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
MFRP	0	genome.wustl.edu	37	11	119216560	119216560	+	Missense_Mutation	SNP	G	G	T			TCGA-DX-A23V-01A-11D-A29N-09	TCGA-DX-A23V-10A-01D-A29N-09	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	68873db8-897d-45d3-a524-3d64be5cdce2	c71940dd-4a6d-4498-bc17-02901daf8fde	11	119216560	119216560	G	T	SNP	MFRP	ENST00000449574	human	ensembl	74_37	-1	known	missense	c.350	p.P117H	0.000	NULL	pfam_CUB_dom,pfam_Frizzled_dom,pfam_LDrepeatLR_classA_rpt,superfamily_CUB_dom,superfamily_Frizzled_dom,superfamily_LDrepeatLR_classA_rpt,smart_CUB_dom,smart_LDrepeatLR_classA_rpt,smart_Frizzled_dom,pfscan_CUB_dom,pfscan_Frizzled_dom,pfscan_LDrepeatLR_classA_rpt,prints_LDrepeatLR_classA_rpt	-	no_errors	MFRP	HGNC	ENSG00000235718	tier1	-	-	28	0	0.00	25	32	56.14	33	0	0.00	11	3	21.43
PPARA	0	genome.wustl.edu	37	22	46594478	46594478	+	Silent	SNP	G	G	C			TCGA-DX-A23V-01A-11D-A29N-09	TCGA-DX-A23V-10A-01D-A29N-09	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	68873db8-897d-45d3-a524-3d64be5cdce2	c71940dd-4a6d-4498-bc17-02901daf8fde	22	46594478	46594478	G	C	SNP	PPARA	ENST00000262735	human	ensembl	74_37	+1	known	silent	c.198	p.S66	0.032	prints_1Cnucl_rcpt_A	pfam_Znf_hrmn_rcpt,pfam_Nucl_hrmn_rcpt_lig-bd_core,superfamily_Nucl_hormone_rcpt_ligand-bd,smart_Znf_hrmn_rcpt,smart_Nucl_hrmn_rcpt_lig-bd_core,pfscan_Znf_hrmn_rcpt,prints_1Cnucl_rcpt_A,prints_1Cnucl_rcpt,prints_Str_hrmn_rcpt,prints_Znf_hrmn_rcpt	-	no_errors	PPARA	HGNC	ENSG00000186951	tier1	-	-	51	0	0.00	23	10	30.30	92	0	0.00	58	13	18.31
COL5A3	0	genome.wustl.edu	37	19	10091766	10091766	+	Missense_Mutation	SNP	G	G	C			TCGA-DX-A23V-01A-11D-A29N-09	TCGA-DX-A23V-10A-01D-A29N-09	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	68873db8-897d-45d3-a524-3d64be5cdce2	c71940dd-4a6d-4498-bc17-02901daf8fde	19	10091766	10091766	G	C	SNP	COL5A3	ENST00000264828	human	ensembl	74_37	-1	known	missense	c.2503	p.P835A	0.997	NULL	pfam_Collagen,pfam_Fib_collagen_C,superfamily_ConA-like_lec_gl_sf,smart_Laminin_G,smart_Fib_collagen_C	-	no_errors	COL5A3	HGNC	ENSG00000080573	tier1	-	-	36	0	0.00	26	5	16.13	63	0	0.00	51	11	17.74
TRPV4	0	genome.wustl.edu	37	12	110224582	110224582	+	Missense_Mutation	SNP	G	G	A			TCGA-DX-A23V-01A-11D-A29N-09	TCGA-DX-A23V-10A-01D-A29N-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	68873db8-897d-45d3-a524-3d64be5cdce2	c71940dd-4a6d-4498-bc17-02901daf8fde	12	110224582	110224582	G	A	SNP	TRPV4	ENST00000261740	human	ensembl	74_37	-1	known	missense	c.2269	p.R757C	1.000	tigrfam_TRP_channel	pfam_Ankyrin_rpt,pfam_Ion_trans_dom,superfamily_Ankyrin_rpt-contain_dom,smart_Ankyrin_rpt,pfscan_Ankyrin_rpt,pfscan_Ankyrin_rpt-contain_dom,prints_TRPV1-4_channel,prints_TRPV4_channel,tigrfam_TRP_channel	-	no_errors	TRPV4	HGNC	ENSG00000111199	tier1	-	-	58	0	0.00	49	13	20.63	26	0	0.00	18	2	10.00
