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
MAN1B1	0	genome.wustl.edu	37	9	140002840	140002840	+	Missense_Mutation	SNP	G	G	T			TCGA-DX-A6B9-01A-12D-A32I-09	TCGA-DX-A6B9-10A-01D-A32I-09	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	e062c178-feb3-4e3f-8ecb-f8bb99831131	d4f1cdfe-f1dd-496c-9021-403dd1e67786	9	140002840	140002840	G	T	SNP	MAN1B1	ENST00000371589	human	ensembl	74_37	+1	known	missense	c.1897	p.V633F	1.000	pfam_Glyco_hydro_47,superfamily_Glyco_hydro_47	pfam_Glyco_hydro_47,superfamily_Glyco_hydro_47,prints_Glyco_hydro_47	-	no_errors	MAN1B1	HGNC	ENSG00000177239	tier1	-	-	25	0	0.00	10	8	44.44	72	0	0.00	35	30	46.15
GATA4	0	genome.wustl.edu	37	8	11615950	11615950	+	Missense_Mutation	SNP	T	T	C			TCGA-DX-A6B9-01A-12D-A32I-09	TCGA-DX-A6B9-10A-01D-A32I-09	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	e062c178-feb3-4e3f-8ecb-f8bb99831131	d4f1cdfe-f1dd-496c-9021-403dd1e67786	8	11615950	11615950	T	C	SNP	GATA4	ENST00000335135	human	ensembl	74_37	+1	known	missense	c.1295	p.L432S	1.000	pirsf_TF_GATA_4/5/6	pfam_GATA_N,pfam_Znf_GATA,smart_Znf_GATA,pirsf_TF_GATA_4/5/6,pfscan_Znf_GATA,prints_Znf_GATA	-	no_errors	GATA4	HGNC	ENSG00000136574	tier1	-	-	40	0	0.00	25	19	43.18	104	0	0.00	65	37	36.27
PSMA8	0	genome.wustl.edu	37	18	23731924	23731924	+	Missense_Mutation	SNP	G	G	A			TCGA-DX-A6B9-01A-12D-A32I-09	TCGA-DX-A6B9-10A-01D-A32I-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	e062c178-feb3-4e3f-8ecb-f8bb99831131	d4f1cdfe-f1dd-496c-9021-403dd1e67786	18	23731924	23731924	G	A	SNP	PSMA8	ENST00000308268	human	ensembl	74_37	+1	known	missense	c.350	p.R117H	1.000	pfam_Proteasome_sua/b	pfam_Proteasome_sua/b,pfam_Proteasome_asu_N,smart_Proteasome_asu_N	-	no_errors	PSMA8	HGNC	ENSG00000154611	tier1	-	-	59	0	0.00	44	38	46.34	156	0	0.00	55	42	43.30
BTBD11	0	genome.wustl.edu	37	12	108013765	108013765	+	Missense_Mutation	SNP	G	G	A			TCGA-DX-A6B9-01A-12D-A32I-09	TCGA-DX-A6B9-10A-01D-A32I-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	e062c178-feb3-4e3f-8ecb-f8bb99831131	d4f1cdfe-f1dd-496c-9021-403dd1e67786	12	108013765	108013765	G	A	SNP	BTBD11	ENST00000280758	human	ensembl	74_37	+1	known	missense	c.2455	p.V819I	1.000	NULL	pfam_Ankyrin_rpt,pfam_BTB_POZ,superfamily_BTB/POZ_fold,superfamily_Ankyrin_rpt-contain_dom,superfamily_Histone-fold,smart_Ankyrin_rpt,smart_BTB/POZ-like,pfscan_Ankyrin_rpt,pfscan_Ankyrin_rpt-contain_dom,pfscan_BTB/POZ-like	-	no_errors	BTBD11	HGNC	ENSG00000151136	tier1	rs201620480	-	20	0	0.00	22	14	38.89	74	0	0.00	33	20	37.04
PCDH12	0	genome.wustl.edu	37	5	141334716	141334716	+	Nonsense_Mutation	SNP	G	G	A			TCGA-DX-A6B9-01A-12D-A32I-09	TCGA-DX-A6B9-10A-01D-A32I-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	e062c178-feb3-4e3f-8ecb-f8bb99831131	d4f1cdfe-f1dd-496c-9021-403dd1e67786	5	141334716	141334716	G	A	SNP	PCDH12	ENST00000231484	human	ensembl	74_37	-1	known	nonsense	c.2701	p.Q901*	0.000	NULL	pfam_Cadherin,pfam_Cadherin_N,superfamily_Cadherin-like,smart_Cadherin,pfscan_Cadherin,prints_Cadherin	-	no_errors	PCDH12	HGNC	ENSG00000113555	tier1	-	-	59	0	0.00	53	34	39.08	25	0	0.00	17	3	15.00
