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	NormalRefReads_WU	NormalVarReads_WU	NormalVAF_WU	TumorRefReads_WU	TumorVarReads_WU	TumorVAF_WU	RNARefReads_WU	RNAVarReads_WU	RNAVAF_WU
MT-CO2	0	genome.wustl.edu	36	MT	8066	8066	+	Silent	SNP	G	G	A			TCGA-AB-2886-03A-01W-0732-08	TCGA-AB-2886-11A-01W-0732-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	702a5002-ba2b-4968-bd1c-81f0eeb119ed	44b7e43b-2907-4b6e-8341-c1e2aece5328	MT	8066	8066	G	A	SNP	MT-CO2	ENST00000361739	human	ensembl	54_36p	+1	known	silent	c.480	p.L160	NULL	PatternScan_COX2,HMMPfam_COX2,superfamily_Cupredoxins	PatternScan_COX2,HMMPfam_COX2,superfamily_Cupredoxins,HMMPfam_COX2_TM,superfamily_Cytochrome^^_^^c^^_^^oxidase^^_^^subunit^^_^^II-like^^_^^transmembrane^^_^^region	-	no_errors	3214	68	2.05	157	645	79.04	NA	NA	NA
LOC643563	0	genome.wustl.edu	36	X	97531372	97531372	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2886-03A-01W-0732-08	TCGA-AB-2886-11A-01W-0732-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	702a5002-ba2b-4968-bd1c-81f0eeb119ed	44b7e43b-2907-4b6e-8341-c1e2aece5328	X	97531372	97531372	C	T	SNP	LOC643563	XM_926863.1	human	genbank	54_36p	+1	model	missense	c.209	p.S70F	1.000	HMMPfam_GTP_EFTU,superfamily_P-loop containing nucleoside triphosphate hydrolases	HMMPfam_GTP_EFTU,superfamily_P-loop containing nucleoside triphosphate hydrolases	-	no_errors	87	0	0.00	25	87	76.32	NA	NA	NA
CNTNAP5	0	genome.wustl.edu	36	2	124891562	124891562	+	Missense_Mutation	SNP	G	G	T			TCGA-AB-2886-03A-01W-0732-08	TCGA-AB-2886-11A-01W-0732-08	G	G	G	T	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	702a5002-ba2b-4968-bd1c-81f0eeb119ed	44b7e43b-2907-4b6e-8341-c1e2aece5328	2	124891562	124891562	G	T	SNP	CNTNAP5	NM_130773.2	human	genbank	54_36p	+1	reviewed	missense	c.454	p.V152F	0.957	HMMPfam_F5_F8_type_C,HMMSmart_FA58C,superfamily_Gal_bind_like	HMMPfam_F5_F8_type_C,HMMSmart_FA58C,PatternScan_FA58C_1,PatternScan_FA58C_2,HMMSmart_LamG,PatternScan_FIBRIN_AG_C_DOMAIN,superfamily_Fibrinogen_a/b/g_C,HMMPfam_EGF,HMMSmart_EGF,superfamily_Gal_bind_like,superfamily_ConA_like_lec_gl,HMMPfam_Laminin_G_2,PatternScan_EGF_1,PatternScan_EGF_2	-	no_errors	170	0	0.00	154	131	45.80	NA	NA	NA
ITPR3	0	genome.wustl.edu	36	6	33746445	33746445	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2886-03A-01W-0732-08	TCGA-AB-2886-11A-01W-0732-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	702a5002-ba2b-4968-bd1c-81f0eeb119ed	44b7e43b-2907-4b6e-8341-c1e2aece5328	6	33746445	33746445	G	A	SNP	ITPR3	NM_002224.2	human	genbank	54_36p	+1	validated	missense	c.2461	p.A821T	0.921	NULL	HMMPfam_RYDR_ITPR,HMMPfam_MIR,superfamily_MIR,HMMPfam_Ion_trans,HMMPfam_RIH_assoc,HMMPfam_Ins145_P3_rec,HMMSmart_MIR,superfamily_SSF100909	-	no_errors	28	1	3.45	34	11	24.44	6	0	0.00
DNAH11	0	genome.wustl.edu	36	7	21751198	21751198	+	Missense_Mutation	SNP	G	G	T			TCGA-AB-2886-03A-01W-0732-08	TCGA-AB-2886-11A-01W-0732-08	G	G	G	T	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	702a5002-ba2b-4968-bd1c-81f0eeb119ed	44b7e43b-2907-4b6e-8341-c1e2aece5328	7	21751198	21751198	G	T	SNP	DNAH11	ENST00000328843	human	ensembl	54_36p	+1	known	missense	c.8523	p.M2841I	1.000	superfamily_P-loop containing nucleoside triphosphate hydrolases	PatternScan_THIOL_PROTEASE_HIS,HMMSmart_SM00382,HMMPfam_Dynein_heavy,HMMPfam_AAA_5,HMMPfam_DHC_N1,HMMPfam_DHC_N2,PatternScan_WD_REPEATS_1,superfamily_P-loop containing nucleoside triphosphate hydrolases	-	no_errors	82	0	0.00	111	20	15.15	NA	NA	NA
