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	chromosome_name_WU	start_WU	stop_WU	reference_WU	variant_WU	type_WU	gene_name_WU	transcript_name_WU	transcript_species_WU	transcript_source_WU	transcript_version_WU	strand_WU	transcript_status_WU	trv_type_WU	c_position_WU	amino_acid_change_WU	ucsc_cons_WU	domain_WU	all_domains_WU	deletion_substructures_WU	transcript_error_WU
ARF1	375	genome.wustl.edu	36	1	226351682	226351682	+	Silent	SNP	C	C	T			TCGA-AB-2847-03B-01W-0728-08	TCGA-AB-2847-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	1	226351682	226351682	C	T	SNP	ARF1	NM_001024226	human	genbank	54_36p	+1	reviewed	silent	c.165	p.T55	0.940	HMMSmart_SM00178,HMMSmart_SM00177,HMMPfam_Arf,superfamily_P-loop containing nucleoside triphosphate hydrolases,HMMSmart_SM00175	HMMSmart_SM00178,HMMSmart_SM00177,HMMPfam_Arf,superfamily_P-loop containing nucleoside triphosphate hydrolases,HMMSmart_SM00175,PatternScan_ARF	-	no_errors
ENSG00000215768	0	genome.wustl.edu	36	NT_113933	60437	60437	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2847-03B-01W-0728-08	TCGA-AB-2847-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	NT_113933	60437	60437	G	A	SNP	ENSG00000215768	ENST00000400874	human	ensembl	54_36p	-1	known	missense	c.13	p.R5C	NULL	NULL	HMMSmart_UTG,superfamily_Secretoglobin	-	no_errors
MUC4	4585	genome.wustl.edu	36	3	196999858	196999858	+	Silent	SNP	G	G	A			TCGA-AB-2847-03B-01W-0728-08	TCGA-AB-2847-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	3	196999858	196999858	G	A	SNP	MUC4	ENST00000405167	human	ensembl	54_36p	-1	known	silent	c.2988	p.T996	0.015	NULL	HMMPfam_VWD,HMMSmart_SM00216,HMMPfam_NIDO,HMMSmart_SM00539,HMMPfam_AMOP,HMMSmart_SM00723,PatternScan_SUGAR_TRANSPORT_2,HMMSmart_SM00181,PatternScan_EGF_1,superfamily_EGF/Laminin	-	no_errors
BCORL1	63035	genome.wustl.edu	36	X	128976779	128976779	+	Nonsense_Mutation	SNP	C	C	T			TCGA-AB-2847-03B-01W-0728-08	TCGA-AB-2847-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	X	128976779	128976779	C	T	SNP	BCORL1	NM_021946	human	genbank	54_36p	+1	validated	nonsense	c.2350	p.R784*	0.905	NULL	HMMPfam_Ank,HMMSmart_SM00248,superfamily_Ankyrin repeat	-	no_errors
CFTR	1080	genome.wustl.edu	36	7	116975962	116975962	+	Missense_Mutation	SNP	A	A	C			TCGA-AB-2847-03B-01W-0728-08	TCGA-AB-2847-11B-01W-0729-08	A	A			A	A	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	7	116975962	116975962	A	C	SNP	CFTR	NM_000492	human	genbank	54_36p	+1	reviewed	missense	c.1241	p.Q414P	1.000	superfamily_Multidrug resistance ABC transporter MsbA N-terminal domain,superfamily_P-loop containing nucleoside triphosphate hydrolases	superfamily_Multidrug resistance ABC transporter MsbA N-terminal domain,HMMPfam_ABC_membrane,superfamily_P-loop containing nucleoside triphosphate hydrolases,HMMSmart_SM00382,HMMPfam_ABC_tran,PatternScan_ABC_TRANSPORTER_1	-	no_errors
MUC5B	727897	genome.wustl.edu	36	11	1227157	1227157	+	Silent	SNP	C	C	T			TCGA-AB-2847-03B-01W-0728-08	TCGA-AB-2847-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	11	1227157	1227157	C	T	SNP	MUC5B	NM_002458	human	genbank	54_36p	+1	validated	silent	c.12480	p.N4160	0.001	NULL	HMMPfam_VWC,HMMSmart_SM00214,PatternScan_VWFC_1,HMMPfam_VWD,HMMSmart_SM00216,superfamily_Serine proterase inhibitors,HMMSmart_SM00041,PatternScan_CTCK_1,HMMPfam_Cys_knot,HMMSmart_SM00215,superfamily_PMP inhibitors,HMMPfam_C8,HMMPfam_TIL	-	no_errors
