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
MT-ND5	0	genome.wustl.edu	37	MT	12431	12431	+	Missense_Mutation	SNP	A	A	C			TCGA-XU-A931-01A-11D-A423-09	TCGA-XU-A931-10A-01D-A426-09	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	a89eec5a-6aaa-4369-aace-5e5085506262	2bfd1470-1d6b-4f5c-9ff0-78fc8697605c	MT	12431	12431	A	C	SNP	MT-ND5	ENST00000361567	human	ensembl	74_37	1	known	missense	c.95	p.Y32S	NULL	tigrfam_NADHpl_OxRdtase_5	pfam_NADH_UbQ/plastoQ_OxRdtase,pfam_NADH_DH_su5_C,pfam_NADH_UbQ_OxRdtase_chain5/L_N,tigrfam_NADHpl_OxRdtase_5	0	no_errors	0	0	0	433	0	0	4	19	82.61	1	0	0.00	0	4	100.00
MREG	0	genome.wustl.edu	37	2	216877966	216877966	+	Missense_Mutation	SNP	G	G	A			TCGA-XU-A931-01A-11D-A423-09	TCGA-XU-A931-10A-01D-A426-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	a89eec5a-6aaa-4369-aace-5e5085506262	2bfd1470-1d6b-4f5c-9ff0-78fc8697605c	2	216877966	216877966	G	A	SNP	MREG	ENST00000263268	human	ensembl	74_37	-1	known	missense	c.85	p.P29S	1	NULL	NULL	0	no_errors	rs568336631	G->A	0	22	0	0	11	4	26.67	30	0	0.00	24	3	11.11
MUC4	0	genome.wustl.edu	37	3	195508500	195508500	+	Missense_Mutation	SNP	G	G	C			TCGA-XU-A931-01A-11D-A423-09	TCGA-XU-A931-10A-01D-A426-09	G	G	G	C	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	a89eec5a-6aaa-4369-aace-5e5085506262	2bfd1470-1d6b-4f5c-9ff0-78fc8697605c	3	195508500	195508500	G	C	SNP	MUC4	ENST00000463781	human	ensembl	74_37	-1	known	missense	c.9951	p.D3317E	0.001	NULL	pfam_Nidogen_extracell_dom,pfam_AMOP,pfam_VWF_type-D,smart_Nidogen_extracell_dom,smart_AMOP,smart_VWF_type-D,smart_EG-like_dom,pfscan_AMOP,pfscan_EG-like_dom	0	no_errors	rs374619108	G->C	0	8	0	0	22	16	42.11	0	0	0.00	5	4	44.44
DCHS2	0	genome.wustl.edu	37	4	155237053	155237053	+	Missense_Mutation	SNP	C	C	T			TCGA-XU-A931-01A-11D-A423-09	TCGA-XU-A931-10A-01D-A426-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	a89eec5a-6aaa-4369-aace-5e5085506262	2bfd1470-1d6b-4f5c-9ff0-78fc8697605c	4	155237053	155237053	C	T	SNP	DCHS2	ENST00000357232	human	ensembl	74_37	-1	known	missense	c.3742	p.A1248T	0.383	pfam_Cadherin,superfamily_Cadherin-like,smart_Cadherin,pfscan_Cadherin	pfam_Cadherin,pfam_HTH_CenpB_DNA-bd_dom,superfamily_Cadherin-like,superfamily_Homeodomain-like,smart_Cadherin,pfscan_Cadherin,prints_Cadherin	0	no_errors	0	0	0	69	0	0	48	14	22.58	198	0	0.00	80	41	33.33
KIAA0947	0	genome.wustl.edu	37	5	5460800	5460800	+	Missense_Mutation	SNP	A	A	C			TCGA-XU-A931-01A-11D-A423-09	TCGA-XU-A931-10A-01D-A426-09	A	A	A	C	A	A	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	a89eec5a-6aaa-4369-aace-5e5085506262	2bfd1470-1d6b-4f5c-9ff0-78fc8697605c	5	5460800	5460800	A	C	SNP	KIAA0947	ENST00000296564	human	ensembl	74_37	1	known	missense	c.1353	p.E451D	0	NULL	superfamily_Vitellinogen_superhlx	0	no_errors	0	0	0	23	0	0	19	11	36.67	197	0	0.00	145	94	39.33
