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-CO2	0	genome.wustl.edu	36	MT	7655	7655	+	Silent	SNP	T	T	C			TCGA-AB-2939-03A-01W-0745-08	TCGA-AB-2939-11A-01W-0745-08	T	T			T	T	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	MT	7655	7655	T	C	SNP	MT-CO2	ENST00000361739	human	ensembl	54_36p	+1	known	silent	c.69	p.F23	NULL	HMMPfam_COX2_TM,superfamily_Cytochrome c oxidase subunit II-like transmembrane region	PatternScan_COX2,HMMPfam_COX2,superfamily_Cupredoxins,HMMPfam_COX2_TM,superfamily_Cytochrome c oxidase subunit II-like transmembrane region	-	no_errors
DKFZP547L112	81787	genome.wustl.edu	36	15	19264861	19264861	+	RNA	SNP	C	C	T			TCGA-AB-2939-03A-01W-0745-08	TCGA-AB-2939-11A-01W-0745-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	15	19264861	19264861	C	T	SNP	DKFZP547L112	XR_041953	human	genbank	54_36p	+1	model	rna	NULL	NULL	0.000	-	-	-	no_errors
MAEL	84944	genome.wustl.edu	36	1	165228637	165228637	+	Missense_Mutation	SNP	T	T	C			TCGA-AB-2939-03A-01W-0745-08	TCGA-AB-2939-11A-01W-0745-08	T	T			T	T	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	1	165228637	165228637	T	C	SNP	MAEL	NM_032858	human	genbank	54_36p	+1	validated	missense	c.416	p.I139T	1.000	HMMPfam_DUF1898	HMMPfam_DUF1898,superfamily_HMG-box	-	no_errors
KIT	3815	genome.wustl.edu	36	4	55294078	55294078	+	Missense_Mutation	SNP	A	A	T			TCGA-AB-2939-03A-01W-0745-08	TCGA-AB-2939-11A-01W-0745-08	A	A			A	A	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	4	55294078	55294078	A	T	SNP	KIT	NM_000222	human	genbank	54_36p	+1	reviewed	missense	c.2447	p.D816V	1.000	HMMPfam_Pkinase_Tyr,HMMSmart_TyrKc,superfamily_Kinase_like	HMMPfam_Pkinase_Tyr,HMMSmart_TyrKc,PatternScan_RECEPTOR_TYR_KIN_III,HMMSmart_IGc2,HMMSmart_IG,PatternScan_PROTEIN_KINASE_TYR,superfamily_Kinase_like,HMMPfam_ig,PatternScan_PROTEIN_KINASE_ATP,superfamily_SSF48726	-	no_errors
FLJ39632	642477	genome.wustl.edu	36	14	18959242	18959242	+	RNA	SNP	C	C	A			TCGA-AB-2939-03A-01W-0745-08	TCGA-AB-2939-11A-01W-0745-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	14	18959242	18959242	C	A	SNP	FLJ39632	XR_015133	human	genbank	54_36p	-1	model	rna	NULL	NULL	0.000	-	-	-	no_errors
LOC727764	727764	genome.wustl.edu	36	4	55610	55610	+	RNA	DEL	A	A	-			TCGA-AB-2939-03A-01W-0745-08	TCGA-AB-2939-11A-01W-0745-08	A	A			A	A	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	4	55610	55610	A	-	DEL	LOC727764	XR_038491	human	genbank	54_36p	-1	model	rna	NULL	NULL	0.000	-	-	-	no_errors
ENSG00000209624	0	genome.wustl.edu	36	12	25647538	25647538	+	RNA	SNP	G	G	A			TCGA-AB-2939-03A-01W-0745-08	TCGA-AB-2939-11A-01W-0745-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	12	25647538	25647538	G	A	SNP	ENSG00000209624	ENST00000386889	human	ensembl	54_36p	-1	novel	rna	NULL	NULL	0.013	-	-	-	pseudogene
FAM47A	158724	genome.wustl.edu	36	X	34059994	34059994	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2939-03A-01W-0745-08	TCGA-AB-2939-11A-01W-0745-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	X	34059994	34059994	G	A	SNP	FAM47A	NM_203408	human	genbank	54_36p	-1	predicted	missense	c.323	p.S108F	0.038	NULL	NULL	-	no_errors
SLC16A14	151473	genome.wustl.edu	36	2	230619146	230619146	+	Nonsense_Mutation	SNP	G	G	A			TCGA-AB-2939-03A-01W-0745-08	TCGA-AB-2939-11A-01W-0745-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	2	230619146	230619146	G	A	SNP	SLC16A14	NM_152527	human	genbank	54_36p	-1	provisional	nonsense	c.940	p.R314*	0.701	superfamily_MFS general substrate transporter,HMMPfam_MFS_1	superfamily_MFS general substrate transporter,HMMPfam_MFS_1	-	no_errors