SATB2	0	genome.wustl.edu	37	2	200213845	200213845	+	Missense_Mutation	SNP	C	C	T			TCGA-DX-A23V-01A-11D-A29N-09	TCGA-DX-A23V-10A-01D-A29N-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	68873db8-897d-45d3-a524-3d64be5cdce2	c71940dd-4a6d-4498-bc17-02901daf8fde	2	200213845	200213845	C	T	SNP	SATB2	ENST00000260926	human	ensembl	74_37	-1	known	missense	c.752	p.R251H	1.000	NULL	pfam_Hmoeo_CUT,pfam_Homeobox_dom,superfamily_Lambda_D-bd_dom,superfamily_Homeodomain-like,smart_Homeobox_dom,pfscan_Homeobox_dom,pfscan_Hmoeo_CUT	-	no_errors	SATB2	HGNC	ENSG00000119042	tier1	-	-	116	0	0.00	94	21	18.26	96	0	0.00	60	26	30.23
AP2A1	0	genome.wustl.edu	37	19	50303239	50303239	+	Silent	SNP	C	C	T			TCGA-DX-A23V-01A-11D-A29N-09	TCGA-DX-A23V-10A-01D-A29N-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	68873db8-897d-45d3-a524-3d64be5cdce2	c71940dd-4a6d-4498-bc17-02901daf8fde	19	50303239	50303239	C	T	SNP	AP2A1	ENST00000354293	human	ensembl	74_37	+1	known	silent	c.1287	p.A429	1.000	pfam_Clathrin/coatomer_adapt-like_N,superfamily_ARM-type_fold,pirsf_AP2_complex_asu	pfam_Clathrin/coatomer_adapt-like_N,pfam_Clathrin_a-adaptin_app_sub_C,pfam_Clathrin_a/b/g-adaptin_app_Ig,superfamily_ARM-type_fold,superfamily_Coatomer/calthrin_app_sub_C,superfamily_Coatomer/clathrin_app_Ig-like,smart_Clathrin_a/b/g-adaptin_app_Ig,pirsf_AP2_complex_asu	-	no_errors	AP2A1	HGNC	ENSG00000196961	tier1	-	-	40	0	0.00	42	6	12.50	77	0	0.00	36	6	14.29
KLHL6	0	genome.wustl.edu	37	3	183211912	183211912	+	Silent	SNP	G	G	A			TCGA-DX-A23V-01A-11D-A29N-09	TCGA-DX-A23V-10A-01D-A29N-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	68873db8-897d-45d3-a524-3d64be5cdce2	c71940dd-4a6d-4498-bc17-02901daf8fde	3	183211912	183211912	G	A	SNP	KLHL6	ENST00000341319	human	ensembl	74_37	-1	known	silent	c.1305	p.I435	1.000	pfam_Kelch_1,pfam_Kelch_2,smart_Kelch_1,pirsf_Kelch-like_gigaxonin	pfam_Kelch_1,pfam_BACK,pfam_BTB_POZ,pfam_Kelch_2,superfamily_BTB/POZ_fold,smart_BTB/POZ-like,smart_BACK,smart_Kelch_1,pirsf_Kelch-like_gigaxonin,pfscan_BTB/POZ-like	-	no_errors	KLHL6	HGNC	ENSG00000172578	tier1	-	-	51	0	0.00	32	13	28.89	76	0	0.00	92	30	24.59