SCAND3	114821	genome.wustl.edu	36	6	28651673	28651673	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2847-03B-01W-0728-08	TCGA-AB-2847-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	6	28651673	28651673	G	A	SNP	SCAND3	NM_052923	human	genbank	54_36p	-1	provisional	missense	c.788	p.A263V	0.948	NULL	HMMPfam_SCAN,HMMSmart_SCAN,superfamily_RNaseH_fold,HMMPfam_rve,HMMPfam_hATC	-	no_errors
ENSG00000205108	0	genome.wustl.edu	36	9	34715112	34715112	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2847-03B-01W-0728-08	TCGA-AB-2847-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	9	34715112	34715112	C	T	SNP	ENSG00000205108	ENST00000378791	human	ensembl	54_36p	-1	known	missense	c.1162	p.A388T	0.000	NULL	NULL	-	no_errors
ADAMTS16	170690	genome.wustl.edu	36	5	5292824	5292824	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2847-03B-01W-0728-08	TCGA-AB-2847-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	5	5292824	5292824	G	A	SNP	ADAMTS16	NM_139056	human	genbank	54_36p	+1	reviewed	missense	c.2309	p.G770E	1.000	HMMPfam_ADAM_spacer1	"HMMPfam_Pep_M12B_propep,superfamily_Metalloproteases (""zincins"") catalytic domain,HMMPfam_Reprolysin,superfamily_TSP-1 type 1 repeat,HMMSmart_SM00209,HMMPfam_TSP_1,PatternScan_CARBAMOYLTRANSFERASE,HMMPfam_ADAM_spacer1,HMMPfam_PLAC"	-	no_errors
LOC644525	644525	genome.wustl.edu	36	22	14464744	14464744	+	Silent	SNP	T	T	C			TCGA-AB-2847-03B-01W-0728-08	TCGA-AB-2847-11B-01W-0729-08	T	T			T	T	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	22	14464744	14464744	T	C	SNP	LOC644525	XM_927654	human	genbank	54_36p	-1	model	silent	c.111	p.P37	0.008	NULL	NULL	-	no_errors
U2AF1	7307	genome.wustl.edu	36	21	43397525	43397525	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2847-03B-01W-0728-08	TCGA-AB-2847-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	21	43397525	43397525	G	A	SNP	U2AF1	NM_001025203	human	genbank	54_36p	-1	reviewed	missense	c.101	p.S34F	1.000	HMMPfam_zf-CCCH,HMMSmart_ZnF_C3H1	HMMPfam_RRM_1,HMMSmart_RRM,HMMPfam_zf-CCCH,HMMSmart_ZnF_C3H1,superfamily_SSF54928	-	no_errors
SLC5A6	8884	genome.wustl.edu	36	2	27277379	27277379	+	Silent	SNP	G	G	A			TCGA-AB-2847-03B-01W-0728-08	TCGA-AB-2847-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	2	27277379	27277379	G	A	SNP	SLC5A6	NM_021095	human	genbank	54_36p	-1	provisional	silent	c.1755	p.S585	0.000	NULL	PatternScan_NA_SOLUT_SYMP_2,HMMPfam_SSF,PatternScan_NA_SOLUT_SYMP_1	-	no_errors
ZNF185	7739	genome.wustl.edu	36	X	151838226	151838228	+	In_Frame_Del	DEL	GAG	GAG	-			TCGA-AB-2847-03B-01W-0728-08	TCGA-AB-2847-11B-01W-0729-08	GAG	GAG			GAG	GAG	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	X	151838226	151838228	GAG	-	DEL	ZNF185	NM_007150	human	genbank	54_36p	+1	validated	in_frame_del	c.475_477	p.E162in_frame_del	0.533:0.636:0.723	NULL	HMMPfam_LIM,HMMSmart_SM00132,PatternScan_LIM_DOMAIN_1	-	no_errors
OR2AG1	144125	genome.wustl.edu	36	11	6763236	6763236	+	Missense_Mutation	SNP	C	C	A			TCGA-AB-2847-03B-01W-0728-08	TCGA-AB-2847-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	11	6763236	6763236	C	A	SNP	OR2AG1	NM_001004489	human	genbank	54_36p	+1	provisional	missense	c.392	p.T131K	0.977	superfamily_Family A G protein-coupled receptor-like,HMMPfam_7tm_1	superfamily_Family A G protein-coupled receptor-like,HMMPfam_7tm_1	-	no_errors
LOC389000	389000	genome.wustl.edu	36	2	91440296	91440296	+	Missense_Mutation	SNP	A	A	G			TCGA-AB-2847-03B-01W-0728-08	TCGA-AB-2847-11B-01W-0729-08	A	A			A	A	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	2	91440296	91440296	A	G	SNP	LOC389000	XM_371534	human	genbank	54_36p	-1	model	missense	c.1130	p.L377P	1.000	HMMPfam_Na_H_Exchanger	HMMPfam_Na_H_Exchanger	-	pseudogene
