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
WSCD2	9671	genome.wustl.edu	36	12	107124204	107124204	+	Missense_Mutation	SNP	A	A	G			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	A	A			A	A	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	12	107124204	107124204	A	G	SNP	WSCD2	NM_014653	human	genbank	54_36p	+1	validated	missense	c.391	p.I131V	1.000	HMMSmart_SM00321,HMMPfam_WSC	HMMSmart_SM00321,HMMPfam_WSC,superfamily_P-loop containing nucleoside triphosphate hydrolases	-	no_errors
LOC728782	728782	genome.wustl.edu	36	X	74520982	74520982	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	X	74520982	74520982	C	T	SNP	LOC728782	XM_001128906	human	genbank	54_36p	+1	model	missense	c.77	p.P26L	1.000	HMMPfam_Ribosomal_L21e,superfamily_Translation proteins SH3-like domain	HMMPfam_Ribosomal_L21e,superfamily_Translation proteins SH3-like domain,PatternScan_RIBOSOMAL_L21E	-	pseudogene
LOC728843	728843	genome.wustl.edu	36	5	165388499	165388499	+	RNA	SNP	C	C	A			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	5	165388499	165388499	C	A	SNP	LOC728843	XR_015391	human	genbank	54_36p	-1	model	rna	NULL	NULL	1.000	-	-	-	pseudogene
MGAM	8972	genome.wustl.edu	36	7	141413692	141413692	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	7	141413692	141413692	C	T	SNP	MGAM	ENST00000312952	human	ensembl	54_36p	+1	known	missense	c.5002	p.R1668C	0.019	HMMPfam_Glyco_hydro_31	superfamily_Trefoil,HMMSmart_SM00018,HMMPfam_Trefoil,PatternScan_P_TREFOIL,HMMPfam_Glyco_hydro_31,superfamily_(Trans)glycosidases,PatternScan_GLYCOSYL_HYDROL_F31_1,PatternScan_GLYCOSYL_HYDROL_F31_2	-	no_stop_codon
WT1	7490	genome.wustl.edu	36	11	32374485	32374486	+	Frame_Shift_Ins	INS	-	-	A			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	-	-			-	-	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	11	32374485	32374486	-	A	INS	WT1	NM_024426	human	genbank	54_36p	-1	reviewed	frame_shift_ins	c.1143_1142	p.A382fs	0.771:0.996	HMMPfam_WT1	HMMPfam_WT1,HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers	-	no_errors
PRAMEF12	390999	genome.wustl.edu	36	1	12758392	12758392	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	1	12758392	12758392	G	A	SNP	PRAMEF12	NM_001080830	human	genbank	54_36p	+1	provisional	missense	c.407	p.C136Y	0.001	superfamily_SSF52047	superfamily_SSF52047	-	no_errors
PDE6A	5145	genome.wustl.edu	36	5	149304237	149304237	+	Silent	SNP	G	G	A			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	5	149304237	149304237	G	A	SNP	PDE6A	NM_000440	human	genbank	54_36p	-1	reviewed	silent	c.193	p.L65	0.999	superfamily_SSF55781	superfamily_SSF55781,HMMPfam_GAF,HMMSmart_GAF,superfamily_SSF109604,HMMSmart_HDc,HMMPfam_PDEase_I,PatternScan_PDEASE_I	-	no_errors
CENPF	1063	genome.wustl.edu	36	1	212886431	212886431	+	Missense_Mutation	SNP	C	C	G			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	1	212886431	212886431	C	G	SNP	CENPF	NM_016343	human	genbank	54_36p	+1	reviewed	missense	c.6895	p.L2299V	0.000	NULL	superfamily_Prefoldin,HMMPfam_Rb-bdg_C_Cenp-F,HMMPfam_Cenp-F_N,HMMPfam_Cenp-F_leu_zip,superfamily_Spectrin repeat	-	no_errors