RBMXL3	0	genome.wustl.edu	37	X	114425571	114425571	+	Missense_Mutation	SNP	G	G	A			TCGA-DX-A23V-01A-11D-A29N-09	TCGA-DX-A23V-10A-01D-A29N-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	68873db8-897d-45d3-a524-3d64be5cdce2	c71940dd-4a6d-4498-bc17-02901daf8fde	X	114425571	114425571	G	A	SNP	RBMXL3	ENST00000424776	human	ensembl	74_37	+1	known	missense	c.1567	p.G523R	0.935	NULL	pfam_RRM_dom,smart_RRM_dom,pfscan_RRM_dom	-	no_errors	RBMXL3	HGNC	ENSG00000175718	tier1	-	-	98	0	0.00	81	28	25.69	53	0	0.00	30	10	25.00
SREBF1	0	genome.wustl.edu	37	17	17722392	17722392	+	Missense_Mutation	SNP	A	A	G			TCGA-DX-A23V-01A-11D-A29N-09	TCGA-DX-A23V-10A-01D-A29N-09	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	68873db8-897d-45d3-a524-3d64be5cdce2	c71940dd-4a6d-4498-bc17-02901daf8fde	17	17722392	17722392	A	G	SNP	SREBF1	ENST00000355815	human	ensembl	74_37	-1	known	missense	c.1093	p.Y365H	1.000	pfam_bHLH_dom,superfamily_bHLH_dom,smart_bHLH_dom,pfscan_bHLH_dom	pfam_bHLH_dom,superfamily_bHLH_dom,smart_bHLH_dom,pfscan_bHLH_dom	-	no_errors	SREBF1	HGNC	ENSG00000072310	tier1	-	-	58	0	0.00	52	15	22.39	33	0	0.00	32	11	25.58
B4GALNT1	0	genome.wustl.edu	37	12	58022646	58022646	+	Missense_Mutation	SNP	C	C	A			TCGA-DX-A23V-01A-11D-A29N-09	TCGA-DX-A23V-10A-01D-A29N-09	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	68873db8-897d-45d3-a524-3d64be5cdce2	c71940dd-4a6d-4498-bc17-02901daf8fde	12	58022646	58022646	C	A	SNP	B4GALNT1	ENST00000341156	human	ensembl	74_37	-1	known	missense	c.852	p.K284N	1.000	pfam_Glyco_trans_2,pirsf_GM2_synthase	pfam_Glyco_trans_2,pirsf_GM2_synthase	-	no_errors	B4GALNT1	HGNC	ENSG00000135454	tier1	-	-	80	0	0.00	658	60	8.34	106	0	0.00	637	90	12.38
ZNF479	0	genome.wustl.edu	37	7	57188683	57188683	+	Missense_Mutation	SNP	G	G	T			TCGA-DX-A23V-01A-11D-A29N-09	TCGA-DX-A23V-10A-01D-A29N-09	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	68873db8-897d-45d3-a524-3d64be5cdce2	c71940dd-4a6d-4498-bc17-02901daf8fde	7	57188683	57188683	G	T	SNP	ZNF479	ENST00000331162	human	ensembl	74_37	-1	known	missense	c.439	p.Q147K	0.046	NULL	pfam_Znf_C2H2,pfam_Krueppel-associated_box,superfamily_Krueppel-associated_box,smart_Krueppel-associated_box,smart_Znf_C2H2-like,pfscan_Znf_C2H2,pfscan_Krueppel-associated_box	-	no_errors	ZNF479	HGNC	ENSG00000185177	tier1	-	-	119	0	0.00	83	32	27.83	56	0	0.00	50	10	16.67
CEPT1	0	genome.wustl.edu	37	1	111703576	111703576	+	R	DEL	A	A	-			TCGA-DX-A23V-01A-11D-A29N-09	TCGA-DX-A23V-10A-01D-A29N-09	A	A	A	-	A	A	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	68873db8-897d-45d3-a524-3d64be5cdce2	c71940dd-4a6d-4498-bc17-02901daf8fde	1	111703576	111703576	A	-	DEL	CEPT1	ENST00000480324	human	ensembl	74_37	+1	known	rna	NULL	NULL	0.207	-	-	-	no_errors	CEPT1	HGNC	ENSG00000134255	tier1			21	0	0.00	11	3	21.43	24	0	0.00	22	3	12.00
