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
ITGAX	3687	genome.wustl.edu	36	16	31290499	31290499	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-3002-03A-01D-0739-09	TCGA-AB-3002-11A-01D-0739-09					C	C	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	16	31290499	31290499	C	T	SNP	ITGAX	NM_000887.3	human	genbank	54_36p	+1	reviewed	missense	c.2053	p.R685C	1.000	HMMPfam_Integrin_alpha2,superfamily_SSF69179	superfamily_SSF69318,HMMSmart_Int_alpha,superfamily_SSF53300,HMMSmart_VWA,HMMPfam_VWA,HMMPfam_FG-GAP,HMMPfam_Integrin_alpha2,superfamily_SSF69179,PatternScan_INTEGRIN_ALPHA,HMMPfam_Integrin_alpha	-	no_errors
LOC388553	388553	genome.wustl.edu	36	19	50958451	50958451	+	Silent	SNP	C	C	T			TCGA-AB-3002-03A-01D-0739-09	TCGA-AB-3002-11A-01D-0739-09					C	C	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	19	50958451	50958451	C	T	SNP	LOC388553	XM_373809.1	human	genbank	54_36p	+1	model	silent	c.1554	p.T518	0.395	superfamily_HMG-box,HMMSmart_SM00398,HMMPfam_HMG_box	HMMPfam_HLH,superfamily_HMG-box,HMMSmart_SM00398,HMMPfam_HMG_box	-	no_errors
LOC100129876	100129876	genome.wustl.edu	36	X	55215216	55215216	+	Silent	SNP	G	G	A			TCGA-AB-3002-03A-01D-0739-09	TCGA-AB-3002-11A-01D-0739-09					G	G	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	X	55215216	55215216	G	A	SNP	LOC100129876	XM_001715675.1	human	genbank	54_36p	+1	model	silent	c.105	p.E35	0.007	NULL	HMMPfam_GAGE	-	no_errors
COL27A1	85301	genome.wustl.edu	36	9	116084387	116084387	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-3002-03A-01D-0739-09	TCGA-AB-3002-11A-01D-0739-09					G	G	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	9	116084387	116084387	G	A	SNP	COL27A1	NM_032888.2	human	genbank	54_36p	+1	provisional	missense	c.3727	p.G1243R	1.000	HMMPfam_Collagen	HMMSmart_SM00210,superfamily_Concanavalin A-like lectins/glucanases,HMMPfam_Collagen,HMMSmart_SM00038,HMMPfam_COLFI	-	no_errors
OR1J2	26740	genome.wustl.edu	36	9	124312959	124312959	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-3002-03A-01D-0739-09	TCGA-AB-3002-11A-01D-0739-09					C	C	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	9	124312959	124312959	C	T	SNP	OR1J2	NM_054107.1	human	genbank	54_36p	+1	provisional	missense	c.58	p.R20W	0.002	superfamily_Family A G protein-coupled receptor-like	superfamily_Family A G protein-coupled receptor-like,HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1	-	no_errors
LOC441957	441957	genome.wustl.edu	36	21	14058883	14058883	+	RNA	SNP	C	C	T			TCGA-AB-3002-03A-01D-0739-09	TCGA-AB-3002-11A-01D-0739-09					C	C	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	21	14058883	14058883	C	T	SNP	LOC441957	XR_016199.1	human	genbank	54_36p	+1	model	rna	NULL	NULL	0.375	-	-	-	pseudogene
ARHGEF2	9181	genome.wustl.edu	36	1	154189110	154189110	+	Silent	SNP	G	G	T			TCGA-AB-3002-03A-01D-0739-09	TCGA-AB-3002-11A-01D-0739-09					G	G	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	1	154189110	154189110	G	T	SNP	ARHGEF2	NM_004723.2	human	genbank	54_36p	-1	reviewed	silent	c.1833	p.G611	0.971	NULL	superfamily_Cysteine-rich domain,HMMSmart_SM00109,PatternScan_ZF_DAG_PE_1,HMMPfam_C1_1,superfamily_DBL homology domain (DH-domain),HMMPfam_RhoGEF,HMMSmart_SM00325,HMMPfam_PH,superfamily_PH domain-like,HMMSmart_SM00233	-	no_errors
MYO1F	4542	genome.wustl.edu	36	19	8512789	8512789	+	Splice_Site	SNP	C	C	T			TCGA-AB-3002-03A-01D-0739-09	TCGA-AB-3002-11A-01D-0739-09					C	C	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	19	8512789	8512789	C	T	SNP	MYO1F	NM_012335.2	human	genbank	54_36p	-1	provisional	splice_site	c.1610+1	e15+1	1.000	-	-	-	no_errors