CLCN1	0	genome.wustl.edu	36	7	142739951	142739951	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2886-03A-01W-0732-08	TCGA-AB-2886-11A-01W-0732-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	702a5002-ba2b-4968-bd1c-81f0eeb119ed	44b7e43b-2907-4b6e-8341-c1e2aece5328	7	142739951	142739951	G	A	SNP	CLCN1	NM_000083.2	human	genbank	54_36p	+1	reviewed	missense	c.1264	p.E422K	1.000	HMMPfam_Voltage_CLC,superfamily_Clc chloride channel	HMMPfam_CBS,HMMPfam_Voltage_CLC,superfamily_Clc chloride channel,superfamily_CBS-domain	-	no_errors	220	2	0.90	107	57	34.34	NA	NA	NA
C9orf174	0	genome.wustl.edu	36	9	99116998	99116998	+	Silent	SNP	T	T	C			TCGA-AB-2886-03A-01W-0732-08	TCGA-AB-2886-11A-01W-0732-08	T	T	T	C	T	T	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	702a5002-ba2b-4968-bd1c-81f0eeb119ed	44b7e43b-2907-4b6e-8341-c1e2aece5328	9	99116998	99116998	T	C	SNP	KIAA1529	NM_020893.1	human	genbank	54_36p	+1	predicted	silent	c.1293	p.T431	0.170	NULL	NULL	-	no_errors	40	0	0.00	37	4	9.76	7	0	0.00
RAP1B	0	genome.wustl.edu	36	12	67328806	67328806	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2886-03A-01W-0732-08	TCGA-AB-2886-11A-01W-0732-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	702a5002-ba2b-4968-bd1c-81f0eeb119ed	44b7e43b-2907-4b6e-8341-c1e2aece5328	12	67328806	67328806	G	A	SNP	RAP1B	NM_001010942.1	human	genbank	54_36p	+1	validated	missense	c.35	p.G12E	1.000	HMMSmart_SM00176,HMMSmart_SM00173,HMMSmart_SM00174,HMMSmart_SM00175,HMMPfam_Ras,superfamily_P-loop containing nucleoside triphosphate hydrolases	HMMSmart_SM00176,HMMSmart_SM00173,HMMSmart_SM00174,HMMSmart_SM00175,HMMPfam_Ras,superfamily_P-loop containing nucleoside triphosphate hydrolases	-	no_errors	90	0	0.00	55	17	23.29	50	34	40.48
PKD1L2	0	genome.wustl.edu	36	16	79748048	79748048	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2886-03A-01W-0732-08	TCGA-AB-2886-11A-01W-0732-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	702a5002-ba2b-4968-bd1c-81f0eeb119ed	44b7e43b-2907-4b6e-8341-c1e2aece5328	16	79748048	79748048	C	T	SNP	PKD1L2	ENST00000299598	human	ensembl	54_36p	-1	known	missense	c.4042	p.V1348M	1.000	NULL	HMMPfam_GPS,HMMSmart_SM00303,PatternScan_CHANNEL_COLICIN,HMMPfam_PLAT,HMMSmart_SM00308,HMMPfam_Lectin_C,HMMSmart_SM00034,superfamily_Lipase/lipooxygenase domain (PLAT/LH2 domain),HMMPfam_PKD_channel,superfamily_C-type lectin-like	-	no_errors	76	1	1.27	27	18	40.00	NA	NA	NA
C17orf97	0	genome.wustl.edu	36	17	263333	263333	+	Missense_Mutation	SNP	G	G	C			TCGA-AB-2886-03A-01W-0732-08	TCGA-AB-2886-11A-01W-0732-08	G	G	G	C	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	702a5002-ba2b-4968-bd1c-81f0eeb119ed	44b7e43b-2907-4b6e-8341-c1e2aece5328	17	263333	263333	G	C	SNP	C17orf97	NM_001013672.3	human	genbank	54_36p	+1	validated	missense	c.383	p.R128P	0.000	NULL	NULL	-	no_errors	57	1	1.69	50	32	39.02	5	1	16.67
MYO5B	0	genome.wustl.edu	36	18	45623717	45623717	+	Silent	SNP	G	G	A			TCGA-AB-2886-03A-01W-0732-08	TCGA-AB-2886-11A-01W-0732-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	702a5002-ba2b-4968-bd1c-81f0eeb119ed	44b7e43b-2907-4b6e-8341-c1e2aece5328	18	45623717	45623717	G	A	SNP	MYO5B	NM_001080467.1	human	genbank	54_36p	-1	provisional	silent	c.4503	p.P1501	0.634	NULL	HMMPfam_IQ,HMMSmart_SM00015,HMMPfam_Myosin_head,HMMSmart_SM00242,HMMPfam_DIL,superfamily_P-loop containing nucleoside triphosphate hydrolases	-	no_errors	59	0	0.00	67	42	38.53	NA	NA	NA
