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
MT-CYB	0	genome.wustl.edu	36	MT	15014	15014	+	Missense_Mutation	SNP	A	A	C			TCGA-AB-2904-03A-01W-0732-08	TCGA-AB-2904-11A-01W-0732-08	A	A			A	A	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	MT	15014	15014	A	C	SNP	MT-CYB	ENST00000361789	human	ensembl	54_36p	+1	known	missense	c.267	p.M89I	NULL	HMMPfam_Cytochrom_B_N,superfamily_Transmembr_di-haem_cytochrome	HMMPfam_Cytochrom_B_N,HMMPfam_Cytochrom_B_C,superfamily_Cytochrome_b/b6_C,superfamily_Transmembr_di-haem_cytochrome	-	no_stop_codon:bad_bp_length_for_coding_region
NCKAP5	344148	genome.wustl.edu	36	2	133437771	133437771	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2904-03A-01W-0732-08	TCGA-AB-2904-11A-01W-0732-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	2	133437771	133437771	C	T	SNP	NAP5	NM_207363	human	genbank	54_36p	-1	validated	missense	c.571	p.A191T	1.000	NULL	NULL	-	no_errors
BMP6	654	genome.wustl.edu	36	6	7790455	7790455	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2904-03A-01W-0732-08	TCGA-AB-2904-11A-01W-0732-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	6	7790455	7790455	G	A	SNP	BMP6	NM_001718	human	genbank	54_36p	+1	reviewed	missense	c.748	p.V250M	1.000	HMMPfam_TGFb_propeptide	HMMPfam_TGFb_propeptide,superfamily_SSF57501,HMMPfam_TGF_beta,HMMSmart_TGFB,PatternScan_TGF_BETA_1	-	no_errors
CACNA1G	8913	genome.wustl.edu	36	17	46028939	46028939	+	Silent	SNP	C	C	T			TCGA-AB-2904-03A-01W-0732-08	TCGA-AB-2904-11A-01W-0732-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	17	46028939	46028939	C	T	SNP	CACNA1G	NM_018896	human	genbank	54_36p	+1	validated	silent	c.2997	p.S999	0.579	NULL	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels	-	no_errors
CLPTM1L	81037	genome.wustl.edu	36	5	1391078	1391078	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2904-03A-01W-0732-08	TCGA-AB-2904-11A-01W-0732-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	5	1391078	1391078	C	T	SNP	CLPTM1L	NM_030782	human	genbank	54_36p	-1	provisional	missense	c.619	p.V207M	0.974	HMMPfam_CLPTM1	HMMPfam_CLPTM1	-	no_errors
MUC16	94025	genome.wustl.edu	36	19	8937508	8937508	+	Silent	SNP	G	G	A			TCGA-AB-2904-03A-01W-0732-08	TCGA-AB-2904-11A-01W-0732-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	19	8937508	8937508	G	A	SNP	MUC16	NM_024690	human	genbank	54_36p	-1	validated	silent	c.10938	p.S3646	0.000	NULL	HMMPfam_SEA,HMMSmart_SM00200,PatternScan_ATPASE_ALPHA_BETA,superfamily_SEA domain	-	no_errors
TP53	7157	genome.wustl.edu	36	17	7514743	7514743	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2904-03A-01W-0732-08	TCGA-AB-2904-11A-01W-0732-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	17	7514743	7514743	G	A	SNP	TP53	NM_000546	human	genbank	54_36p	-1	reviewed	missense	c.1009	p.R337C	0.465	HMMPfam_P53_tetramer,superfamily_p53 tetramerization domain	PatternScan_P53,superfamily_p53-like transcription factors,HMMPfam_P53_tetramer,superfamily_p53 tetramerization domain,HMMPfam_P53,HMMPfam_P53_TAD	-	no_errors