MIR142	406934	genome.wustl.edu	36	17	53763624	53763624	+	RNA	SNP	T	T	C			TCGA-AB-3002-03A-01D-0739-09	TCGA-AB-3002-11A-01D-0739-09					T	T	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	17	53763624	53763624	T	C	SNP	MIRN142	ENST00000384835	human	ensembl	54_36p	-1	known	rna	NULL	NULL	1.000	-	-	-	no_errors
RP1L1	94137	genome.wustl.edu	36	8	10506675	10506675	+	Silent	SNP	G	G	A			TCGA-AB-3002-03A-01D-0739-09	TCGA-AB-3002-11A-01D-0739-09					G	G	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	8	10506675	10506675	G	A	SNP	RP1L1	NM_178857.5	human	genbank	54_36p	-1	validated	silent	c.2343	p.S781	0.026	NULL	superfamily_SSF89837,HMMPfam_DCX,HMMPfam_S-antigen	-	no_errors
ATG16L1	55054	genome.wustl.edu	36	2	233837397	233837397	+	Silent	SNP	C	C	T			TCGA-AB-3002-03A-01D-0739-09	TCGA-AB-3002-11A-01D-0739-09					C	C	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	2	233837397	233837397	C	T	SNP	ATG16L1	NM_030803.3	human	genbank	54_36p	+1	validated	silent	c.336	p.D112	1.000	HMMPfam_ATG16,superfamily_WD40 repeat-like	HMMPfam_ATG16,superfamily_WD40 repeat-like,HMMSmart_SM00320,HMMPfam_WD40,PatternScan_WD_REPEATS_1	-	no_errors
MIR142	406934	genome.wustl.edu	36	17	53763621	53763621	+	RNA	SNP	C	C	G			TCGA-AB-3002-03A-01D-0739-09	TCGA-AB-3002-11A-01D-0739-09					C	C	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	17	53763621	53763621	C	G	SNP	MIRN142	ENST00000384835	human	ensembl	54_36p	-1	known	rna	NULL	NULL	1.000	-	-	-	no_errors
P2RY2	5029	genome.wustl.edu	36	11	72623244	72623244	+	Missense_Mutation	SNP	G	G	T			TCGA-AB-3002-03A-01D-0739-09	TCGA-AB-3002-11A-01D-0739-09					G	G	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	11	72623244	72623244	G	T	SNP	P2RY2	NM_002564.2	human	genbank	54_36p	+1	reviewed	missense	c.392	p.R131L	1.000	superfamily_Family A G protein-coupled receptor-like,HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1	superfamily_Family A G protein-coupled receptor-like,HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1	-	no_errors
TP73	7161	genome.wustl.edu	36	1	3628599	3628599	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-3002-03A-01D-0739-09	TCGA-AB-3002-11A-01D-0739-09					C	C	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	1	3628599	3628599	C	T	SNP	TP73	NM_005427.1	human	genbank	54_36p	+1	reviewed	missense	c.584	p.P195L	1.000	HMMPfam_P53,superfamily_p53-like transcription factors	HMMPfam_P53,superfamily_p53-like transcription factors,PatternScan_P53,HMMPfam_P53_tetramer,superfamily_p53 tetramerization domain,HMMSmart_SM00454,HMMPfam_SAM_2,superfamily_SAM/Pointed domain	-	no_errors
PCDHGC4	56098	genome.wustl.edu	36	5	140846278	140846278	+	Missense_Mutation	SNP	C	C	G			TCGA-AB-3002-03A-01D-0739-09	TCGA-AB-3002-11A-01D-0739-09					C	C	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	5	140846278	140846278	C	G	SNP	PCDHGC4	NM_018928.2	human	genbank	54_36p	+1	reviewed	missense	c.1354	p.P452A	0.999	HMMSmart_SM00112,PatternScan_CADHERIN_1,superfamily_Cadherin-like	superfamily_Cadherin-like,HMMPfam_Cadherin_2,HMMSmart_SM00112,PatternScan_CADHERIN_1,HMMPfam_Cadherin	-	no_errors