SLC17A7	57030	genome.wustl.edu	36	19	54625658	54625658	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	19	54625658	54625658	G	A	SNP	SLC17A7	NM_020309	human	genbank	54_36p	-1	reviewed	missense	c.1613	p.P538L	0.264	NULL	superfamily_MFS_gen_substrate_transporter,HMMPfam_MFS_1	-	no_errors
ZFP42	132625	genome.wustl.edu	36	4	189161145	189161145	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	4	189161145	189161145	G	A	SNP	ZFP42	NM_174900	human	genbank	54_36p	+1	validated	missense	c.190	p.G64R	0.001	NULL	superfamily_C2H2 and C2HC zinc fingers,HMMSmart_SM00355,PatternScan_ZINC_FINGER_C2H2_1,HMMPfam_zf-C2H2	-	no_errors
TMEM47	83604	genome.wustl.edu	36	X	34567329	34567329	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	X	34567329	34567329	C	T	SNP	TMEM47	NM_031442	human	genbank	54_36p	-1	reviewed	missense	c.323	p.R108Q	1.000	NULL	NULL	-	no_errors
KRT18P49	392516	genome.wustl.edu	36	X	106559218	106559218	+	RNA	SNP	A	A	G			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	A	A			A	A	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	X	106559218	106559218	A	G	SNP	KRT18P49	XR_016590	human	genbank	54_36p	+1	model	rna	NULL	NULL	0.953	-	-	-	pseudogene
LOC647954	647954	genome.wustl.edu	36	5	122765339	122765339	+	RNA	DEL	A	A	-			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	A	A			A	A	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	5	122765339	122765339	A	-	DEL	LOC647954	XR_038441	human	genbank	54_36p	-1	model	rna	NULL	NULL	1.000	-	-	-	pseudogene
CLDN11	5010	genome.wustl.edu	36	3	171623663	171623663	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	3	171623663	171623663	G	A	SNP	CLDN11	NM_005602	human	genbank	54_36p	+1	reviewed	missense	c.245	p.R82H	1.000	HMMPfam_PMP22_Claudin	HMMPfam_PMP22_Claudin,PatternScan_CLAUDIN	-	no_errors
ROS1	6098	genome.wustl.edu	36	6	117728964	117728964	+	Missense_Mutation	SNP	T	T	C			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	T	T			T	T	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	6	117728964	117728964	T	C	SNP	ROS1	NM_002944	human	genbank	54_36p	-1	reviewed	missense	c.6599	p.Q2200R	0.998	superfamily_Kinase_like,HMMPfam_Pkinase_Tyr,HMMSmart_TyrKc	HMMSmart_FN3,HMMPfam_fn3,superfamily_FN_III-like,superfamily_SSF63825,HMMSmart_LY,superfamily_Kinase_like,HMMPfam_Pkinase_Tyr,HMMSmart_TyrKc,PatternScan_PROTEIN_KINASE_ATP,PatternScan_PROTEIN_KINASE_TYR,PatternScan_RECEPTOR_TYR_KIN_II	-	no_errors
SLC24A4	123041	genome.wustl.edu	36	14	91993388	91993390	+	Frame_Shift_Del	DEL	TGT	TGT	-			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	TGT	TGT			TGT	TGT	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	14	91993388	91993390	TGT	-	DEL	SLC24A4	ENST00000351924	human	ensembl	54_36p	+1	known	frame_shift_del	c.375	p.N126fs	0.008	NULL	NULL	-	no_errors
LOC727758	727758	genome.wustl.edu	36	18	106909	106909	+	Nonsense_Mutation	SNP	A	A	T			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	A	A			A	A	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	18	106909	106909	A	T	SNP	LOC727758	XM_001125808	human	genbank	54_36p	+1	model	nonsense	c.94	p.K32*	1.000	NULL	superfamily_Cysteine-rich domain,HMMSmart_SM00109	-	no_errors