TENM2	0	genome.wustl.edu	37	5	167379631	167379631	+	Missense_Mutation	SNP	C	C	G			TCGA-XU-A931-01A-11D-A423-09	TCGA-XU-A931-10A-01D-A426-09	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	a89eec5a-6aaa-4369-aace-5e5085506262	2bfd1470-1d6b-4f5c-9ff0-78fc8697605c	5	167379631	167379631	C	G	SNP	TENM2	ENST00000518659	human	ensembl	74_37	1	known	missense	c.751	p.P251A	1	pfam_Ten_N	pfam_Ten_N,pfam_EGF_extracell,superfamily_CarboxyPept-like_regulatory,superfamily_Quino_amine_DH_bsu,superfamily_ConA-like_lec_gl_sf,superfamily_Cytokine_IL1-like,smart_EG-like_dom,smart_EGF-like_Ca-bd_dom,pfscan_EG-like_dom,tigrfam_YD,tigrfam_Rhs_assc_core	0	no_errors	0	0	0	22	0	0	27	20	42.55	162	0	0.00	102	57	35.85
RALA	0	genome.wustl.edu	37	7	39736352	39736352	+	Missense_Mutation	SNP	T	T	C			TCGA-XU-A931-01A-11D-A423-09	TCGA-XU-A931-10A-01D-A426-09	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	a89eec5a-6aaa-4369-aace-5e5085506262	2bfd1470-1d6b-4f5c-9ff0-78fc8697605c	7	39736352	39736352	T	C	SNP	RALA	ENST00000005257	human	ensembl	74_37	1	known	missense	c.392	p.L131S	1	pfam_Small_GTPase,pfam_Small_GTPase_ARF/SAR,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_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	0	no_errors	0	0	0	35	0	0	58	9	13.43	130	0	0.00	165	10	5.71
ZNF252P	0	genome.wustl.edu	37	8	146202302	146202302	+	RNA	SNP	G	G	A			TCGA-XU-A931-01A-11D-A423-09	TCGA-XU-A931-10A-01D-A426-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	a89eec5a-6aaa-4369-aace-5e5085506262	2bfd1470-1d6b-4f5c-9ff0-78fc8697605c	8	146202302	146202302	G	A	SNP	ZNF252P	ENST00000426361	human	ensembl	74_37	-1	known	rna	NULL	NULL	0	0	0	0	no_errors	0	0	0	32	0	0	36	15	29.41	186	1	0.53	117	67	36.22
ENSG00000272630	0	genome.wustl.edu	37	10	74860379	74860379	+	RNA	SNP	C	C	A			TCGA-XU-A931-01A-11D-A423-09	TCGA-XU-A931-10A-01D-A426-09	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	a89eec5a-6aaa-4369-aace-5e5085506262	2bfd1470-1d6b-4f5c-9ff0-78fc8697605c	10	74860379	74860379	C	A	SNP	ENSG00000272630	ENST00000608005	human	ensembl	74_37	-1	known	rna	NULL	NULL	0.002	0	0	0	no_errors	0	0	0	30	0	0	36	12	25	240	0	0.00	150	89	37.24
OPALIN	0	genome.wustl.edu	37	10	98109555	98109555	+	Missense_Mutation	SNP	G	G	A			TCGA-XU-A931-01A-11D-A423-09	TCGA-XU-A931-10A-01D-A426-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	a89eec5a-6aaa-4369-aace-5e5085506262	2bfd1470-1d6b-4f5c-9ff0-78fc8697605c	10	98109555	98109555	G	A	SNP	OPALIN	ENST00000371172	human	ensembl	74_37	-1	known	missense	c.101	p.A34V	0.237	NULL	NULL	0	no_errors	rs368645607	G->A	0	32	0	0	25	5	16.67	163	0	0.00	75	25	25.00
CHRM1	0	genome.wustl.edu	37	11	62678157	62678157	+	Missense_Mutation	SNP	G	G	A			TCGA-XU-A931-01A-11D-A423-09	TCGA-XU-A931-10A-01D-A426-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	a89eec5a-6aaa-4369-aace-5e5085506262	2bfd1470-1d6b-4f5c-9ff0-78fc8697605c	11	62678157	62678157	G	A	SNP	CHRM1	ENST00000306960	human	ensembl	74_37	-1	known	missense	c.416	p.P139L	0.958	pfam_GPCR_Rhodpsn,pfam_7TM_GPCR_olfarory/Srsx,pfscan_GPCR_Rhodpsn_7TM,prints_Musac_Ach_rcpt	pfam_GPCR_Rhodpsn,pfam_7TM_GPCR_olfarory/Srsx,pfscan_GPCR_Rhodpsn_7TM,prints_Musac_Ach_M1_rcpt,prints_Musac_Ach_rcpt,prints_GPCR_Rhodpsn	0	no_errors	0	0	0	20	0	0	16	4	20	108	0	0.00	47	34	41.98