DRD2	1813	genome.wustl.edu	36	11	112788535	112788535	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-3002-03A-01D-0739-09	TCGA-AB-3002-11A-01D-0739-09					G	G	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	11	112788535	112788535	G	A	SNP	DRD2	NM_000795.3	human	genbank	54_36p	-1	reviewed	missense	c.1091	p.S364F	1.000	superfamily_Family A G protein-coupled receptor-like,HMMPfam_7tm_1	superfamily_Family A G protein-coupled receptor-like,HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1	-	no_errors
EZR	7430	genome.wustl.edu	36	6	159108034	159108034	+	Missense_Mutation	SNP	T	T	C			TCGA-AB-3002-03A-01D-0739-09	TCGA-AB-3002-11A-01D-0739-09					T	T	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	6	159108034	159108034	T	C	SNP	EZR	NM_003379.1	human	genbank	54_36p	-1	reviewed	missense	c.1661	p.H554R	1.000	HMMPfam_ERM,superfamily_Moesin	HMMSmart_B41,superfamily_SSF54236,HMMPfam_FERM_N,PatternScan_FERM_1,superfamily_FERM_3-hlx,HMMPfam_FERM_M,PatternScan_FERM_2,superfamily_SSF50729,HMMPfam_FERM_C,HMMPfam_ERM,superfamily_Moesin	-	no_errors
LOC100129901	100129901	genome.wustl.edu	36	9	87569444	87569444	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-3002-03A-01D-0739-09	TCGA-AB-3002-11A-01D-0739-09					C	C	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	9	87569444	87569444	C	T	SNP	LOC100129901	XM_001716099.1	human	genbank	54_36p	+1	model	missense	c.128	p.A43V	0.997	NULL	NULL	-	no_errors
IDH2	3418	genome.wustl.edu	36	15	88432938	88432938	+	Missense_Mutation	SNP	C	C	A			TCGA-AB-3002-03A-01D-0739-09	TCGA-AB-3002-11A-01D-0739-09					C	C	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	15	88432938	88432938	C	A	SNP	IDH2	NM_002168.2	human	genbank	54_36p	-1	reviewed	missense	c.419	p.R140L	1.000	superfamily_Isocitrate/Isopropylmalate dehydrogenase-like,HMMPfam_Iso_dh	superfamily_Isocitrate/Isopropylmalate dehydrogenase-like,HMMPfam_Iso_dh,PatternScan_IDH_IMDH	-	no_errors
DDX41	51428	genome.wustl.edu	36	5	176872959	176872959	+	Splice_Site	SNP	C	C	T			TCGA-AB-3002-03A-01D-0739-09	TCGA-AB-3002-11A-01D-0739-09					C	C	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	5	176872959	176872959	C	T	SNP	DDX41	NM_016222.2	human	genbank	54_36p	-1	reviewed	splice_site	c.1230+1	e11+1	1.000	-	-	-	no_errors
FBN2	2201	genome.wustl.edu	36	5	127725400	127725400	+	Silent	SNP	G	G	A			TCGA-AB-3002-03A-01D-0739-09	TCGA-AB-3002-11A-01D-0739-09					G	G	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	5	127725400	127725400	G	A	SNP	FBN2	NM_001999.3	human	genbank	54_36p	-1	reviewed	silent	c.2469	p.N823	0.992	superfamily_Concanavalin A-like lectins/glucanases,PatternScan_EGF_CA,HMMPfam_EGF_CA,HMMSmart_SM00179,superfamily_EGF/Laminin,HMMSmart_SM00181	superfamily_EGF/Laminin,HMMSmart_SM00181,PatternScan_EGF_1,PatternScan_EGF_2,superfamily_Concanavalin A-like lectins/glucanases,superfamily_TB module/8-cys domain,HMMPfam_TB,PatternScan_EGF_CA,HMMPfam_EGF_CA,HMMSmart_SM00179,PatternScan_ASX_HYDROXYL,HMMPfam_EGF,superfamily_Growth factor receptor domain	-	no_errors
HJURP	55355	genome.wustl.edu	36	2	234415280	234415280	+	Silent	SNP	G	G	A			TCGA-AB-3002-03A-01D-0739-09	TCGA-AB-3002-11A-01D-0739-09					G	G	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	2	234415280	234415280	G	A	SNP	HJURP	NM_018410.3	human	genbank	54_36p	-1	validated	silent	c.885	p.S295	0.000	NULL	NULL	-	no_errors
DAZAP2	9802	genome.wustl.edu	36	12	49922439	49922439	+	Missense_Mutation	SNP	A	A	G			TCGA-AB-3002-03A-01D-0739-09	TCGA-AB-3002-11A-01D-0739-09					A	A	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	12	49922439	49922439	A	G	SNP	DAZAP2	NM_014764.1	human	genbank	54_36p	+1	reviewed	missense	c.437	p.N146S	1.000	NULL	NULL	-	no_errors
