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	default_gene_name	gene_name_source	 ensembl_gene_id	tier	dbSNP	GMAF	n_ref_count	n_alt_count	normal_vaf	t_ref_count	t_alt_count	tumor_vaf	n_ref_count_val	n_alt_count_val	normal_vaf_val	t_ref_count_val	t_alt_count_val	tumor_vaf_val
STAB1	0	genome.wustl.edu	37	3	52547961	52547961	+	Missense_Mutation	SNP	G	G	T			TCGA-DX-A240-01A-32D-A27P-09	TCGA-DX-A240-10A-01D-A27P-09	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	3db6e6cc-1a06-49b9-834e-b6611cde4c4b	2ced1edd-817a-4e6b-96b5-c192f0a91663	3	52547961	52547961	G	T	SNP	STAB1	ENST00000321725	human	ensembl	74_37	+1	known	missense	c.3411	p.L1137F	0.000	superfamily_FAS1_domain,pfscan_FAS1_domain	pfam_FAS1_domain,pfam_Link,superfamily_C-type_lectin_fold,superfamily_FAS1_domain,smart_EG-like_dom,smart_EGF_laminin,smart_FAS1_domain,smart_EGF-like_Ca-bd_dom,smart_Link,pfscan_EG-like_dom,pfscan_FAS1_domain,pfscan_Link	-	no_errors	STAB1	HGNC	ENSG00000010327	tier1	-	-	38	0	0.00	41	20	32.79	31	0	0.00	13	5	27.78
SMARCC2	0	genome.wustl.edu	37	12	56567544	56567544	+	Missense_Mutation	SNP	G	G	C			TCGA-DX-A240-01A-32D-A27P-09	TCGA-DX-A240-10A-01D-A27P-09	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	3db6e6cc-1a06-49b9-834e-b6611cde4c4b	2ced1edd-817a-4e6b-96b5-c192f0a91663	12	56567544	56567544	G	C	SNP	SMARCC2	ENST00000267064	human	ensembl	74_37	-1	known	missense	c.1586	p.S529C	1.000	superfamily_Chromodomain-like	pfam_SWIRM,pfam_SANT/Myb,superfamily_Homeodomain-like,superfamily_BRCT_dom,superfamily_Chromodomain-like,smart_Chromo_domain/shadow,smart_SANT/Myb,pfscan_SWIRM,pfscan_Myb-like_dom	-	no_errors	SMARCC2	HGNC	ENSG00000139613	tier1	-	-	39	0	0.00	264	246	48.24	59	0	0.00	235	195	45.35
SLC4A7	0	genome.wustl.edu	37	3	27472860	27472860	+	Missense_Mutation	SNP	G	G	A			TCGA-DX-A240-01A-32D-A27P-09	TCGA-DX-A240-10A-01D-A27P-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	3db6e6cc-1a06-49b9-834e-b6611cde4c4b	2ced1edd-817a-4e6b-96b5-c192f0a91663	3	27472860	27472860	G	A	SNP	SLC4A7	ENST00000454389	human	ensembl	74_37	-1	known	missense	c.1079	p.P360L	0.999	pfam_Band3_cytoplasmic_dom	pfam_HCO3_transpt_C,pfam_Band3_cytoplasmic_dom,superfamily_PTrfase/Anion_transptr,prints_HCO3_transpt_euk,tigrfam_HCO3_transpt_euk	-	no_errors	SLC4A7	HGNC	ENSG00000033867	tier1	-	-	60	0	0.00	42	18	30.00	55	0	0.00	41	7	14.58
CRP	0	genome.wustl.edu	37	1	159683597	159683597	+	Silent	SNP	C	C	T			TCGA-DX-A240-01A-32D-A27P-09	TCGA-DX-A240-10A-01D-A27P-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	3db6e6cc-1a06-49b9-834e-b6611cde4c4b	2ced1edd-817a-4e6b-96b5-c192f0a91663	1	159683597	159683597	C	T	SNP	CRP	ENST00000255030	human	ensembl	74_37	-1	known	silent	c.393	p.G131	0.266	pfam_Pentaxin,superfamily_ConA-like_lec_gl_sf,smart_Pentaxin,prints_Pentaxin	pfam_Pentaxin,superfamily_ConA-like_lec_gl_sf,smart_Pentaxin,prints_Pentaxin	-	no_errors	CRP	HGNC	ENSG00000132693	tier1	-	-	33	0	0.00	686	108	13.60	63	0	0.00	1051	178	14.48