TUBB4Q	56604	genome.wustl.edu	36	4	191142970	191142970	+	Silent	SNP	G	G	C			TCGA-AB-2847-03B-01W-0728-08	TCGA-AB-2847-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	4	191142970	191142970	G	C	SNP	TUBB4Q	NM_020040	human	genbank	54_36p	-1	validated	silent	c.51	p.G17	0.996	HMMPfam_Tubulin,superfamily_Tubulin nucleotide-binding domain-like	HMMPfam_Tubulin,superfamily_Tubulin C-terminal domain-like,PatternScan_TUBULIN,HMMPfam_Tubulin_C,superfamily_Tubulin nucleotide-binding domain-like	-	no_start_codon
SLC12A3	6559	genome.wustl.edu	36	16	55491009	55491009	+	Silent	SNP	C	C	T			TCGA-AB-2847-03B-01W-0728-08	TCGA-AB-2847-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	16	55491009	55491009	C	T	SNP	SLC12A3	NM_000339	human	genbank	54_36p	+1	reviewed	silent	c.2727	p.N909	1.000	NULL	HMMPfam_AA_permease,HMMPfam_AA_permease_N	-	no_errors
LRP1B	53353	genome.wustl.edu	36	2	141190758	141190758	+	Silent	SNP	C	C	T			TCGA-AB-2847-03B-01W-0728-08	TCGA-AB-2847-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	2	141190758	141190758	C	T	SNP	LRP1B	NM_018557	human	genbank	54_36p	-1	validated	silent	c.5856	p.L1952	1.000	HMMPfam_Ldl_recept_b,HMMSmart_LY,superfamily_SSF63825	HMMPfam_Ldl_recept_b,HMMSmart_LY,PatternScan_ASX_HYDROXYL,HMMPfam_NHL,HMMSmart_EGF_CA,HMMPfam_Ldl_recept_a,HMMSmart_LDLa,PatternScan_LDLRA_1,superfamily_LDL_rcpt_classA_cys-rich,HMMPfam_EGF,HMMSmart_EGF,PatternScan_EGF_1,PatternScan_EGF_2,HMMPfam_EGF_CA,HMMPfam_EGF_2,PatternScan_EGF_CA,superfamily_SSF57196,superfamily_SSF63825	-	no_errors
MYBPH	4608	genome.wustl.edu	36	1	201406130	201406130	+	Silent	SNP	C	C	T			TCGA-AB-2847-03B-01W-0728-08	TCGA-AB-2847-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	1	201406130	201406130	C	T	SNP	MYBPH	NM_004997	human	genbank	54_36p	-1	validated	silent	c.1005	p.S335	0.810	superfamily_FN_III-like,HMMPfam_fn3,HMMSmart_FN3	superfamily_FN_III-like,HMMSmart_FN3,HMMPfam_fn3,superfamily_SSF48726,HMMPfam_I-set,HMMSmart_IG,HMMSmart_IGc2	-	no_errors
USP9X	8239	genome.wustl.edu	36	X	40942770	40942770	+	Missense_Mutation	SNP	C	C	A			TCGA-AB-2847-03B-01W-0728-08	TCGA-AB-2847-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	X	40942770	40942770	C	A	SNP	USP9X	NM_001039590	human	genbank	54_36p	+1	reviewed	missense	c.4426	p.Q1476K	1.000	NULL	HMMPfam_UCH,PatternScan_UCH_2_1,PatternScan_UCH_2_2,superfamily_Cysteine proteinases	-	no_errors
CSRNP1	64651	genome.wustl.edu	36	3	39161570	39161570	+	Silent	SNP	C	C	T			TCGA-AB-2847-03B-01W-0728-08	TCGA-AB-2847-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	3	39161570	39161570	C	T	SNP	AXUD1	NM_033027	human	genbank	54_36p	-1	reviewed	silent	c.387	p.A129	0.036	NULL	NULL	-	no_errors
LOC729915	729915	genome.wustl.edu	36	5	34228187	34228187	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2847-03B-01W-0728-08	TCGA-AB-2847-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	5	34228187	34228187	G	A	SNP	LOC729915	XM_001722873	human	genbank	54_36p	+1	model	missense	c.2170	p.A724T	0.000	NULL	NULL	-	no_errors
ACSM2A	123876	genome.wustl.edu	36	16	20390039	20390039	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2847-03B-01W-0728-08	TCGA-AB-2847-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	16	20390039	20390039	G	A	SNP	ACSM2A	NM_001010845	human	genbank	54_36p	+1	validated	missense	c.740	p.G247D	0.999	superfamily_Acetyl-CoA synthetase-like,HMMPfam_AMP-binding	superfamily_Acetyl-CoA synthetase-like,HMMPfam_AMP-binding,PatternScan_AMP_BINDING	-	no_errors