SHISA2	387914	genome.wustl.edu	36	13	25522935	25522935	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	13	25522935	25522935	C	T	SNP	SHISA2	NM_001007538	human	genbank	54_36p	-1	provisional	missense	c.179	p.G60D	1.000	NULL	NULL	-	no_errors
GEMIN4	50628	genome.wustl.edu	36	17	596213	596213	+	Missense_Mutation	SNP	A	A	T			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	A	A			A	A	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	17	596213	596213	A	T	SNP	GEMIN4	NM_015721	human	genbank	54_36p	-1	reviewed	missense	c.1820	p.L607H	0.999	NULL	NULL	-	no_errors
PNPLA7	375775	genome.wustl.edu	36	9	139475834	139475834	+	Silent	SNP	C	C	T			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	9	139475834	139475834	C	T	SNP	PNPLA7	NM_001098537	human	genbank	54_36p	-1	validated	silent	c.3816	p.E1272	0.999	NULL	superfamily_cAMP-binding domain-like,HMMSmart_SM00100,HMMPfam_cNMP_binding,superfamily_FabD/lysophospholipase-like,HMMPfam_Patatin	-	no_errors
DST	667	genome.wustl.edu	36	6	56509558	56509558	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	6	56509558	56509558	C	T	SNP	DST	NM_183380	human	genbank	54_36p	-1	reviewed	missense	c.9857	p.R3286Q	0.169	HMMPfam_Spectrin,HMMSmart_SM00150,superfamily_Spectrin repeat	superfamily_Calponin-homology domain CH-domain,HMMPfam_CH,PatternScan_ACTININ_1,HMMSmart_SM00033,PatternScan_ACTININ_2,superfamily_Spectrin repeat,HMMSmart_SM00150,HMMPfam_Spectrin,superfamily_EF-hand,HMMSmart_SM00054,HMMPfam_efhand,PatternScan_EF_HAND_1,HMMPfam_GAS2,HMMSmart_SM00243	-	no_errors
ENSG00000159247	0	genome.wustl.edu	36	9	140190508	140190508	+	Silent	SNP	C	C	T			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	9	140190508	140190508	C	T	SNP	ENSG00000159247	ENST00000290377	human	ensembl	54_36p	+1	known	silent	c.306	p.A102	1.000	superfamily_Tubulin nucleotide-binding domain-like,HMMPfam_Tubulin	superfamily_Tubulin nucleotide-binding domain-like,HMMPfam_Tubulin,PatternScan_TUBULIN,superfamily_Tubulin C-terminal domain-like,HMMPfam_Tubulin_C	-	no_start_codon
ARAP2	116984	genome.wustl.edu	36	4	35829014	35829014	+	Missense_Mutation	SNP	A	A	G			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	A	A			A	A	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	4	35829014	35829014	A	G	SNP	ARAP2	NM_015230	human	genbank	54_36p	-1	reviewed	missense	c.2800	p.Y934H	1.000	superfamily_PH domain-like,HMMPfam_PH,HMMSmart_SM00233	HMMSmart_SM00454,superfamily_SAM/Pointed domain,HMMPfam_SAM_1,superfamily_PH domain-like,HMMPfam_PH,HMMSmart_SM00233,superfamily_Pyk2-associated protein beta ARF-GAP domain,HMMPfam_ArfGap,HMMSmart_SM00105,superfamily_GTPase activation domain GAP,HMMSmart_SM00324,HMMPfam_RhoGAP,HMMPfam_RA	-	no_errors
TM9SF4	9777	genome.wustl.edu	36	20	30211546	30211546	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	20	30211546	30211546	G	A	SNP	TM9SF4	NM_014742	human	genbank	54_36p	+1	validated	missense	c.1609	p.V537I	1.000	HMMPfam_EMP70	HMMPfam_EMP70	-	no_errors
LOC728498	728498	genome.wustl.edu	36	15	28688165	28688165	+	Missense_Mutation	SNP	T	T	C			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	T	T			T	T	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	15	28688165	28688165	T	C	SNP	LOC728498	XM_001724395	human	genbank	54_36p	+1	model	missense	c.505	p.C169R	0.870	NULL	NULL	-	no_errors
