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	rsID	rsID_ref_var_alleles	CAF	normal_ref_reads	normal_var_reads	normal_vaf	tumor_ref_reads	tumor_var_reads	tumor_vaf	normal_ref_reads_val	normal_var_reads_val	normal_vaf_val	tumor_ref_reads_val	tumor_var_reads_val	tumor_vaf_val
ATOH8	0	genome.wustl.edu	37	2	85999798	85999798	+	RNA	SNP	A	A	G			TCGA-4V-A9QM-01A-11D-A423-09	TCGA-4V-A9QM-11A-11D-A426-09	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	660b7dac-fbdc-4ea6-b49d-dcc29088a5d4	cc42f8f7-c7cc-4bdc-adc5-250b99c4852b	2	85999798	85999798	A	G	SNP	ATOH8	ENST00000463422	human	ensembl	74_37	1	putative	rna	NULL	NULL	0.996	0	0	0	no_errors	0	0	0	44	0	0	42	7	14.29	148	0	0.00	109	27	19.71
ECE2	0	genome.wustl.edu	37	3	183976104	183976104	+	Missense_Mutation	SNP	G	G	A			TCGA-4V-A9QM-01A-11D-A423-09	TCGA-4V-A9QM-11A-11D-A426-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	660b7dac-fbdc-4ea6-b49d-dcc29088a5d4	cc42f8f7-c7cc-4bdc-adc5-250b99c4852b	3	183976104	183976104	G	A	SNP	ECE2	ENST00000324557	human	ensembl	74_37	1	known	missense	c.509	p.R170Q	1	pfam_Methyltransf_11,pfam_Methyltransf_12	pfam_Methyltransf_11,pfam_Methyltransf_12	0	no_errors	0	0	0	46	0	0	28	6	17.65	179	1	0.56	100	30	23.08
SMAP1	0	genome.wustl.edu	37	6	71508379	71508379	+	Missense_Mutation	SNP	A	A	C			TCGA-4V-A9QM-01A-11D-A423-09	TCGA-4V-A9QM-11A-11D-A426-09	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	660b7dac-fbdc-4ea6-b49d-dcc29088a5d4	cc42f8f7-c7cc-4bdc-adc5-250b99c4852b	6	71508379	71508379	A	C	SNP	SMAP1	ENST00000370455	human	ensembl	74_37	1	known	missense	c.515	p.K172T	1	NULL	pfam_ArfGAP,smart_ArfGAP,pfscan_ArfGAP,prints_ArfGAP	0	no_errors	0	0	0	89	0	0	177	41	18.81	121	0	0.00	97	37	27.61
LMTK2	0	genome.wustl.edu	37	7	97822349	97822349	+	Missense_Mutation	SNP	A	A	T			TCGA-4V-A9QM-01A-11D-A423-09	TCGA-4V-A9QM-11A-11D-A426-09	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	660b7dac-fbdc-4ea6-b49d-dcc29088a5d4	cc42f8f7-c7cc-4bdc-adc5-250b99c4852b	7	97822349	97822349	A	T	SNP	LMTK2	ENST00000297293	human	ensembl	74_37	1	known	missense	c.2572	p.I858F	0	NULL	pfam_Ser-Thr/Tyr_kinase_cat_dom,pfam_Prot_kinase_dom,superfamily_Kinase-like_dom,smart_Ser/Thr_dual-sp_kinase_dom,smart_Tyr_kinase_cat_dom,pfscan_Prot_kinase_dom,prints_Ser-Thr/Tyr_kinase_cat_dom	0	no_errors	0	0	0	30	0	0	30	6	16.67	141	0	0.00	117	25	17.61
MTAP	0	genome.wustl.edu	37	9	21815456	21815456	+	Missense_Mutation	SNP	C	C	G			TCGA-4V-A9QM-01A-11D-A423-09	TCGA-4V-A9QM-11A-11D-A426-09	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	660b7dac-fbdc-4ea6-b49d-dcc29088a5d4	cc42f8f7-c7cc-4bdc-adc5-250b99c4852b	9	21815456	21815456	C	G	SNP	MTAP	ENST00000380172	human	ensembl	74_37	1	known	missense	c.58	p.L20V	1	pfam_Nucleoside_phosphorylase_d,tigrfam_MTAP	pfam_Nucleoside_phosphorylase_d,tigrfam_MTAP	0	no_errors	0	0	0	45	0	0	58	23	28.4	127	0	0.00	69	39	36.11