PDLIM5	0	genome.wustl.edu	37	4	95504021	95504022	+	R	INS	-	-	T			TCGA-DX-A23V-01A-11D-A29N-09	TCGA-DX-A23V-10A-01D-A29N-09	-	-	-	T	-	-	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	68873db8-897d-45d3-a524-3d64be5cdce2	c71940dd-4a6d-4498-bc17-02901daf8fde	4	95504021	95504022	-	T	INS	PDLIM5	ENST00000508531	human	ensembl	74_37	+1	known	rna	NULL	NULL	0.000:0.018	-	-	-	no_errors	PDLIM5	HGNC	ENSG00000163110	tier1			32	0	0.00	22	4	15.38	59	0	0.00	44	7	13.73
ZNF880	0	genome.wustl.edu	37	19	52887558	52887558	+	Missense_Mutation	SNP	G	G	A			TCGA-DX-A23V-01A-11D-A29N-09	TCGA-DX-A23V-10A-01D-A29N-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	68873db8-897d-45d3-a524-3d64be5cdce2	c71940dd-4a6d-4498-bc17-02901daf8fde	19	52887558	52887558	G	A	SNP	ZNF880	ENST00000422689	human	ensembl	74_37	+1	known	missense	c.725	p.C242Y	0.735	pfam_Znf_C2H2,smart_Znf_C2H2-like,pfscan_Znf_C2H2	pfam_Znf_C2H2,pfam_Krueppel-associated_box,superfamily_Krueppel-associated_box,smart_Krueppel-associated_box,smart_Znf_C2H2-like,pfscan_Znf_C2H2,pfscan_Krueppel-associated_box	-	no_errors	ZNF880	HGNC	ENSG00000221923	tier1	-	-	32	0	0.00	20	4	16.67	18	0	0.00	6	6	50.00
ENSG00000225241	0	genome.wustl.edu	37	1	144598744	144598744	+	R	SNP	C	C	T			TCGA-DX-A23V-01A-11D-A29N-09	TCGA-DX-A23V-10A-01D-A29N-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	68873db8-897d-45d3-a524-3d64be5cdce2	c71940dd-4a6d-4498-bc17-02901daf8fde	1	144598744	144598744	C	T	SNP	ENSG00000225241	ENST00000419820	human	ensembl	74_37	+1	known	rna	NULL	NULL	0.001	-	-	-	no_errors	RP11-640M9.2	Clone_based_vega_gene	ENSG00000225241	tier1	-	-	42	0	0.00	38	5	11.63	131	0	0.00	104	6	5.41
DNM1P47	0	genome.wustl.edu	37	15	102297549	102297549	+	R	SNP	A	A	C			TCGA-DX-A23V-01A-11D-A29N-09	TCGA-DX-A23V-10A-01D-A29N-09	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	68873db8-897d-45d3-a524-3d64be5cdce2	c71940dd-4a6d-4498-bc17-02901daf8fde	15	102297549	102297549	A	C	SNP	DNM1P47	ENST00000561463	human	ensembl	74_37	+1	known	rna	NULL	NULL	0.917	-	-	-	no_errors	DNM1P47	HGNC	ENSG00000259660	tier1	rs71260650	-	12	0	0.00	10	11	52.38	0	0	0.00	0	0	0.00
OPN1MW2	0	genome.wustl.edu	37	X	153492789	153492789	+	Missense_Mutation	SNP	G	G	T			TCGA-DX-A23V-01A-11D-A29N-09	TCGA-DX-A23V-10A-01D-A29N-09	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	68873db8-897d-45d3-a524-3d64be5cdce2	c71940dd-4a6d-4498-bc17-02901daf8fde	X	153492789	153492789	G	T	SNP	OPN1MW2	ENST00000369929	human	ensembl	74_37	+1	known	missense	c.538	p.A180S	0.989	pfam_GPCR_Rhodpsn,pfscan_GPCR_Rhodpsn_7TM,prints_GPCR_Rhodpsn	pfam_GPCR_Rhodpsn,pfam_7TM_GPCR_serpentine_rcpt_Srw,pfscan_GPCR_Rhodpsn_7TM,prints_Opsin_red/grn,prints_GPCR_Rhodpsn,prints_Opsin	-	no_errors	OPN1MW2	HGNC	ENSG00000166160	tier1	rs139163406	-	11	0	0.00	3	5	62.50	0	0	0.00	0	0	0.00