FYB	0	genome.wustl.edu	37	5	39153561	39153561	+	Silent	SNP	C	C	T			TCGA-DX-A6B9-01A-12D-A32I-09	TCGA-DX-A6B9-10A-01D-A32I-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	e062c178-feb3-4e3f-8ecb-f8bb99831131	d4f1cdfe-f1dd-496c-9021-403dd1e67786	5	39153561	39153561	C	T	SNP	FYB	ENST00000540520	human	ensembl	74_37	-1	known	silent	c.1311	p.P437	0.790	NULL	pfam_SH3_2,superfamily_SH3_domain,smart_SH3_domain	-	no_errors	FYB	HGNC	ENSG00000082074	tier1	rs115158663	GMAF=0.0005	81	0	0.00	54	35	39.33	105	0	0.00	52	31	36.90
COL4A1	0	genome.wustl.edu	37	13	110831646	110831646	+	Silent	SNP	G	G	A			TCGA-DX-A6B9-01A-12D-A32I-09	TCGA-DX-A6B9-10A-01D-A32I-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	e062c178-feb3-4e3f-8ecb-f8bb99831131	d4f1cdfe-f1dd-496c-9021-403dd1e67786	13	110831646	110831646	G	A	SNP	COL4A1	ENST00000375820	human	ensembl	74_37	-1	known	silent	c.2316	p.I772	0.000	pfam_Collagen	pfam_Collagen,pfam_Collagen_VI_NC,superfamily_C-type_lectin_fold,smart_Collagen_VI_NC	-	no_errors	COL4A1	HGNC	ENSG00000187498	tier1	-	-	41	0	0.00	75	12	13.79	134	0	0.00	83	50	37.59
SCAF11	0	genome.wustl.edu	37	12	46321265	46321265	+	Missense_Mutation	SNP	T	T	C			TCGA-DX-A6B9-01A-12D-A32I-09	TCGA-DX-A6B9-10A-01D-A32I-09	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	e062c178-feb3-4e3f-8ecb-f8bb99831131	d4f1cdfe-f1dd-496c-9021-403dd1e67786	12	46321265	46321265	T	C	SNP	SCAF11	ENST00000369367	human	ensembl	74_37	-1	known	missense	c.2219	p.D740G	0.744	NULL	smart_Znf_RING,pfscan_Znf_RING	-	no_errors	SCAF11	HGNC	ENSG00000139218	tier1	-	-	21	0	0.00	8	8	50.00	73	0	0.00	32	23	41.82
COL4A1	0	genome.wustl.edu	37	13	110831720	110831720	+	Missense_Mutation	SNP	G	G	A			TCGA-DX-A6B9-01A-12D-A32I-09	TCGA-DX-A6B9-10A-01D-A32I-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	e062c178-feb3-4e3f-8ecb-f8bb99831131	d4f1cdfe-f1dd-496c-9021-403dd1e67786	13	110831720	110831720	G	A	SNP	COL4A1	ENST00000375820	human	ensembl	74_37	-1	known	missense	c.2242	p.P748S	0.891	pfam_Collagen	pfam_Collagen,pfam_Collagen_VI_NC,superfamily_C-type_lectin_fold,smart_Collagen_VI_NC	-	no_errors	COL4A1	HGNC	ENSG00000187498	tier1	-	-	53	0	0.00	56	20	26.32	142	0	0.00	118	46	28.05
MIR145	0	genome.wustl.edu	37	5	148810071	148810072	+	R	INS	-	-	C			TCGA-DX-A6B9-01A-12D-A32I-09	TCGA-DX-A6B9-10A-01D-A32I-09	-	-	-	C	-	-	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	e062c178-feb3-4e3f-8ecb-f8bb99831131	d4f1cdfe-f1dd-496c-9021-403dd1e67786	5	148810071	148810072	-	C	INS	MIR145	ENST00000602315	human	ensembl	74_37	+1	known	rna	NULL	NULL	0.001:0.002	-	-	-	no_errors	MIR145	HGNC	ENSG00000269936	tier1			8	0	0.00	7	5	41.67	120	0	0.00	55	59	51.75
MAGEA1	0	genome.wustl.edu	37	X	152482246	152482246	+	Silent	SNP	C	C	T			TCGA-DX-A6B9-01A-12D-A32I-09	TCGA-DX-A6B9-10A-01D-A32I-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	e062c178-feb3-4e3f-8ecb-f8bb99831131	d4f1cdfe-f1dd-496c-9021-403dd1e67786	X	152482246	152482246	C	T	SNP	MAGEA1	ENST00000356661	human	ensembl	74_37	-1	known	silent	c.765	p.P255	0.000	pfam_MAGE,pfscan_MAGE	pfam_MAGE,pfam_Melanoma_ass_antigen_N,pfscan_MAGE	-	no_errors	MAGEA1	HGNC	ENSG00000198681	tier1	-	-	93	0	0.00	76	47	38.21	15	0	0.00	6	9	60.00