PLCE1	0	genome.wustl.edu	37	10	96066442	96066442	+	Nonsense_Mutation	SNP	C	C	T			TCGA-4V-A9QM-01A-11D-A423-09	TCGA-4V-A9QM-11A-11D-A426-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	660b7dac-fbdc-4ea6-b49d-dcc29088a5d4	cc42f8f7-c7cc-4bdc-adc5-250b99c4852b	10	96066442	96066442	C	T	SNP	PLCE1	ENST00000260766	human	ensembl	74_37	1	known	nonsense	c.5881	p.R1961*	0.519	superfamily_C2_dom,smart_C2_dom,prints_Pinositol_PLipase_C	pfam_PLipase_C_PInositol-sp_X_dom,pfam_PLipase_C_Pinositol-sp_Y,pfam_Ras-assoc,pfam_RasGRF_CDC25,pfam_PLipase_C_EF-hand-like,pfam_C2_dom,superfamily_PLC-like_Pdiesterase_TIM-brl,superfamily_Ras_GEF_dom,superfamily_C2_dom,smart_RasGRF_CDC25,smart_PLipase_C_PInositol-sp_X_dom,smart_PLipase_C_Pinositol-sp_Y,smart_C2_dom,smart_Ras-assoc,pfscan_C2_dom,pfscan_Ras-assoc,pfscan_PLipase_C_PInositol-sp_X_dom,pfscan_PLipase_C_Pinositol-sp_Y,pfscan_RasGRF_CDC25,prints_Pinositol_PLipase_C	0	no_errors	0	0	0	42	0	0	33	13	28.26	215	0	0.00	175	57	24.57
RBM23	0	genome.wustl.edu	37	14	23375467	23375467	+	Missense_Mutation	SNP	G	G	A			TCGA-4V-A9QM-01A-11D-A423-09	TCGA-4V-A9QM-11A-11D-A426-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	660b7dac-fbdc-4ea6-b49d-dcc29088a5d4	cc42f8f7-c7cc-4bdc-adc5-250b99c4852b	14	23375467	23375467	G	A	SNP	RBM23	ENST00000359890	human	ensembl	74_37	-1	known	missense	c.338	p.S113L	0.997	tigrfam_CC1_SF	pfam_RRM_dom,smart_RRM_dom,pfscan_RRM_dom,tigrfam_CC1_SF	0	no_errors	0	0	0	43	0	0	43	6	12.24	158	0	0.00	107	17	13.49
KIAA0556	0	genome.wustl.edu	37	16	27763207	27763207	+	Missense_Mutation	SNP	C	C	T			TCGA-4V-A9QM-01A-11D-A423-09	TCGA-4V-A9QM-11A-11D-A426-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	660b7dac-fbdc-4ea6-b49d-dcc29088a5d4	cc42f8f7-c7cc-4bdc-adc5-250b99c4852b	16	27763207	27763207	C	T	SNP	KIAA0556	ENST00000261588	human	ensembl	74_37	1	known	missense	c.3514	p.R1172W	1	NULL	superfamily_Thaumatin	0	no_errors	rs558540912	C->T	0.9998,0.0001997	28	0	0	18	5	21.74	58	0	0.00	41	11	21.15
C19orf57	0	genome.wustl.edu	37	19	14001021	14001021	+	Silent	SNP	C	C	T			TCGA-4V-A9QM-01A-11D-A423-09	TCGA-4V-A9QM-11A-11D-A426-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	660b7dac-fbdc-4ea6-b49d-dcc29088a5d4	cc42f8f7-c7cc-4bdc-adc5-250b99c4852b	19	14001021	14001021	C	T	SNP	C19orf57	ENST00000454313	human	ensembl	74_37	-1	known	silent	c.648	p.G216	0.001	NULL	NULL	0	no_errors	0	0	0	36	0	0	25	9	25.71	149	1	0.67	113	38	25.00
ALDH16A1	0	genome.wustl.edu	37	19	49967938	49967938	+	Missense_Mutation	SNP	G	G	T			TCGA-4V-A9QM-01A-11D-A423-09	TCGA-4V-A9QM-11A-11D-A426-09	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	660b7dac-fbdc-4ea6-b49d-dcc29088a5d4	cc42f8f7-c7cc-4bdc-adc5-250b99c4852b	19	49967938	49967938	G	T	SNP	ALDH16A1	ENST00000293350	human	ensembl	74_37	1	known	missense	c.1487	p.C496F	0	superfamily_Ald_DH/histidinol_DH,pirsf_Aldehyde_DH	pfam_Aldehyde_DH_dom,superfamily_Ald_DH/histidinol_DH,pirsf_Aldehyde_DH	0	no_errors	0	0	0	55	0	0	43	16	27.12	109	0	0.00	73	23	23.96