ZFYVE26	0	genome.wustl.edu	37	14	68229454	68229454	+	Missense_Mutation	SNP	G	G	T			TCGA-DX-A240-01A-32D-A27P-09	TCGA-DX-A240-10A-01D-A27P-09	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	3db6e6cc-1a06-49b9-834e-b6611cde4c4b	2ced1edd-817a-4e6b-96b5-c192f0a91663	14	68229454	68229454	G	T	SNP	ZFYVE26	ENST00000347230	human	ensembl	74_37	-1	known	missense	c.6094	p.P2032T	1.000	NULL	pfam_Znf_FYVE,superfamily_Znf_FYVE_PHD,smart_Znf_FYVE,pfscan_Znf_FYVE-rel	-	no_errors	ZFYVE26	HGNC	ENSG00000072121	tier1	-	-	50	0	0.00	64	25	28.09	67	0	0.00	59	16	21.33
MED13	0	genome.wustl.edu	37	17	60042707	60042707	+	Missense_Mutation	SNP	G	G	C			TCGA-DX-A240-01A-32D-A27P-09	TCGA-DX-A240-10A-01D-A27P-09	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	3db6e6cc-1a06-49b9-834e-b6611cde4c4b	2ced1edd-817a-4e6b-96b5-c192f0a91663	17	60042707	60042707	G	C	SNP	MED13	ENST00000397786	human	ensembl	74_37	-1	known	missense	c.4504	p.P1502A	1.000	NULL	pfam_Mediator_Med13,pfam_Mediator_Med13_N_met/fun	-	no_errors	MED13	HGNC	ENSG00000108510	tier1	-	-	22	0	0.00	16	15	48.39	82	0	0.00	21	15	41.67
ATP6V0A4	0	genome.wustl.edu	37	7	138447177	138447177	+	Silent	SNP	C	C	T			TCGA-DX-A240-01A-32D-A27P-09	TCGA-DX-A240-10A-01D-A27P-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	3db6e6cc-1a06-49b9-834e-b6611cde4c4b	2ced1edd-817a-4e6b-96b5-c192f0a91663	7	138447177	138447177	C	T	SNP	ATP6V0A4	ENST00000310018	human	ensembl	74_37	-1	known	silent	c.420	p.T140	0.796	pfam_V-ATPase_116kDa_su	pfam_V-ATPase_116kDa_su	-	no_errors	ATP6V0A4	HGNC	ENSG00000105929	tier1	rs61747679	-	37	0	0.00	47	12	20.34	99	0	0.00	72	38	34.55
DMD	0	genome.wustl.edu	37	X	31462736	31462736	+	Silent	SNP	T	T	C			TCGA-DX-A240-01A-32D-A27P-09	TCGA-DX-A240-10A-01D-A27P-09	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	3db6e6cc-1a06-49b9-834e-b6611cde4c4b	2ced1edd-817a-4e6b-96b5-c192f0a91663	X	31462736	31462736	T	C	SNP	DMD	ENST00000357033	human	ensembl	74_37	-1	known	silent	c.8946	p.R2982	1.000	pfam_Spectrin_repeat,smart_Spectrin/alpha-actinin,pirsf_Dystrophin/utrophin	pfam_Spectrin_repeat,pfam_EF-hand_dom_typ1,pfam_EF-hand_dom_typ2,pfam_CH-domain,pfam_Znf_ZZ,pfam_WW_dom,pfam_CAMSAP_CH,superfamily_CH-domain,superfamily_WW_dom,smart_CH-domain,smart_Spectrin/alpha-actinin,smart_WW_dom,smart_Znf_ZZ,pirsf_Dystrophin/utrophin,pfscan_CH-domain,pfscan_WW_dom,pfscan_Znf_ZZ	-	no_errors	DMD	HGNC	ENSG00000198947	tier1	-	-	31	0	0.00	274	74	21.26	52	1	1.89	332	87	20.71
