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
ETV5	0	genome.wustl.edu	37	3	185823280	185823280	+	Missense_Mutation	SNP	A	A	G			TCGA-K1-A3PO-01A-11D-A21Q-09	TCGA-K1-A3PO-11A-12D-A21Q-09	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	11bb5036-42ef-479e-b619-46a4aa3ed5cb	b2c9d18c-b494-450b-88ea-23fd0434115e	3	185823280	185823280	A	G	SNP	ETV5	ENST00000537818	human	ensembl	74_37	-1	known	missense	c.265	p.F89L	1.000	pfam_ETS_PEA3_N	pfam_ETS_PEA3_N,pfam_Ets_dom,smart_Ets_dom,pfscan_Ets_dom,prints_Ets_dom	-	no_errors	ETV5	HGNC	ENSG00000244405	tier1	-	-	36	0	0.00	39	11	22.00	101	0	0.00	87	17	16.35
HYDIN	0	genome.wustl.edu	37	16	70841824	70841824	+	Missense_Mutation	SNP	C	C	T			TCGA-K1-A3PO-01A-11D-A21Q-09	TCGA-K1-A3PO-11A-12D-A21Q-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	11bb5036-42ef-479e-b619-46a4aa3ed5cb	b2c9d18c-b494-450b-88ea-23fd0434115e	16	70841824	70841824	C	T	SNP	HYDIN	ENST00000393567	human	ensembl	74_37	-1	putative	missense	c.15025	p.A5009T	0.000	NULL	superfamily_P-loop_NTPase,superfamily_PapD-like	-	no_errors	HYDIN	HGNC	ENSG00000157423	tier1	rs199657414	-	42	0	0.00	68	11	13.92	102	0	0.00	96	21	17.95
KDM5B	0	genome.wustl.edu	37	1	202709871	202709871	+	Silent	SNP	G	G	A			TCGA-K1-A3PO-01A-11D-A21Q-09	TCGA-K1-A3PO-11A-12D-A21Q-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	11bb5036-42ef-479e-b619-46a4aa3ed5cb	b2c9d18c-b494-450b-88ea-23fd0434115e	1	202709871	202709871	G	A	SNP	KDM5B	ENST00000367264	human	ensembl	74_37	-1	known	silent	c.3123	p.P1041	1.000	pfam_Lys_sp_deMease_like_dom	pfam_Lys_sp_deMease_like_dom,pfam_JmjC_dom,pfam_Znf_PHD-finger,pfam_ARID/BRIGHT_D-bd,pfam_Znf_C5HC2,pfam_TF_JmjN,superfamily_ARID/BRIGHT_D-bd,superfamily_Znf_FYVE_PHD,smart_TF_JmjN,smart_ARID/BRIGHT_D-bd,smart_Znf_PHD,smart_JmjC_dom,pfscan_TF_JmjN,pfscan_JmjC_dom,pfscan_Znf_PHD-finger,pfscan_ARID/BRIGHT_D-bd	-	no_errors	KDM5B	HGNC	ENSG00000117139	tier1	-	-	42	0	0.00	29	4	12.12	73	0	0.00	69	9	11.54
NYAP2	0	genome.wustl.edu	37	2	226516263	226516263	+	Silent	SNP	G	G	A			TCGA-K1-A3PO-01A-11D-A21Q-09	TCGA-K1-A3PO-11A-12D-A21Q-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	11bb5036-42ef-479e-b619-46a4aa3ed5cb	b2c9d18c-b494-450b-88ea-23fd0434115e	2	226516263	226516263	G	A	SNP	NYAP2	ENST00000272907	human	ensembl	74_37	+1	known	silent	c.1944	p.S648	1.000	NULL	NULL	-	no_errors	NYAP2	HGNC	ENSG00000144460	tier1	-	-	44	0	0.00	44	10	18.52	96	0	0.00	75	24	24.24