TULP3	0	genome.wustl.edu	37	12	3043639	3043639	+	Missense_Mutation	SNP	C	C	T			TCGA-XU-A931-01A-11D-A423-09	TCGA-XU-A931-10A-01D-A426-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	a89eec5a-6aaa-4369-aace-5e5085506262	2bfd1470-1d6b-4f5c-9ff0-78fc8697605c	12	3043639	3043639	C	T	SNP	TULP3	ENST00000448120	human	ensembl	74_37	1	known	missense	c.836	p.T279I	1	pfam_Tubby_C,superfamily_Tubby_C-like,prints_Tubby_C	pfam_Tubby_C,superfamily_Tubby_C-like,prints_Tubby_C,prints_Tubby_N	0	no_errors	0	0	0	42	0	0	34	22	39.29	199	0	0.00	139	57	28.93
UHRF1	0	genome.wustl.edu	37	19	4961946	4961946	+	RNA	SNP	A	A	G			TCGA-XU-A931-01A-11D-A423-09	TCGA-XU-A931-10A-01D-A426-09	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	a89eec5a-6aaa-4369-aace-5e5085506262	2bfd1470-1d6b-4f5c-9ff0-78fc8697605c	19	4961946	4961946	A	G	SNP	UHRF1	ENST00000262952	human	ensembl	74_37	1	known	rna	NULL	NULL	1	0	0	0	no_errors	0	0	0	19	0	0	19	3	13.64	193	2	1.03	207	10	4.61
UHRF1	0	genome.wustl.edu	37	19	4961971	4961971	+	RNA	SNP	A	A	G			TCGA-XU-A931-01A-11D-A423-09	TCGA-XU-A931-10A-01D-A426-09	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	a89eec5a-6aaa-4369-aace-5e5085506262	2bfd1470-1d6b-4f5c-9ff0-78fc8697605c	19	4961971	4961971	A	G	SNP	UHRF1	ENST00000262952	human	ensembl	74_37	1	known	rna	NULL	NULL	0.017	0	0	0	no_errors	0	0	0	17	0	0	19	3	13.64	190	2	1.04	209	10	4.57
LOC285638	0	genome.wustl.edu	37	5	108660025	108660025	+	RNA	SNP	C	C	A			TCGA-XU-A931-01A-11D-A423-09	TCGA-XU-A931-10A-01D-A426-09	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	a89eec5a-6aaa-4369-aace-5e5085506262	2bfd1470-1d6b-4f5c-9ff0-78fc8697605c	5	108660025	108660025	C	A	SNP	LOC285638	ENST00000512693	human	ensembl	74_37	-1	known	rna	NULL	NULL	0.001	0	0	0	no_errors	0	0	0	19	0	0	0	2	100	0	0	0.00	0	0	0.00
NPIPB15	0	genome.wustl.edu	37	16	74425946	74425946	+	Nonsense_Mutation	SNP	C	C	T			TCGA-XU-A931-01A-11D-A423-09	TCGA-XU-A931-10A-01D-A426-09	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	a89eec5a-6aaa-4369-aace-5e5085506262	2bfd1470-1d6b-4f5c-9ff0-78fc8697605c	16	74425946	74425946	C	T	SNP	NPIPB15	ENST00000429990	human	ensembl	74_37	1	known	nonsense	c.1300	p.Q434*	0.968	NULL	NULL	0	no_errors	rs369331764	C->T	0	29	1	3.33	49	4	7.55	0	0	0.00	0	0	0.00
AFF3	0	genome.wustl.edu	37	2	100218011	100218013	+	In_Frame_Del	DEL	GCT	GCT	-			TCGA-XU-A931-01A-11D-A423-09	TCGA-XU-A931-10A-01D-A426-09	GCT	GCT					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	a89eec5a-6aaa-4369-aace-5e5085506262	2bfd1470-1d6b-4f5c-9ff0-78fc8697605c	2	100218011	100218013	GCT	0	DEL	AFF3	ENST00000356421	human	ensembl	74_37	-1	known	in_frame_del	c.1332_1330	p.S444in_frame_del	1.000:1.000:1.000	pfam_TF_AF4/FMR2	pfam_TF_AF4/FMR2	0	no_errors	0	0	0	57	0	0	32	5	13.51	17	0	0.00	6	0	0.00