KCNQ1	3784	genome.wustl.edu	36	11	2550682	2550682	+	Silent	SNP	C	C	T			TCGA-AB-2904-03A-01W-0732-08	TCGA-AB-2904-11A-01W-0732-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	11	2550682	2550682	C	T	SNP	KCNQ1	NM_000218	human	genbank	54_36p	+1	reviewed	silent	c.811	p.L271	1.000	superfamily_Voltage-gated potassium channels,HMMPfam_Ion_trans	superfamily_Voltage-gated potassium channels,HMMPfam_Ion_trans,HMMPfam_KCNQ_channel	-	no_errors
LOC727820	727820	genome.wustl.edu	36	1	142535968	142535968	+	RNA	SNP	G	G	A	rs56692861		TCGA-AB-2904-03A-01W-0732-08	TCGA-AB-2904-11A-01W-0732-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	1	142535968	142535968	G	A	SNP	LOC727820	XR_041980	human	genbank	54_36p	-1	model	rna	NULL	NULL	0.739	-	-	-	no_errors
PCDHGA5	56110	genome.wustl.edu	36	5	140725202	140725202	+	Missense_Mutation	SNP	G	G	T			TCGA-AB-2904-03A-01W-0732-08	TCGA-AB-2904-11A-01W-0732-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	5	140725202	140725202	G	T	SNP	PCDHGA5	NM_018918	human	genbank	54_36p	+1	reviewed	missense	c.1121	p.G374V	0.001	superfamily_Cadherin-like,HMMPfam_Cadherin,HMMSmart_SM00112	HMMPfam_Cadherin_2,superfamily_Cadherin-like,HMMSmart_SM00112,PatternScan_CADHERIN_1,HMMPfam_Cadherin	-	no_errors
DDX11	1663	genome.wustl.edu	36	12	31137079	31137079	+	Silent	SNP	C	C	T			TCGA-AB-2904-03A-01W-0732-08	TCGA-AB-2904-11A-01W-0732-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	12	31137079	31137079	C	T	SNP	DDX11	NM_152438	human	genbank	54_36p	+1	reviewed	silent	c.1275	p.Y425	0.997	HMMSmart_SM00488	HMMSmart_SM00488,HMMSmart_SM00491,HMMPfam_DEAD_2,superfamily_P-loop containing nucleoside triphosphate hydrolases	-	no_errors
SNED1	25992	genome.wustl.edu	36	2	241653487	241653487	+	Missense_Mutation	SNP	T	T	A			TCGA-AB-2904-03A-01W-0732-08	TCGA-AB-2904-11A-01W-0732-08	T	T			T	T	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	2	241653487	241653487	T	A	SNP	SNED1	NM_001080437	human	genbank	54_36p	+1	provisional	missense	c.2813	p.L938H	0.986	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III	HMMSmart_SM00539,HMMPfam_NIDO,superfamily_EGF/Laminin,HMMSmart_SM00181,HMMPfam_EGF,HMMSmart_SM00179,PatternScan_EGF_1,PatternScan_EGF_2,PatternScan_EGF_CA,PatternScan_ASX_HYDROXYL,HMMPfam_EGF_2,superfamily_Complement control module/SCR domain,HMMPfam_Sushi,HMMSmart_SM00032,HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III,superfamily_Concanavalin A-like lectins/glucanases	-	no_errors
WDR27	253769	genome.wustl.edu	36	6	169775057	169775057	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2904-03A-01W-0732-08	TCGA-AB-2904-11A-01W-0732-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	6	169775057	169775057	C	T	SNP	WDR27	NM_182552	human	genbank	54_36p	-1	validated	missense	c.2134	p.V712M	0.002	superfamily_WD40 repeat-like,HMMSmart_SM00320	superfamily_WD40 repeat-like,HMMSmart_SM00320,HMMPfam_WD40	-	no_errors