PLCH2	0	genome.wustl.edu	37	1	2411240	2411240	+	Silent	SNP	C	C	T			TCGA-DX-A240-01A-32D-A27P-09	TCGA-DX-A240-10A-01D-A27P-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	3db6e6cc-1a06-49b9-834e-b6611cde4c4b	2ced1edd-817a-4e6b-96b5-c192f0a91663	1	2411240	2411240	C	T	SNP	PLCH2	ENST00000378486	human	ensembl	74_37	+1	known	silent	c.339	p.D113	0.232	smart_Pleckstrin_homology,pfscan_Pleckstrin_homology	pfam_PLipase_C_PInositol-sp_X_dom,pfam_PLipase_C_Pinositol-sp_Y,pfam_PLipase_C_EF-hand-like,pfam_C2_dom,superfamily_PLC-like_Pdiesterase_TIM-brl,superfamily_C2_dom,smart_Pleckstrin_homology,smart_EF_hand_dom,smart_PLipase_C_PInositol-sp_X_dom,smart_PLipase_C_Pinositol-sp_Y,smart_C2_dom,pfscan_EF_hand_dom,pfscan_C2_dom,pfscan_Pleckstrin_homology,pfscan_PLipase_C_PInositol-sp_X_dom,pfscan_PLipase_C_Pinositol-sp_Y,prints_Pinositol_PLipase_C	-	no_errors	PLCH2	HGNC	ENSG00000149527	tier1	-	-	9	0	0.00	11	10	47.62	30	0	0.00	15	8	34.78
TMEM132B	0	genome.wustl.edu	37	12	126004115	126004115	+	Missense_Mutation	SNP	G	G	A			TCGA-DX-A240-01A-32D-A27P-09	TCGA-DX-A240-10A-01D-A27P-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	3db6e6cc-1a06-49b9-834e-b6611cde4c4b	2ced1edd-817a-4e6b-96b5-c192f0a91663	12	126004115	126004115	G	A	SNP	TMEM132B	ENST00000299308	human	ensembl	74_37	+1	known	missense	c.1222	p.V408I	0.991	NULL	NULL	-	no_errors	TMEM132B	HGNC	ENSG00000139364	tier1	-	-	79	0	0.00	84	20	19.23	60	0	0.00	41	9	18.00
CHL1	0	genome.wustl.edu	37	3	370047	370047	+	R	SNP	A	A	G			TCGA-DX-A240-01A-32D-A27P-09	TCGA-DX-A240-10A-01D-A27P-09	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	3db6e6cc-1a06-49b9-834e-b6611cde4c4b	2ced1edd-817a-4e6b-96b5-c192f0a91663	3	370047	370047	A	G	SNP	CHL1	ENST00000461289	human	ensembl	74_37	+1	known	rna	NULL	NULL	0.000	-	-	-	no_errors	CHL1	HGNC	ENSG00000134121	tier1	-	-	25	0	0.00	20	15	42.86	113	0	0.00	51	29	36.25
METTL13	0	genome.wustl.edu	37	1	171765642	171765642	+	Missense_Mutation	SNP	G	G	C			TCGA-DX-A240-01A-32D-A27P-09	TCGA-DX-A240-10A-01D-A27P-09	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	3db6e6cc-1a06-49b9-834e-b6611cde4c4b	2ced1edd-817a-4e6b-96b5-c192f0a91663	1	171765642	171765642	G	C	SNP	METTL13	ENST00000361735	human	ensembl	74_37	+1	known	missense	c.1846	p.V616L	1.000	NULL	pfam_Methyltransf_11,pfam_Spermidine/spermine_synthase	-	no_errors	METTL13	HGNC	ENSG00000010165	tier1	-	-	87	0	0.00	332	55	14.21	99	0	0.00	233	29	11.07