ARHGEF9	0	genome.wustl.edu	37	X	62898428	62898429	+	Frame_Shift_Ins	INS	-	-	A			TCGA-K1-A3PO-01A-11D-A21Q-09	TCGA-K1-A3PO-11A-12D-A21Q-09	-	-	-	A	-	-	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	11bb5036-42ef-479e-b619-46a4aa3ed5cb	b2c9d18c-b494-450b-88ea-23fd0434115e	X	62898428	62898429	-	A	INS	ARHGEF9	ENST00000253401	human	ensembl	74_37	-1	known	frame_shift_ins	c.586_585	p.E195fs	1.000:0.981	pfam_DH-domain,superfamily_DH-domain,smart_DH-domain,pfscan_DH-domain	pfam_DH-domain,pfam_SH3_2,pfam_SH3_domain,pfam_Pleckstrin_homology,superfamily_DH-domain,superfamily_SH3_domain,smart_SH3_domain,smart_DH-domain,smart_Pleckstrin_homology,pfscan_Pleckstrin_homology,pfscan_SH3_domain,pfscan_DH-domain	-	no_errors	ARHGEF9	HGNC	ENSG00000131089	tier1			25	0	0.00	21	9	30.00	44	0	0.00	16	15	48.39
CGN	0	genome.wustl.edu	37	1	151503079	151503079	+	Missense_Mutation	SNP	G	G	T			TCGA-K1-A3PO-01A-11D-A21Q-09	TCGA-K1-A3PO-11A-12D-A21Q-09	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	11bb5036-42ef-479e-b619-46a4aa3ed5cb	b2c9d18c-b494-450b-88ea-23fd0434115e	1	151503079	151503079	G	T	SNP	CGN	ENST00000271636	human	ensembl	74_37	+1	known	missense	c.2428	p.A810S	0.001	NULL	pfam_Myosin_tail	-	no_errors	CGN	HGNC	ENSG00000143375	tier1	-	-	35	0	0.00	22	4	15.38	9	0	0.00	4	0	0.00
ENSG00000259241	0	genome.wustl.edu	37	15	51987959	51987960	+	R	INS	-	-	A			TCGA-K1-A3PO-01A-11D-A21Q-09	TCGA-K1-A3PO-11A-12D-A21Q-09	-	-					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	11bb5036-42ef-479e-b619-46a4aa3ed5cb	b2c9d18c-b494-450b-88ea-23fd0434115e	15	51987959	51987960	-	A	INS	ENSG00000259241	ENST00000559918	human	ensembl	74_37	-1	known	rna	NULL	NULL	0.003:0.006	-	-	-	no_errors	RP11-313P18.2	Clone_based_vega_gene	ENSG00000259241	tier1			15	0	0.00	14	4	22.22	1	0	0.00	0	0	0.00
LRBA	0	genome.wustl.edu	37	4	151186065	151186069	+	R	DEL	AACAA	AACAA	-			TCGA-K1-A3PO-01A-11D-A21Q-09	TCGA-K1-A3PO-11A-12D-A21Q-09	AACAA	AACAA					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	11bb5036-42ef-479e-b619-46a4aa3ed5cb	b2c9d18c-b494-450b-88ea-23fd0434115e	4	151186065	151186069	AACAA	-	DEL	LRBA	ENST00000503716	human	ensembl	74_37	-1	known	rna	NULL	NULL	0.005:0.005:0.005:0.005:0.004	-	-	-	no_errors	LRBA	HGNC	ENSG00000198589	tier1			4	0	0.00	9	0	0.00	4	0	0.00	9	0	0.00
MT-CO1	0	genome.wustl.edu	37	MT	6733	6733	+	Missense_Mutation	SNP	T	T	A			TCGA-K1-A3PO-01A-11D-A21Q-09	TCGA-K1-A3PO-11A-12D-A21Q-09	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	11bb5036-42ef-479e-b619-46a4aa3ed5cb	b2c9d18c-b494-450b-88ea-23fd0434115e	MT	6733	6733	T	A	SNP	MT-CO1	ENST00000361624	human	ensembl	74_37	+1	known	missense	c.830	p.M277K	NULL	pfam_Cyt_c_Oxase_su1,superfamily_Cyt_c_Oxase_su1_dom,pfscan_Cyt_c_Oxase_su1_dom	pfam_Cyt_c_Oxase_su1,superfamily_Cyt_c_Oxase_su1_dom,pfscan_Cyt_c_Oxase_su1_dom,prints_Cyt_c_Oxase_su1	-	no_errors	MT-CO1	HGNC	ENSG00000198804	tier1	-	-	153	0	0.00	13	2	13.33	2	0	0.00	0	0	0.00