PRPF8	10594	genome.wustl.edu	36	17	1527142	1527142	+	Missense_Mutation	SNP	C	C	G			TCGA-AB-2904-03A-01W-0732-08	TCGA-AB-2904-11A-01W-0732-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	17	1527142	1527142	C	G	SNP	PRPF8	NM_006445	human	genbank	54_36p	-1	reviewed	missense	c.2059	p.A687P	1.000	HMMPfam_PROCN	HMMPfam_Mov34,HMMSmart_SM00232,HMMPfam_PRO8NT,HMMPfam_PROCN,HMMPfam_PROCT,HMMPfam_U6-snRNA_bdg,HMMPfam_U5_2-snRNA_bdg,HMMPfam_RRM_4	-	no_errors
NPNT	255743	genome.wustl.edu	36	4	107082990	107082990	+	Missense_Mutation	SNP	A	A	T			TCGA-AB-2904-03A-01W-0732-08	TCGA-AB-2904-11A-01W-0732-08	A	A			A	A	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	4	107082990	107082990	A	T	SNP	NPNT	NM_001033047	human	genbank	54_36p	+1	validated	missense	c.841	p.T281S	0.984	NULL	superfamily_Growth factor receptor domain,HMMSmart_SM00181,HMMPfam_EGF_2,PatternScan_EGF_1,PatternScan_EGF_2,PatternScan_EGF_CA,HMMPfam_EGF_CA,HMMSmart_SM00179,PatternScan_ASX_HYDROXYL,superfamily_EGF/Laminin,HMMSmart_SM00137,HMMPfam_MAM	-	no_errors
C4BPB	725	genome.wustl.edu	36	1	205330396	205330396	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2904-03A-01W-0732-08	TCGA-AB-2904-11A-01W-0732-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	1	205330396	205330396	C	T	SNP	C4BPB	NM_000716	human	genbank	54_36p	+1	reviewed	missense	c.179	p.T60I	0.000	superfamily_Complement control module/SCR domain,HMMPfam_Sushi,HMMSmart_SM00032	superfamily_Complement control module/SCR domain,HMMPfam_Sushi,HMMSmart_SM00032	-	no_errors
PPWD1	23398	genome.wustl.edu	36	5	64911118	64911118	+	Silent	SNP	T	T	G			TCGA-AB-2904-03A-01W-0732-08	TCGA-AB-2904-11A-01W-0732-08	T	T			T	T	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	5	64911118	64911118	T	G	SNP	PPWD1	NM_015342	human	genbank	54_36p	+1	validated	silent	c.1272	p.S424	0.994	superfamily_WD40_like	PatternScan_CSA_PPIASE_1,PatternScan_WD_REPEATS_1,superfamily_WD40_like,HMMSmart_WD40,HMMPfam_WD40,superfamily_CSA_PPIase,HMMPfam_Pro_isomerase	-	no_errors
LAPTM4A	9741	genome.wustl.edu	36	2	20100858	20100858	+	Splice_Site	SNP	T	T	A			TCGA-AB-2904-03A-01W-0732-08	TCGA-AB-2904-11A-01W-0732-08	T	T			T	T	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	2	20100858	20100858	T	A	SNP	LAPTM4A	NM_014713	human	genbank	54_36p	-1	reviewed	splice_site	c.233-2	e3-2	1.000	-	-	-	no_errors
SPG11	80208	genome.wustl.edu	36	15	42743115	42743115	+	Missense_Mutation	SNP	G	G	C			TCGA-AB-2904-03A-01W-0732-08	TCGA-AB-2904-11A-01W-0732-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	15	42743115	42743115	G	C	SNP	SPG11	NM_025137	human	genbank	54_36p	-1	reviewed	missense	c.23	p.A8G	0.021	NULL	PatternScan_GLYCOSYL_HYDROL_F1_1	-	no_errors