SMARCC2	0	genome.wustl.edu	37	12	56565571	56565571	+	Nonsense_Mutation	SNP	G	G	A			TCGA-DX-A240-01A-32D-A27P-09	TCGA-DX-A240-10A-01D-A27P-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	3db6e6cc-1a06-49b9-834e-b6611cde4c4b	2ced1edd-817a-4e6b-96b5-c192f0a91663	12	56565571	56565571	G	A	SNP	SMARCC2	ENST00000267064	human	ensembl	74_37	-1	known	nonsense	c.1984	p.Q662*	1.000	superfamily_Chromodomain-like	pfam_SWIRM,pfam_SANT/Myb,superfamily_Homeodomain-like,superfamily_BRCT_dom,superfamily_Chromodomain-like,smart_Chromo_domain/shadow,smart_SANT/Myb,pfscan_SWIRM,pfscan_Myb-like_dom	-	no_errors	SMARCC2	HGNC	ENSG00000139613	tier1	-	-	26	0	0.00	147	133	47.50	45	0	0.00	206	210	50.48
ATAD5	0	genome.wustl.edu	37	17	29220695	29220695	+	Silent	SNP	C	C	T			TCGA-DX-A240-01A-32D-A27P-09	TCGA-DX-A240-10A-01D-A27P-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	3db6e6cc-1a06-49b9-834e-b6611cde4c4b	2ced1edd-817a-4e6b-96b5-c192f0a91663	17	29220695	29220695	C	T	SNP	ATAD5	ENST00000321990	human	ensembl	74_37	+1	known	silent	c.4824	p.D1608	0.798	NULL	pfam_ATPase_AAA_core,superfamily_P-loop_NTPase,smart_AAA+_ATPase	-	no_errors	ATAD5	HGNC	ENSG00000176208	tier1	-	-	17	0	0.00	12	9	42.86	109	0	0.00	29	39	57.35
ENSG00000235999	0	genome.wustl.edu	37	1	149287701	149287701	+	R	SNP	G	G	A			TCGA-DX-A240-01A-32D-A27P-09	TCGA-DX-A240-10A-01D-A27P-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	3db6e6cc-1a06-49b9-834e-b6611cde4c4b	2ced1edd-817a-4e6b-96b5-c192f0a91663	1	149287701	149287701	G	A	SNP	ENSG00000235999	ENST00000433084	human	ensembl	74_37	+1	known	rna	NULL	NULL	0.002	-	-	-	no_errors	RP11-403I13.8	Clone_based_vega_gene	ENSG00000235999	tier1	-	-	19	0	0.00	91	38	29.46	11	0	0.00	53	16	23.19
SPNS2	0	genome.wustl.edu	37	17	4436615	4436615	+	Missense_Mutation	SNP	G	G	A			TCGA-DX-A240-01A-32D-A27P-09	TCGA-DX-A240-10A-01D-A27P-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	3db6e6cc-1a06-49b9-834e-b6611cde4c4b	2ced1edd-817a-4e6b-96b5-c192f0a91663	17	4436615	4436615	G	A	SNP	SPNS2	ENST00000329078	human	ensembl	74_37	+1	known	missense	c.1166	p.R389H	1.000	pfam_MFS,superfamily_MFS_dom_general_subst_transpt,pfscan_MFS_dom	pfam_MFS,pfam_Sub_transporter,superfamily_MFS_dom_general_subst_transpt,pfscan_MFS_dom	-	no_errors	SPNS2	HGNC	ENSG00000183018	tier1	rs202025950	GMAF=0	80	0	0.00	62	42	40.38	11	0	0.00	9	2	18.18
HELZ2	0	genome.wustl.edu	37	20	62203363	62203363	+	R	SNP	T	T	C			TCGA-DX-A240-01A-32D-A27P-09	TCGA-DX-A240-10A-01D-A27P-09	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	3db6e6cc-1a06-49b9-834e-b6611cde4c4b	2ced1edd-817a-4e6b-96b5-c192f0a91663	20	62203363	62203363	T	C	SNP	HELZ2	ENST00000479540	human	ensembl	74_37	-1	known	rna	NULL	NULL	0.001	-	-	-	no_errors	HELZ2	HGNC	ENSG00000130589	tier1	-	-	57	0	0.00	69	8	10.39	10	0	0.00	9	0	0.00