AGAP1	0	genome.wustl.edu	37	2	236877223	236877223	+	Missense_Mutation	SNP	G	G	C			TCGA-DX-A6B9-01A-12D-A32I-09	TCGA-DX-A6B9-10A-01D-A32I-09	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	e062c178-feb3-4e3f-8ecb-f8bb99831131	d4f1cdfe-f1dd-496c-9021-403dd1e67786	2	236877223	236877223	G	C	SNP	AGAP1	ENST00000304032	human	ensembl	74_37	+1	known	missense	c.1601	p.S534T	1.000	pfam_Pleckstrin_homology,smart_Pleckstrin_homology,pfscan_Pleckstrin_homology	pfam_ArfGAP,pfam_MIRO-like,pfam_Small_GTPase,pfam_Ankyrin_rpt,pfam_Pleckstrin_homology,superfamily_P-loop_NTPase,superfamily_Ankyrin_rpt-contain_dom,smart_Small_GTPase_Ras,smart_Small_GTPase_Rab_type,smart_Pleckstrin_homology,smart_ArfGAP,smart_Ankyrin_rpt,pfscan_Ankyrin_rpt,pfscan_Ankyrin_rpt-contain_dom,pfscan_Pleckstrin_homology,pfscan_ArfGAP,prints_ArfGAP,prints_Small_GTPase	-	no_errors	AGAP1	HGNC	ENSG00000157985	tier1	-	-	55	0	0.00	50	26	34.21	30	1	3.03	15	9	36.00
TMEM88B	0	genome.wustl.edu	37	1	1361531	1361533	+	In_Frame_Del	DEL	GGA	GGA	-			TCGA-DX-A6B9-01A-12D-A32I-09	TCGA-DX-A6B9-10A-01D-A32I-09	GGA	GGA					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	e062c178-feb3-4e3f-8ecb-f8bb99831131	d4f1cdfe-f1dd-496c-9021-403dd1e67786	1	1361531	1361533	GGA	-	DEL	TMEM88B	ENST00000378821	human	ensembl	74_37	+1	novel	in_frame_del	c.24_26	p.E12in_frame_del	0.001:0.809:0.920	NULL	NULL	-	no_errors	TMEM88B	HGNC	ENSG00000205116	tier1			11	0	0.00	6	3	33.33	5	0	0.00	3	0	0.00
PCDHB3	0	genome.wustl.edu	37	5	140482187	140482187	+	Missense_Mutation	SNP	C	C	T			TCGA-DX-A6B9-01A-12D-A32I-09	TCGA-DX-A6B9-10A-01D-A32I-09	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	e062c178-feb3-4e3f-8ecb-f8bb99831131	d4f1cdfe-f1dd-496c-9021-403dd1e67786	5	140482187	140482187	C	T	SNP	PCDHB3	ENST00000231130	human	ensembl	74_37	+1	known	missense	c.1954	p.R652C	0.752	pfam_Cadherin,superfamily_Cadherin-like,smart_Cadherin,pfscan_Cadherin	pfam_Cadherin,pfam_Cadherin_N,superfamily_Cadherin-like,smart_Cadherin,pfscan_Cadherin,prints_Cadherin	-	no_errors	PCDHB3	HGNC	ENSG00000113205	tier1	-	-	65	0	0.00	40	23	36.51	0	0	0.00	1	0	0.00
BPTF	0	genome.wustl.edu	37	17	65955758	65955759	+	In_Frame_Ins	INS	-	-	CCTCCAGCC			TCGA-DX-A6B9-01A-12D-A32I-09	TCGA-DX-A6B9-10A-01D-A32I-09	-	-					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	e062c178-feb3-4e3f-8ecb-f8bb99831131	d4f1cdfe-f1dd-496c-9021-403dd1e67786	17	65955758	65955759	-	CCTCCAGCC	INS	BPTF	ENST00000321892	human	ensembl	74_37	+1	known	in_frame_ins	c.8406_8407	p.2806in_frame_insPAP	0.001:0.001	superfamily_Bromodomain,superfamily_Adenylate_cyclase-assoc_CAP_N	pfam_Bromodomain,pfam_DDT_dom,pfam_Znf_PHD-finger,superfamily_Bromodomain,superfamily_Znf_FYVE_PHD,superfamily_Adenylate_cyclase-assoc_CAP_N,smart_DDT_dom_subgr,smart_Znf_PHD,smart_Bromodomain,pfscan_Znf_PHD-finger,pfscan_DDT_dom_superfamily,pfscan_Bromodomain,prints_Bromodomain	-	no_errors	BPTF	HGNC	ENSG00000171634	tier1			40	0	0.00	25	2	7.41	40	0	0.00	25	2	7.41