SLC6A20	54716	genome.wustl.edu	36	3	45798633	45798633	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2939-03A-01W-0745-08	TCGA-AB-2939-11A-01W-0745-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	3	45798633	45798633	G	A	SNP	SLC6A20	NM_020208	human	genbank	54_36p	-1	reviewed	missense	c.208	p.R70W	1.000	HMMPfam_SNF	HMMPfam_SNF,PatternScan_NA_NEUROTRAN_SYMP_1,PatternScan_NA_NEUROTRAN_SYMP_2	-	no_errors
GALNTL4	374378	genome.wustl.edu	36	11	11355462	11355462	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2939-03A-01W-0745-08	TCGA-AB-2939-11A-01W-0745-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	11	11355462	11355462	G	A	SNP	GALNTL4	NM_198516	human	genbank	54_36p	-1	validated	missense	c.820	p.R274W	0.981	HMMPfam_Glycos_transf_2,superfamily_Nucleotide-diphospho-sugar transferases	HMMPfam_Ricin_B_lectin,HMMSmart_SM00458,HMMPfam_Glycos_transf_2,superfamily_Ricin B-like lectins,superfamily_Nucleotide-diphospho-sugar transferases	-	no_errors
C1orf51	148523	genome.wustl.edu	36	1	148522482	148522482	+	Missense_Mutation	SNP	C	C	A			TCGA-AB-2939-03A-01W-0745-08	TCGA-AB-2939-11A-01W-0745-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	1	148522482	148522482	C	A	SNP	C1orf51	NM_144697	human	genbank	54_36p	+1	predicted	missense	c.181	p.P61T	0.959	NULL	NULL	-	no_errors
HELZ	9931	genome.wustl.edu	36	17	62504938	62504938	+	Missense_Mutation	SNP	C	C	A			TCGA-AB-2939-03A-01W-0745-08	TCGA-AB-2939-11A-01W-0745-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	17	62504938	62504938	C	A	SNP	HELZ	NM_014877	human	genbank	54_36p	-1	validated	missense	c.5721	p.R1907S	0.998	NULL	superfamily_SSF90229,HMMSmart_ZnF_C3H1,HMMPfam_zf-CCCH,superfamily_SSF52540,HMMPfam_PAM2	-	no_errors
PRSS35	167681	genome.wustl.edu	36	6	84291097	84291097	+	Silent	SNP	C	C	T			TCGA-AB-2939-03A-01W-0745-08	TCGA-AB-2939-11A-01W-0745-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	6	84291097	84291097	C	T	SNP	PRSS35	NM_153362	human	genbank	54_36p	+1	provisional	silent	c.1218	p.N406	1.000	NULL	PatternScan_TRYPSIN_SER,superfamily_Pept_Ser_Cys,HMMSmart_Tryp_SPc,HMMPfam_Trypsin,PatternScan_TRYPSIN_HIS	-	no_errors
C11orf41	25758	genome.wustl.edu	36	11	33529297	33529297	+	Missense_Mutation	SNP	C	C	A			TCGA-AB-2939-03A-01W-0745-08	TCGA-AB-2939-11A-01W-0745-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	11	33529297	33529297	C	A	SNP	C11orf41	NM_012194	human	genbank	54_36p	+1	validated	missense	c.2764	p.Q922K	1.000	NULL	NULL	-	no_errors
SCIN	85477	genome.wustl.edu	36	7	12610771	12610771	+	Silent	SNP	A	A	C			TCGA-AB-2939-03A-01W-0745-08	TCGA-AB-2939-11A-01W-0745-08	A	A			A	A	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	7	12610771	12610771	A	C	SNP	SCIN	ENST00000297029	human	ensembl	54_36p	+1	known	silent	c.624	p.L208	0.066	superfamily_Actin depolymerizing proteins,HMMSmart_SM00262,HMMPfam_Gelsolin	superfamily_Actin depolymerizing proteins,HMMSmart_SM00262,HMMPfam_Gelsolin,superfamily_C-terminal gelsolin-like domain of Sec23/24	-	no_errors
LNX1	84708	genome.wustl.edu	36	4	54059577	54059577	+	Silent	SNP	G	G	A			TCGA-AB-2939-03A-01W-0745-08	TCGA-AB-2939-11A-01W-0745-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	4	54059577	54059577	G	A	SNP	LNX1	NM_032622	human	genbank	54_36p	-1	reviewed	silent	c.678	p.D226	1.000	superfamily_PDZ,HMMPfam_PDZ,HMMSmart_PDZ	superfamily_PDZ,HMMPfam_PDZ,HMMSmart_PDZ	-	no_errors