HELZ2	0	genome.wustl.edu	37	20	62203364	62203364	+	R	SNP	G	G	A			TCGA-DX-A240-01A-32D-A27P-09	TCGA-DX-A240-10A-01D-A27P-09	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	3db6e6cc-1a06-49b9-834e-b6611cde4c4b	2ced1edd-817a-4e6b-96b5-c192f0a91663	20	62203364	62203364	G	A	SNP	HELZ2	ENST00000479540	human	ensembl	74_37	-1	known	rna	NULL	NULL	0.010	-	-	-	no_errors	HELZ2	HGNC	ENSG00000130589	tier1	-	-	57	0	0.00	67	8	10.67	10	0	0.00	9	0	0.00
HIC1	0	genome.wustl.edu	37	17	1961286	1961286	+	Silent	SNP	C	C	T			TCGA-DX-A240-01A-32D-A27P-09	TCGA-DX-A240-10A-01D-A27P-09	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	3db6e6cc-1a06-49b9-834e-b6611cde4c4b	2ced1edd-817a-4e6b-96b5-c192f0a91663	17	1961286	1961286	C	T	SNP	HIC1	ENST00000322941	human	ensembl	74_37	+1	known	silent	c.1359	p.N453	0.949	smart_Znf_C2H2-like,pfscan_Znf_C2H2	pfam_BTB_POZ,pfam_Znf_C2H2,superfamily_BTB/POZ_fold,smart_BTB/POZ-like,smart_Znf_C2H2-like,pfscan_BTB/POZ-like,pfscan_Znf_C2H2	-	no_errors	HIC1	HGNC	ENSG00000177374	tier1	-	-	55	0	0.00	32	28	46.67	7	0	0.00	4	1	20.00
C19orf35	0	genome.wustl.edu	37	19	2280757	2280776	+	Frame_Shift_Del	DEL	CCTGCCGCTCCCTGCACCCA	CCTGCCGCTCCCTGCACCCA	-			TCGA-DX-A240-01A-32D-A27P-09	TCGA-DX-A240-10A-01D-A27P-09	CCTGCCGCTCCCTGCACCCA	CCTGCCGCTCCCTGCACCCA					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	3db6e6cc-1a06-49b9-834e-b6611cde4c4b	2ced1edd-817a-4e6b-96b5-c192f0a91663	19	2280757	2280776	CCTGCCGCTCCCTGCACCCA	-	DEL	C19orf35	ENST00000590316	human	ensembl	74_37	-1	known	frame_shift_del	c.174_155	p.V52fs	0.339:0.033:0.011:0.003:0.002:0.000:0.002:0.002:0.003:0.008:0.009:0.011:0.005:0.001:0.000:0.000:0.000:0.000:0.000:0.000	NULL	NULL	-	no_errors	C19orf35	HGNC	ENSG00000188305	tier1			2	0	0.00	5	0	0.00	2	0	0.00	5	0	0.00
ENSG00000232274	0	genome.wustl.edu	37	1	143189128	143189128	+	R	SNP	G	G	A			TCGA-DX-A240-01A-32D-A27P-09	TCGA-DX-A240-10A-01D-A27P-09	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	3db6e6cc-1a06-49b9-834e-b6611cde4c4b	2ced1edd-817a-4e6b-96b5-c192f0a91663	1	143189128	143189128	G	A	SNP	ENSG00000232274	ENST00000447389	human	ensembl	74_37	-1	known	rna	NULL	NULL	0.005	-	-	-	no_errors	RP11-782C8.2	Clone_based_vega_gene	ENSG00000232274	tier1	rs202058739	-	11	0	0.00	12	7	36.84	0	0	0.00	0	0	0.00
GALNT6	0	genome.wustl.edu	37	12	51785401	51785402	+	R	INS	-	-	AGCCGC			TCGA-DX-A240-01A-32D-A27P-09	TCGA-DX-A240-10A-01D-A27P-09	-	-					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	3db6e6cc-1a06-49b9-834e-b6611cde4c4b	2ced1edd-817a-4e6b-96b5-c192f0a91663	12	51785401	51785402	-	AGCCGC	INS	GALNT6	ENST00000603203	human	ensembl	74_37	-1	known	rna	NULL	NULL	0.021:0.127	-	-	-	no_errors	GALNT6	HGNC	ENSG00000139629	tier1			2	0	0.00	2	2	50.00	2	0	0.00	2	2	50.00