CAD	790	genome.wustl.edu	36	2	27319590	27319590	+	Silent	SNP	C	C	T			TCGA-AB-2904-03A-01W-0732-08	TCGA-AB-2904-11A-01W-0732-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	2	27319590	27319590	C	T	SNP	CAD	NM_004341	human	genbank	54_36p	+1	reviewed	silent	c.6501	p.L2167	1.000	HMMPfam_OTCace,superfamily_Asp/Orn_carbamoyltranf	superfamily_CP_synthsmall,HMMPfam_CPSase_sm_chain,superfamily_SSF52317,HMMPfam_GATase,superfamily_PreATP-grasp-like,HMMPfam_CPSase_L_chain,HMMPfam_CPSase_L_D2,superfamily_SSF56059,PatternScan_CPSASE_1,PatternScan_CPSASE_2,superfamily_CarbamoylP_synth_lsu_oligo,HMMPfam_CPSase_L_D3,superfamily_SSF52335,HMMPfam_MGS,HMMPfam_Amidohydro_1,superfamily_SSF51556,PatternScan_DIHYDROOROTASE_1,PatternScan_DIHYDROOROTASE_2,superfamily_Metalo_hydrolase,superfamily_Asp/Orn_carbamoyltranf,HMMPfam_OTCace_N,PatternScan_CARBAMOYLTRANSFERASE,HMMPfam_OTCace	-	no_errors
C9orf93	203238	genome.wustl.edu	36	9	15734617	15734617	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2904-03A-01W-0732-08	TCGA-AB-2904-11A-01W-0732-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	9	15734617	15734617	G	A	SNP	C9orf93	NM_173550	human	genbank	54_36p	+1	predicted	missense	c.2396	p.R799H	0.887	NULL	NULL	-	no_errors
MARCH7	64844	genome.wustl.edu	36	2	160312760	160312760	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2904-03A-01W-0732-08	TCGA-AB-2904-11A-01W-0732-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	2	160312760	160312760	C	T	SNP	MARCH7	NM_022826	human	genbank	54_36p	+1	validated	missense	c.713	p.T238M	0.790	NULL	superfamily_SSF57850,HMMSmart_RINGv,HMMPfam_zf-C3HC4	-	no_errors
KCNN3	3782	genome.wustl.edu	36	1	153011285	153011285	+	Missense_Mutation	SNP	A	A	T			TCGA-AB-2904-03A-01W-0732-08	TCGA-AB-2904-11A-01W-0732-08	A	A			A	A	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	1	153011285	153011285	A	T	SNP	KCNN3	NM_002249	human	genbank	54_36p	-1	reviewed	missense	c.1238	p.L413Q	1.000	superfamily_Voltage-gated potassium channels	HMMPfam_SK_channel,superfamily_Voltage-gated potassium channels,HMMPfam_Ion_trans_2,superfamily_Small-conductance potassium channel,HMMPfam_CaMBD	-	no_errors
KRT19	3880	genome.wustl.edu	36	17	36934708	36934708	+	Silent	SNP	A	A	G			TCGA-AB-2904-03A-01W-0732-08	TCGA-AB-2904-11A-01W-0732-08	A	A			A	A	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	17	36934708	36934708	A	G	SNP	KRT19	NM_002276	human	genbank	54_36p	-1	reviewed	silent	c.573	p.D191	0.633	superfamily_Prefoldin,HMMPfam_Filament	superfamily_Prefoldin,HMMPfam_Filament,PatternScan_IF	-	no_errors
CSTF2T	23283	genome.wustl.edu	36	10	53128702	53128702	+	Missense_Mutation	SNP	G	G	T			TCGA-AB-2904-03A-01W-0732-08	TCGA-AB-2904-11A-01W-0732-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	10	53128702	53128702	G	T	SNP	CSTF2T	NM_015235	human	genbank	54_36p	-1	validated	missense	c.614	p.S205Y	0.993	NULL	superfamily_RNA-binding domain RBD,HMMSmart_SM00360,HMMPfam_RRM_1	-	no_errors
