_dom,smart_PP2C-like_dom 0 no_errors 0 0 0 79 0 0 45 26 36.62 260 2 0.76 185 102 35.54 LRRC63 0 genome.wustl.edu 37 13 46850727 46850727 + Missense_Mutation SNP C C T TCGA-3G-AB19-01A-21D-A423-09 TCGA-3G-AB19-11A-22D-A426-09 C C C T C C Unknown Valid Somatic Phase_IV WXS Hybrid_Capture_Illumina_Seq Illumina HiSeq c4a51eb9-a828-443c-a8f7-20d9472e99c2 654ce79f-c5e7-44ed-b6b9-badc0c6469ef 13 46850727 46850727 C T SNP LRRC63 ENST00000595396 human ensembl 74_37 1 novel missense c.1553 p.T518I 0.716 NULL pfam_Leu-rich_rpt,smart_Leu-rich_rpt_typical-subtyp 0 no_errors 0 0 0 52 0 0 30 19 38.78 263 1 0.38 192 94 32.87 SLC12A1 0 genome.wustl.edu 37 15 48551475 48551475 + Silent SNP C C T TCGA-3G-AB19-01A-21D-A423-09 TCGA-3G-AB19-11A-22D-A426-09 C C C T C C Unknown Valid Somatic Phase_IV WXS Hybrid_Capture_Illumina_Seq Illumina HiSeq c4a51eb9-a828-443c-a8f7-20d9472e99c2 654ce79f-c5e7-44ed-b6b9-badc0c6469ef 15 48551475 48551475 C T SNP SLC12A1 ENST00000380993 human ensembl 74_37 1 known silent c.2121 p.N707 1 tigrfam_Na/K/Cl_cotransptS pfam_AA-permease/SLC12A_dom,pfam_AA_permease_N,prints_Na/K/Cl_cotranspt2,prints_Na/K/Cl_cotranspt,tigrfam_Na/K/Cl_cotransptS 0 no_errors 0 0 0 67 0 0 40 27 40.3 297 1 0.34 198 79 28.52 C16orf62 0 genome.wustl.edu 37 16 19584459 19584459 + Missense_Mutation SNP C C T TCGA-3G-AB19-01A-21D-A423-09 TCGA-3G-AB19-11A-22D-A426-09 C C C T C C Unknown Valid Somatic Phase_IV WXS Hybrid_Capture_Illumina_Seq Illumina HiSeq c4a51eb9-a828-443c-a8f7-20d9472e99c2 654ce79f-c5e7-44ed-b6b9-badc0c6469ef 16 19584459 19584459 C T SNP C16orf62 ENST00000438132 human ensembl 74_37 1 known missense c.571 p.R191C 1 NULL NULL 0 no_errors rs570834372 C->T 0.9998,0.0001997 83 0 0 53 28 34.57 262 0 0.00 170 91 34.73 MTHFD1 0 genome.wustl.edu 37 14 64914971 64914979 + In_Frame_Del DEL AAGAAACAA AAGAAACAA - TCGA-3G-AB19-01A-21D-A423-09 TCGA-3G-AB19-11A-22D-A426-09 AAGAAACAA AAGAAACAA AAGAAACAA - AAGAAACAA AAGAAACAA Unknown Valid Somatic Phase_IV WXS Hybrid_Capture_Illumina_Seq Illumina HiSeq c4a51eb9-a828-443c-a8f7-20d9472e99c2 654ce79f-c5e7-44ed-b6b9-badc0c6469ef 14 64914971 64914979 AAGAAACAA 0 DEL MTHFD1 ENST00000216605 human ensembl 74_37 1 known in_frame_del c.2215_2223 p.KKQ739in_frame_del 0.998:0.990:1.000:1.000:1.000:1.000:1.000:1.000:1.000 pfam_Formate_THF_ligase,superfamily_P-loop_NTPase pfam_Formate_THF_ligase,pfam_THF_DH/CycHdrlase_NAD-bd_dom,pfam_THF_DH/CycHdrlase_cat_dom,superfamily_P-loop_NTPase,prints_THF_DH/CycHdrlase 0 no_errors 0 0 0 60 0 0 39 10 20.41 124 0 0.00 71 9 11.25 PQLC1 0 genome.wustl.edu 37 18 77710752 77710753 + In_Frame_Ins INS - - CAG TCGA-3G-AB19-01A-21D-A423-09 TCGA-3G-AB19-11A-22D-A426-09 - - - CAG - - Unknown Valid Somatic Phase_IV WXS Hybrid_Capture_Illumina_Seq Illumina HiSeq c4a51eb9-a828-443c-a8f7-20d9472e99c2 654ce79f-c5e7-44ed-b6b9-badc0c6469ef 18 77710752 77710753 0 CAG INS PQLC1 ENST00000397778 human ensembl 74_37 -1 known in_frame_ins c.175_174 p.58in_frame_insL 1.000:1.000 smart_CTNS smart_CTNS 0 no_errors 0 0 0 44 0 0 18 12 40 267 1 0.37 107 41 27.70 ABHD17A 0 genome.wustl.edu 37 19 1881263 1881263 + Silent SNP G G A TCGA-3G-AB19-01A-21D-A423-09 TCGA-3G-AB19-11A-22D-A426-09 G G Unknown Untested Somatic Phase_IV WXS none Illumina HiSeq c4a51eb9-a828-443c-a8f7-20d9472e99c2 654ce79f-c5e7-44ed-b6b9-badc0c6469ef 19 1881263 1881263 G A SNP ABHD17A ENST00000250974 human ensembl 74_37 -1 known silent c.303 p.C101 1 NULL pfam_Dienelactn_hydro 0 no_errors 0 0 0 66 1 1.49 65 5 7.14 12 0 0.00 10 0 0.00 HAND2 0 genome.wustl.edu 37 4 174450159 174450159 + Frame_Shift_Del DEL C C - TCGA-3G-AB19-01A-21D-A423-09 TCGA-3G-AB19-11A-22D-A426-09 C C Unknown Untested Somatic Phase_IV WXS none Illumina HiSeq c4a51eb9-a828-443c-a8f7-20d9472e99c2 654ce79f-c5e7-44ed-b6b9-badc0c6469ef 4 174450159 174450159 C 0 DEL HAND2 ENST00000359562 human ensembl 74_37 -1 known frame_shift_del c.282 p.P95fs 1 NULL pfam_bHLH_dom,superfamily_bHLH_dom,smart_bHLH_dom,pfscan_bHLH_dom 0 no_errors 0 0 0 11 0 0 4 2 33.33 21 0 0.00 10 0 0.00