MT-ND5	0	genome.wustl.edu	37	MT	12684	12684	+	Silent	SNP	G	G	A			TCGA-K1-A3PO-01A-11D-A21Q-09	TCGA-K1-A3PO-11A-12D-A21Q-09	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	11bb5036-42ef-479e-b619-46a4aa3ed5cb	b2c9d18c-b494-450b-88ea-23fd0434115e	MT	12684	12684	G	A	SNP	MT-ND5	ENST00000361567	human	ensembl	74_37	+1	known	silent	c.348	p.Q116	NULL	pfam_DH_UbQ_OxRdtase_chain5/L_N,tigrfam_DHpl_OxRdtase_5	pfam_DH_UbQ/plastoQ_OxRdtase,pfam_DH_DH_su5_C,pfam_DH_UbQ_OxRdtase_chain5/L_N,tigrfam_DHpl_OxRdtase_5	-	no_errors	MT-ND5	HGNC	ENSG00000198786	tier1	rs28410409	-	188	0	0.00	25	6	19.35	1	0	0.00	1	0	0.00
MT-ND5	0	genome.wustl.edu	37	MT	12705	12705	+	Silent	SNP	C	C	T			TCGA-K1-A3PO-01A-11D-A21Q-09	TCGA-K1-A3PO-11A-12D-A21Q-09	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	11bb5036-42ef-479e-b619-46a4aa3ed5cb	b2c9d18c-b494-450b-88ea-23fd0434115e	MT	12705	12705	C	T	SNP	MT-ND5	ENST00000361567	human	ensembl	74_37	+1	known	silent	c.369	p.I123	NULL	pfam_DH_UbQ_OxRdtase_chain5/L_N,tigrfam_DHpl_OxRdtase_5	pfam_DH_UbQ/plastoQ_OxRdtase,pfam_DH_DH_su5_C,pfam_DH_UbQ_OxRdtase_chain5/L_N,tigrfam_DHpl_OxRdtase_5	-	no_errors	MT-ND5	HGNC	ENSG00000198786	tier1	rs2854122	-	178	0	0.00	19	5	20.83	1	0	0.00	2	0	0.00
MT-ND5	0	genome.wustl.edu	37	MT	13177	13177	+	Missense_Mutation	SNP	G	G	A			TCGA-K1-A3PO-01A-11D-A21Q-09	TCGA-K1-A3PO-11A-12D-A21Q-09	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	11bb5036-42ef-479e-b619-46a4aa3ed5cb	b2c9d18c-b494-450b-88ea-23fd0434115e	MT	13177	13177	G	A	SNP	MT-ND5	ENST00000361567	human	ensembl	74_37	+1	known	missense	c.841	p.G281S	NULL	pfam_DH_UbQ/plastoQ_OxRdtase,tigrfam_DHpl_OxRdtase_5	pfam_DH_UbQ/plastoQ_OxRdtase,pfam_DH_DH_su5_C,pfam_DH_UbQ_OxRdtase_chain5/L_N,tigrfam_DHpl_OxRdtase_5	-	no_errors	MT-ND5	HGNC	ENSG00000198786	tier1	-	-	216	0	0.00	20	6	23.08	0	0	0.00	0	0	0.00
PPP2R2B	0	genome.wustl.edu	37	5	146258290	146258291	+	R	INS	-	-	GCTGCTGCT			TCGA-K1-A3PO-01A-11D-A21Q-09	TCGA-K1-A3PO-11A-12D-A21Q-09	-	-					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	11bb5036-42ef-479e-b619-46a4aa3ed5cb	b2c9d18c-b494-450b-88ea-23fd0434115e	5	146258290	146258291	-	GCTGCTGCT	INS	PPP2R2B	ENST00000530902	human	ensembl	74_37	-1	known	rna	NULL	NULL	0.975:0.996	-	-	-	no_errors	PPP2R2B	HGNC	ENSG00000156475	tier1			0	0	0.00	3	0	0.00	0	0	0.00	3	0	0.00