LGTN	100529141	genome.wustl.edu	36	1	204839488	204839488	+	Missense_Mutation	SNP	T	T	C			TCGA-AB-3002-03A-01D-0739-09	TCGA-AB-3002-11A-01D-0739-09					T	T	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	1	204839488	204839488	T	C	SNP	LGTN	NM_006893.2	human	genbank	54_36p	-1	reviewed	missense	c.1154	p.Y385C	1.000	superfamily_SWIB/MDM2 domain	superfamily_PUA domain-like,HMMSmart_SM00359,superfamily_SWIB/MDM2 domain,superfamily_eIF1-like,HMMPfam_SUI1	-	no_errors
TTLL10	254173	genome.wustl.edu	36	1	1105467	1105467	+	Silent	SNP	C	C	T	rs116712279	byCluster;by1000genomes	TCGA-AB-3002-03A-01D-0739-09	TCGA-AB-3002-11A-01D-0739-09					C	C	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	1	1105467	1105467	C	T	SNP	TTLL10	NM_153254.1	human	genbank	54_36p	+1	validated	silent	c.171	p.A57	0.000	NULL	HMMPfam_TTL	-	no_errors
RP1	6101	genome.wustl.edu	36	8	55700208	55700208	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-3002-03A-01D-0739-09	TCGA-AB-3002-11A-01D-0739-09					G	G	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	8	55700208	55700208	G	A	SNP	RP1	ENST00000220676	human	ensembl	54_36p	+1	known	missense	c.1213	p.A405T	0.000	NULL	superfamily_SSF89837,HMMSmart_DCX,HMMPfam_DCX	-	no_errors
KCNQ2	3785	genome.wustl.edu	36	20	61515246	61515246	+	Splice_Site	SNP	C	C	T			TCGA-AB-3002-03A-01D-0739-09	TCGA-AB-3002-11A-01D-0739-09					C	C	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	20	61515246	61515246	C	T	SNP	KCNQ2	NM_172107.4	human	genbank	54_36p	-1	reviewed	splice_site	c.1763+1	e15+1	1.000	-	-	-	no_errors
TMEM132C	92293	genome.wustl.edu	36	12	127744443	127744443	+	Nonsense_Mutation	SNP	G	G	A			TCGA-AB-3002-03A-01D-0739-09	TCGA-AB-3002-11A-01D-0739-09					G	G	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	12	127744443	127744443	G	A	SNP	TMEM132C	ENST00000315208	human	ensembl	54_36p	+1	known	nonsense	c.414	p.W138*	1.000	NULL	NULL	-	no_errors
CNTLN	54875	genome.wustl.edu	36	9	17216283	17216283	+	Nonsense_Mutation	SNP	C	C	T			TCGA-AB-3002-03A-01D-0739-09	TCGA-AB-3002-11A-01D-0739-09					C	C	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	9	17216283	17216283	C	T	SNP	CNTLN	NM_017738.1	human	genbank	54_36p	+1	validated	nonsense	c.532	p.Q178*	1.000	superfamily_Prefoldin	superfamily_Prefoldin	-	no_errors
DDX1	1653	genome.wustl.edu	36	2	15674817	15674817	+	Splice_Site	SNP	A	A	G			TCGA-AB-3002-03A-01D-0739-09	TCGA-AB-3002-11A-01D-0739-09					A	A	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	2	15674817	15674817	A	G	SNP	DDX1	NM_004939.1	human	genbank	54_36p	+1	reviewed	splice_site	c.1018-2	e15-2	0.994	-	-	-	no_errors
PCDHA13	56136	genome.wustl.edu	36	5	140243210	140243210	+	Silent	SNP	G	G	A			TCGA-AB-3002-03A-01D-0739-09	TCGA-AB-3002-11A-01D-0739-09					G	G	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	5	140243210	140243210	G	A	SNP	PCDHA13	NM_018904.2	human	genbank	54_36p	+1	reviewed	silent	c.1173	p.P391	0.000	superfamily_Cadherin-like,HMMPfam_Cadherin,HMMSmart_SM00112	superfamily_Cadherin-like,HMMPfam_Cadherin_2,HMMSmart_SM00112,PatternScan_CADHERIN_1,HMMPfam_Cadherin	-	no_errors
RBMX	27316	genome.wustl.edu	36	X	135789240	135789240	+	Missense_Mutation	SNP	C	C	A			TCGA-AB-3002-03A-01D-0739-09	TCGA-AB-3002-11A-01D-0739-09					C	C	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	X	135789240	135789240	C	A	SNP	RBMX	NM_002139.2	human	genbank	54_36p	-1	reviewed	missense	c.13	p.D5Y	1.000	NULL	HMMSmart_SM00360,HMMSmart_SM00361,superfamily_RNA-binding domain RBD,HMMPfam_RRM_1,HMMPfam_RBM1CTR	-	no_errors