EP300	0	genome.wustl.edu	37	22	41521972	41521972	+	Silent	SNP	T	T	C			TCGA-4V-A9QM-01A-11D-A423-09	TCGA-4V-A9QM-11A-11D-A426-09	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	660b7dac-fbdc-4ea6-b49d-dcc29088a5d4	cc42f8f7-c7cc-4bdc-adc5-250b99c4852b	22	41521972	41521972	T	C	SNP	EP300	ENST00000263253	human	ensembl	74_37	1	known	silent	c.834	p.T278	0.988	NULL	pfam_Histone_H3-K56_AcTrfase_RTT109,pfam_Nuc_rcpt_coact_CREBbp,pfam_KIX_dom,pfam_DUF902_CREBbp,pfam_Znf_TAZ,pfam_Bromodomain,pfam_Znf_ZZ,superfamily_Bromodomain,superfamily_Znf_TAZ,superfamily_KIX_dom,superfamily_Nuc_rcpt_coact,superfamily_Znf_FYVE_PHD,smart_Znf_TAZ,smart_Bromodomain,smart_Znf_ZZ,pfscan_KIX_dom,pfscan_Znf_TAZ,pfscan_Znf_ZZ,pfscan_Bromodomain,prints_Bromodomain	0	no_errors	0	0	0	53	1	1.85	54	12	18.18	202	0	0.00	146	52	26.26
VCP	0	genome.wustl.edu	37	9	35059646	35059647	+	Frame_Shift_Ins	INS	-	-	T			TCGA-4V-A9QM-01A-11D-A423-09	TCGA-4V-A9QM-11A-11D-A426-09	-	-	-	T	-	-	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	660b7dac-fbdc-4ea6-b49d-dcc29088a5d4	cc42f8f7-c7cc-4bdc-adc5-250b99c4852b	9	35059646	35059647	0	T	INS	VCP	ENST00000358901	human	ensembl	74_37	-1	known	frame_shift_ins	c.1848_1847	p.N616fs	1.000:1.000	pfam_ATPase_AAA_core,superfamily_P-loop_NTPase,smart_AAA+_ATPase,tigrfam_AAA_ATPase_CDC48	pfam_ATPase_AAA_core,pfam_CDC4_N-term_subdom,pfam_DNA_helicase_Holl-junc_RuvB_N,pfam_Cdc48_dom2,pfam_ATPase_dyneun-rel_AAA,pfam_ATPase_AAA-2,pfam_Vps4_C,superfamily_P-loop_NTPase,superfamily_Asp_de-COase-like_dom,smart_AAA+_ATPase,tigrfam_AAA_ATPase_CDC48	0	no_errors	0	0	0	34	0	0	30	3	9.09	140	1	0.71	114	10	8.06
SNX20	0	genome.wustl.edu	37	16	50707489	50707489	+	Missense_Mutation	SNP	C	C	T			TCGA-4V-A9QM-01A-11D-A423-09	TCGA-4V-A9QM-11A-11D-A426-09	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	660b7dac-fbdc-4ea6-b49d-dcc29088a5d4	cc42f8f7-c7cc-4bdc-adc5-250b99c4852b	16	50707489	50707489	C	T	SNP	SNX20	ENST00000330943	human	ensembl	74_37	-1	known	missense	c.779	p.R260Q	0.001	NULL	pfam_Phox,superfamily_Phox,smart_Phox,pfscan_Phox	0	no_errors	0	0	0	48	0	0	41	4	8.89	12	0	0.00	9	0	0.00
SRPX	0	genome.wustl.edu	37	X	38080003	38080005	+	In_Frame_Del	DEL	GCA	GCA	-			TCGA-4V-A9QM-01A-11D-A423-09	TCGA-4V-A9QM-11A-11D-A426-09	GCA	GCA					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	660b7dac-fbdc-4ea6-b49d-dcc29088a5d4	cc42f8f7-c7cc-4bdc-adc5-250b99c4852b	X	38080003	38080005	GCA	0	DEL	SRPX	ENST00000378533	human	ensembl	74_37	-1	known	in_frame_del	c.43_41	p.L14in_frame_del	0.001:0.001:0.001	NULL	pfam_Hyalin,pfam_Sushi_SCR_CCP,superfamily_Sushi_SCR_CCP,smart_Sushi_SCR_CCP,pfscan_Hyalin,pfscan_Sushi_SCR_CCP	0	no_errors	0	0	0	15	1	6.25	16	3	15.79	1	0	0.00	3	0	0.00