PKHD1L1	93035	genome.wustl.edu	36	8	110592224	110592224	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2904-03A-01W-0732-08	TCGA-AB-2904-11A-01W-0732-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	8	110592224	110592224	G	A	SNP	PKHD1L1	NM_177531	human	genbank	54_36p	+1	validated	missense	c.11438	p.R3813K	1.000	NULL	HMMPfam_TIG,HMMSmart_SM00429,HMMSmart_SM00710,superfamily_Cupredoxins,superfamily_Pectin lyase-like,HMMSmart_SM00758,superfamily_E set domains,HMMPfam_G8,superfamily_Anthrax protective antigen	-	no_errors
LOC441775	441775	genome.wustl.edu	36	16	74826910	74826910	+	RNA	SNP	C	C	T			TCGA-AB-2904-03A-01W-0732-08	TCGA-AB-2904-11A-01W-0732-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	16	74826910	74826910	C	T	SNP	LOC441775	XR_042366	human	genbank	54_36p	-1	model	rna	NULL	NULL	0.010	-	-	-	pseudogene
OR2AJ1	127608	genome.wustl.edu	36	1	246164274	246164274	+	Missense_Mutation	SNP	G	G	T			TCGA-AB-2904-03A-01W-0732-08	TCGA-AB-2904-11A-01W-0732-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	1	246164274	246164274	G	T	SNP	OR2AJ1	ENST00000318244	human	ensembl	54_36p	+1	known	missense	c.581	p.R194L	0.002	superfamily_SSF81321,HMMPfam_7tm_1	superfamily_SSF81321,HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1	-	no_errors
PLEKHG5	57449	genome.wustl.edu	36	1	6453706	6453706	+	Silent	SNP	C	C	T			TCGA-AB-2904-03A-01W-0732-08	TCGA-AB-2904-11A-01W-0732-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	1	6453706	6453706	C	T	SNP	PLEKHG5	NM_198681	human	genbank	54_36p	-1	reviewed	silent	c.1554	p.E518	1.000	HMMPfam_RhoGEF,HMMSmart_RhoGEF,superfamily_DH-domain	HMMPfam_RhoGEF,HMMSmart_RhoGEF,superfamily_DH-domain,HMMPfam_PH,HMMSmart_PH,superfamily_SSF50729	-	no_errors
RYR3	6263	genome.wustl.edu	36	15	31924372	31924374	+	In_Frame_Del	DEL	AGA	AGA	-			TCGA-AB-2904-03A-01W-0732-08	TCGA-AB-2904-11A-01W-0732-08	AGA	AGA			AGA	AGA	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	15	31924372	31924374	AGA	-	DEL	RYR3	NM_001036	human	genbank	54_36p	+1	validated	in_frame_del	c.13314_13316	p.E4441in_frame_del	0.840:0.998:0.998	HMMPfam_RR_TM4-6	HMMPfam_RYDR_ITPR,HMMPfam_RyR,HMMPfam_MIR,superfamily_MIR domain (Pfam 02815),HMMPfam_SPRY,HMMPfam_Ion_trans,HMMPfam_RR_TM4-6,HMMPfam_RIH_assoc,HMMPfam_Ins145_P3_rec,HMMSmart_SM00472,HMMPfam_efhand,HMMSmart_SM00449,superfamily_EF-hand	-	no_errors
KCNH8	131096	genome.wustl.edu	36	3	19473266	19473266	+	Missense_Mutation	SNP	A	A	C			TCGA-AB-2904-03A-01W-0732-08	TCGA-AB-2904-11A-01W-0732-08	A	A			A	A	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	3	19473266	19473266	A	C	SNP	KCNH8	NM_144633	human	genbank	54_36p	+1	reviewed	missense	c.1828	p.K610Q	1.000	superfamily_cNMP_binding,HMMSmart_cNMP,HMMPfam_cNMP_binding	PatternScan_CNMP_BINDING_1,PatternScan_CNMP_BINDING_2,superfamily_SSF55785,HMMPfam_PAS,HMMSmart_PAC,superfamily_SSF81324,HMMPfam_Ion_trans,superfamily_cNMP_binding,HMMSmart_cNMP,HMMPfam_cNMP_binding	-	no_errors