JAK3	0	genome.wustl.edu	36	19	17810108	17810108	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2886-03A-01W-0732-08	TCGA-AB-2886-11A-01W-0732-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	702a5002-ba2b-4968-bd1c-81f0eeb119ed	44b7e43b-2907-4b6e-8341-c1e2aece5328	19	17810108	17810108	C	T	SNP	JAK3	NM_000215.3	human	genbank	54_36p	-1	reviewed	missense	c.1533	p.M511I	0.993	superfamily_Protein kinase-like (PK-like),superfamily_SH2 domain	PatternScan_THIOL_PROTEASE_HIS,HMMSmart_SM00252,HMMPfam_Pkinase_Tyr,HMMSmart_SM00219,HMMSmart_SM00220,PatternScan_PROTEIN_KINASE_TYR,superfamily_Protein kinase-like (PK-like),PatternScan_PROTEIN_KINASE_ATP,HMMSmart_SM00295,superfamily_SH2 domain	-	no_errors	108	0	0.00	72	12	14.12	229	52	18.51
TSKS	0	genome.wustl.edu	36	19	54935243	54935243	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2886-03A-01W-0732-08	TCGA-AB-2886-11A-01W-0732-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	702a5002-ba2b-4968-bd1c-81f0eeb119ed	44b7e43b-2907-4b6e-8341-c1e2aece5328	19	54935243	54935243	G	A	SNP	TSKS	NM_021733.1	human	genbank	54_36p	-1	reviewed	missense	c.1507	p.R503C	1.000	NULL	NULL	-	no_errors	87	0	0.00	82	10	10.75	9	1	10.00
PI4KA	0	genome.wustl.edu	36	22	19437281	19437281	+	Missense_Mutation	SNP	C	C	A			TCGA-AB-2886-03A-01W-0732-08	TCGA-AB-2886-11A-01W-0732-08	C	C	C	A	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	702a5002-ba2b-4968-bd1c-81f0eeb119ed	44b7e43b-2907-4b6e-8341-c1e2aece5328	22	19437281	19437281	C	A	SNP	PI4KA	NM_058004.2	human	genbank	54_36p	-1	reviewed	missense	c.2723	p.R908L	1.000	NULL	HMMPfam_PI3_PI4_kinase,HMMSmart_SM00146,HMMPfam_PI3Ka,HMMSmart_SM00145,superfamily_Protein kinase-like (PK-like),superfamily_ARM repeat,PatternScan_PI3_4_KINASE_1,PatternScan_PI3_4_KINASE_2	-	no_errors	58	0	0.00	70	37	33.64	72	56	43.41
GIGYF2	0	genome.wustl.edu	36	2	233389924	233389925	+	Frame_Shift_Ins	INS	-	-	GGCT			TCGA-AB-2886-03A-01W-0732-08	TCGA-AB-2886-11A-01W-0732-08	-	-	-	GGCT	-	-	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	702a5002-ba2b-4968-bd1c-81f0eeb119ed	44b7e43b-2907-4b6e-8341-c1e2aece5328	2	233389924	233389925	-	GGCT	INS	GIGYF2	NM_001103147.1	human	genbank	54_36p	+1	validated	frame_shift_ins	c.2371_2372	p.R792fs	0.997:1.000	NULL	HMMPfam_GYF,HMMSmart_GYF,superfamily_GYF	-	no_errors	NA	NA	NA	NA	NA	NA	NA	NA	NA
PLXND1	0	genome.wustl.edu	36	3	130785924	130785925	+	Frame_Shift_Ins	INS	-	-	G			TCGA-AB-2886-03A-01W-0732-08	TCGA-AB-2886-11A-01W-0732-08	-	-	-	G	-	-	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	702a5002-ba2b-4968-bd1c-81f0eeb119ed	44b7e43b-2907-4b6e-8341-c1e2aece5328	3	130785924	130785925	-	G	INS	PLXND1	NM_015103.2	human	genbank	54_36p	-1	validated	frame_shift_ins	c.2023_2022	p.N674fs	0.280:0.287	NULL	HMMPfam_Sema,HMMSmart_SM00630,superfamily_Sema domain,HMMPfam_PSI,HMMPfam_TIG,HMMSmart_SM00429,HMMSmart_SM00423,superfamily_GTPase activation domain GAP,HMMPfam_Plexin_cytopl,superfamily_E set domains,superfamily_Plexin repeat	-	no_errors	23	0	0.00	60	7	10.45	259	0	0.00
RAD21	0	genome.wustl.edu	36	8	117933479	117933479	+	Frame_Shift_Del	DEL	C	C	-			TCGA-AB-2886-03A-01W-0732-08	TCGA-AB-2886-11A-01W-0732-08	C	C	C	-	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	702a5002-ba2b-4968-bd1c-81f0eeb119ed	44b7e43b-2907-4b6e-8341-c1e2aece5328	8	117933479	117933479	C	-	DEL	RAD21	NM_006265.2	human	genbank	54_36p	-1	reviewed	frame_shift_del	c.1359	p.E453fs	0.960	NULL	HMMPfam_Rad21_Rec8,HMMPfam_Rad21_Rec8_N	-	no_errors	79	1	1.23	64	46	41.44	22	0	0.00