PNCK	0	genome.wustl.edu	37	X	152938410	152938411	+	R	DEL	AC	AC	-			TCGA-DX-A23V-01A-11D-A29N-09	TCGA-DX-A23V-10A-01D-A29N-09	AC	AC					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	68873db8-897d-45d3-a524-3d64be5cdce2	c71940dd-4a6d-4498-bc17-02901daf8fde	X	152938410	152938411	AC	-	DEL	PNCK	ENST00000462280	human	ensembl	74_37	-1	putative	rna	NULL	NULL	0.001:0.002	-	-	-	no_errors	PNCK	HGNC	ENSG00000130822	tier1			27	0	0.00	40	9	18.37	1	0	0.00	5	0	0.00
TEX13A	0	genome.wustl.edu	37	X	104464405	104464405	+	Missense_Mutation	SNP	C	C	T			TCGA-DX-A23V-01A-11D-A29N-09	TCGA-DX-A23V-10A-01D-A29N-09	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	68873db8-897d-45d3-a524-3d64be5cdce2	c71940dd-4a6d-4498-bc17-02901daf8fde	X	104464405	104464405	C	T	SNP	TEX13A	ENST00000413579	human	ensembl	74_37	-1	known	missense	c.473	p.G158E	0.000	NULL	pfam_Znf_RanBP2,pfscan_Znf_RanBP2	-	no_errors	TEX13A	HGNC	ENSG00000133149	tier1	-	-	27	0	0.00	17	13	43.33	2	0	0.00	2	0	0.00
WASH3P	0	genome.wustl.edu	37	15	102506815	102506816	+	R	DEL	CC	CC	-			TCGA-DX-A23V-01A-11D-A29N-09	TCGA-DX-A23V-10A-01D-A29N-09	CC	CC					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	68873db8-897d-45d3-a524-3d64be5cdce2	c71940dd-4a6d-4498-bc17-02901daf8fde	15	102506815	102506816	CC	-	DEL	WASH3P	ENST00000559884	human	ensembl	74_37	+1	known	rna	NULL	NULL	0.000:0.000	-	-	-	no_errors	WASH3P	HGNC	ENSG00000185596	tier1			11	0	0.00	5	4	44.44	0	0	0.00	0	0	0.00
RAB9B	0	genome.wustl.edu	37	X	103080614	103080614	+	Missense_Mutation	SNP	G	G	T			TCGA-DX-A23V-01A-11D-A29N-09	TCGA-DX-A23V-10A-01D-A29N-09	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	68873db8-897d-45d3-a524-3d64be5cdce2	c71940dd-4a6d-4498-bc17-02901daf8fde	X	103080614	103080614	G	T	SNP	RAB9B	ENST00000243298	human	ensembl	74_37	-1	known	missense	c.101	p.S34Y	1.000	pfam_Small_GTPase,pfam_MIRO-like,pfam_Small_GTPase_ARF/SAR,pfam_Gtr1_RagA,pfam_EF_GTP-bd_dom,superfamily_P-loop_NTPase,smart_Small_GTPase_Ras,smart_Small_GTPase_Rab_type,smart_Small_GTPase_Rho,smart_Ran_GTPase,prints_Small_GTPase,tigrfam_Small_GTP-bd_dom	pfam_Small_GTPase,pfam_MIRO-like,pfam_Small_GTPase_ARF/SAR,pfam_Gtr1_RagA,pfam_EF_GTP-bd_dom,superfamily_P-loop_NTPase,smart_Small_GTPase_Ras,smart_Small_GTPase_Rab_type,smart_Small_GTPase_Rho,smart_Ran_GTPase,prints_Small_GTPase,tigrfam_Small_GTP-bd_dom	-	no_errors	RAB9B	HGNC	ENSG00000123570	tier1	-	-	36	0	0.00	37	4	9.76	121	0	0.00	111	2	1.77