SLC24A4	123041	genome.wustl.edu	36	14	91993400	91993401	+	Frame_Shift_Del	DEL	AA	AA	-			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	AA	AA			AA	AA	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	14	91993400	91993401	AA	-	DEL	SLC24A4	ENST00000351924	human	ensembl	54_36p	+1	known	frame_shift_del	c.376_377	p.N126fs	0.000:0.000	NULL	NULL	-	no_errors
TRIM48	79097	genome.wustl.edu	36	11	54789038	54789038	+	Missense_Mutation	SNP	T	T	C			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	T	T			T	T	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	11	54789038	54789038	T	C	SNP	TRIM48	NM_024114	human	genbank	54_36p	+1	validated	missense	c.83	p.I28T	0.124	HMMSmart_RING,HMMPfam_zf-C3HC4,superfamily_SSF57850	HMMPfam_zf-B_box,HMMSmart_BBOX,HMMSmart_RING,PatternScan_ZF_RING_1,HMMPfam_zf-C3HC4,superfamily_SSF57850	-	no_errors
PCDHGA6	56109	genome.wustl.edu	36	5	140734445	140734445	+	Missense_Mutation	SNP	G	G	T			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	5	140734445	140734445	G	T	SNP	PCDHGA6	NM_018919	human	genbank	54_36p	+1	reviewed	missense	c.611	p.G204V	0.004	superfamily_Cadherin-like,HMMPfam_Cadherin,HMMSmart_SM00112	superfamily_Cadherin-like,HMMPfam_Cadherin_2,HMMSmart_SM00112,PatternScan_CADHERIN_1,HMMPfam_Cadherin	-	no_errors
OR4Q3	441669	genome.wustl.edu	36	14	19285532	19285532	+	Missense_Mutation	SNP	A	A	G			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	A	A			A	A	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	14	19285532	19285532	A	G	SNP	OR4Q3	NM_172194	human	genbank	54_36p	+1	provisional	missense	c.106	p.I36V	0.004	superfamily_SSF81321	superfamily_SSF81321,HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1	-	no_errors
KIT	3815	genome.wustl.edu	36	4	55284523	55284523	+	Frame_Shift_Del	DEL	G	G	-			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	4	55284523	55284523	G	-	DEL	KIT	NM_000222	human	genbank	54_36p	+1	reviewed	frame_shift_del	c.1248	p.T417fs	0.990	NULL	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
ORAI1	84876	genome.wustl.edu	36	12	120549215	120549215	+	Missense_Mutation	SNP	A	A	G			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	A	A			A	A	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	12	120549215	120549215	A	G	SNP	ORAI1	NM_032790	human	genbank	54_36p	+1	reviewed	missense	c.185	p.Y62C	1.000	NULL	HMMPfam_DUF1650	-	no_errors
uc004amh.1	0	genome.wustl.edu	36	9	83737543	83737543	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	9	83737543	83737543	G	A	SNP	uc004amh.1	ENST00000341875	human	ensembl	54_36p	+1	known	missense	c.2647	p.V883I	0.000	NULL	NULL	-	no_errors
TNRC18C	340221	genome.wustl.edu	36	7	57080595	57080595	+	Missense_Mutation	SNP	T	T	C			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	T	T			T	T	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	7	57080595	57080595	T	C	SNP	TNRC18C	ENST00000340814	human	ensembl	54_36p	+1	known	missense	c.400	p.C134R	1.000	HMMPfam_BAH,HMMSmart_BAH	HMMPfam_BAH,HMMSmart_BAH	-	no_start_codon