LOC100133684	100133684	genome.wustl.edu	36	13	27543083	27543084	+	Frame_Shift_Del	DEL	TG	TG	-			TCGA-AB-2939-03A-01W-0745-08	TCGA-AB-2939-11A-01W-0745-08	TG	TG			TG	TG	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	13	27543083	27543084	TG	-	DEL	LOC100133684	XM_001716774	human	genbank	54_36p	-1	model	frame_shift_del	c.1041_1040	p.T347fs	0.000:0.000	NULL	NULL	-	no_start_codon:pseudogene:no_stop_codon
KRT77	374454	genome.wustl.edu	36	12	51383390	51383390	+	Silent	SNP	C	C	T			TCGA-AB-2939-03A-01W-0745-08	TCGA-AB-2939-11A-01W-0745-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	12	51383390	51383390	C	T	SNP	KRT77	NM_175078	human	genbank	54_36p	-1	validated	silent	c.96	p.P32	0.000	NULL	HMMPfam_Filament,PatternScan_IF	-	no_errors
MT-CO3	0	genome.wustl.edu	36	MT	9968	9968	+	Missense_Mutation	SNP	T	T	C			TCGA-AB-2939-03A-01W-0745-08	TCGA-AB-2939-11A-01W-0745-08	T	T			T	T	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	MT	9968	9968	T	C	SNP	MT-CO3	ENST00000362079	human	ensembl	54_36p	+1	known	missense	c.761	p.V254A	NULL	HMMPfam_COX3,superfamily_CytC_oxdse_III	HMMPfam_COX3,superfamily_CytC_oxdse_III	-	no_stop_codon:bad_bp_length_for_coding_region
LOC100130858	100130858	genome.wustl.edu	36	18	52457168	52457170	+	In_Frame_Del	DEL	AGT	AGT	-			TCGA-AB-2939-03A-01W-0745-08	TCGA-AB-2939-11A-01W-0745-08	AGT	AGT			AGT	AGT	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	18	52457168	52457170	AGT	-	DEL	LOC100130858	XM_001722089	human	genbank	54_36p	-1	model	in_frame_del	c.320_318	p.L108in_frame_del	0.001:0.001:0.000	NULL	NULL	-	no_errors
LOC648603	648603	genome.wustl.edu	36	X	48519332	48519332	+	RNA	SNP	C	C	G			TCGA-AB-2939-03A-01W-0745-08	TCGA-AB-2939-11A-01W-0745-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	X	48519332	48519332	C	G	SNP	LOC648603	XR_038238	human	genbank	54_36p	-1	model	rna	NULL	NULL	0.000	-	-	-	pseudogene
SI	6476	genome.wustl.edu	36	3	166216448	166216448	+	Missense_Mutation	SNP	A	A	G			TCGA-AB-2939-03A-01W-0745-08	TCGA-AB-2939-11A-01W-0745-08	A	A			A	A	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	3	166216448	166216448	A	G	SNP	SI	NM_001041	human	genbank	54_36p	-1	validated	missense	c.3874	p.Y1292H	1.000	HMMPfam_Glyco_hydro_31,superfamily_(Trans)glycosidases	HMMPfam_Glyco_hydro_31,PatternScan_GLYCOSYL_HYDROL_F31_1,PatternScan_GLYCOSYL_HYDROL_F31_2,HMMPfam_Trefoil,HMMSmart_SM00018,superfamily_Trefoil,superfamily_(Trans)glycosidases,PatternScan_P_TREFOIL	-	no_errors
XPC	7508	genome.wustl.edu	36	3	14194970	14194972	+	In_Frame_Del	DEL	CCT	CCT	-			TCGA-AB-2939-03A-01W-0745-08	TCGA-AB-2939-11A-01W-0745-08	CCT	CCT			CCT	CCT	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	3	14194970	14194972	CCT	-	DEL	XPC	ENST00000285021	human	ensembl	54_36p	-1	known	in_frame_del	c.103_101	p.E34in_frame_del	0.977:0.961:0.939	NULL	HMMPfam_Rad4,HMMPfam_BHD_1,HMMPfam_BHD_2,HMMPfam_BHD_3	-	no_errors
MLL2	8085	genome.wustl.edu	36	12	47711634	47711634	+	Missense_Mutation	SNP	A	A	T			TCGA-AB-2939-03A-01W-0745-08	TCGA-AB-2939-11A-01W-0745-08	A	A			A	A	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	12	47711634	47711634	A	T	SNP	MLL2	NM_003482	human	genbank	54_36p	-1	validated	missense	c.13121	p.L4374Q	0.599	NULL	superfamily_FYVE/PHD zinc finger,HMMSmart_SM00249,HMMSmart_SM00184,PatternScan_ZF_PHD_1,HMMPfam_PHD,PatternScan_RECOMBINASES_2,HMMSmart_SM00398,superfamily_HMG-box,HMMPfam_HMG_box,HMMPfam_FYRN,HMMSmart_SM00541,HMMPfam_FYRC,HMMSmart_SM00542,superfamily_SET domain,HMMPfam_SET,HMMSmart_SM00317,HMMSmart_SM00508	-	no_errors
