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	annotation_errors_WU	
ASB16	92591	genome.wustl.edu	37	17	42254281	42254281	+	Missense_Mutation	SNP	A	A	G	rs7212573	byCluster;byHapMap;by1000genomes	TCGA-AR-A1AW-01	TCGA-AR-A1AW-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	17	42254281	42254281	A	G	SNP	ASB16	NM_080863	human	genbank	57_37b	+1	reviewed	missense	c.745	p.T249A	0.996	superfamily_Ankyrin repeat,HMMSmart_SM00248,HMMPfam_Ank	superfamily_Ankyrin repeat,HMMSmart_SM00248,HMMPfam_Ank,HMMPfam_SOCS_box	-		
BCMO1	53630	genome.wustl.edu	37	16	81303769	81303769	+	Nonsense_Mutation	SNP	T	T	A	novel	unknown	TCGA-AR-A1AW-01	TCGA-AR-A1AW-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	16	81303769	81303769	T	A	SNP	BCMO1	NM_017429	human	genbank	57_37b	+1	reviewed	nonsense	c.849	p.Y283*	0.965	HMMPfam_RPE65	HMMPfam_RPE65	-	no_errors	
BRPF1	7862	genome.wustl.edu	37	3	9783065	9783065	+	Missense_Mutation	SNP	A	A	C	novel	unknown	TCGA-AR-A1AW-01	TCGA-AR-A1AW-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3	9783065	9783065	A	C	SNP	BRPF1	NM_001003694	human	genbank	57_37b	+1	reviewed	missense	c.1796	p.E599A	1.000	NULL	HMMSmart_ZnF_C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMPfam_EPL1,superfamily_FYVE_PHD_ZnF,HMMSmart_PHD,HMMPfam_PHD,PatternScan_ZF_PHD_1,superfamily_Bromodomain,HMMSmart_BROMO,HMMPfam_Bromodomain,superfamily_SSF63748,HMMPfam_PWWP,HMMSmart_PWWP	-	no_errors	
CARD9	64170	genome.wustl.edu	37	9	139265870	139265870	+	Silent	SNP	G	A	A	rs11145769	byCluster;byFrequency;by1000genomes	TCGA-AR-A1AW-01	TCGA-AR-A1AW-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	9	139265870	139265870	G	A	SNP	CARD9	NM_052813	human	genbank	57_37b	-1	validated	silent	c.228	p.Y76	0.932	superfamily_DEATH domain,HMMPfam_CARD	superfamily_DEATH domain,HMMPfam_CARD	-		
ELOVL5	60481	genome.wustl.edu	37	6	53156612	53156612	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AR-A1AW-01	TCGA-AR-A1AW-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	53156612	53156612	G	A	SNP	ELOVL5	NM_021814	human	genbank	57_37b	-1	provisional	missense	c.208	p.L70F	1.000	HMMPfam_ELO	PatternScan_ELO,HMMPfam_ELO	-	no_errors	
ENSG00000214311	0	genome.wustl.edu	37	3	129821650	129821650	+	Silent	SNP	G	G	A	rs56088005	byCluster;by1000genomes	TCGA-AR-A1AW-01	TCGA-AR-A1AW-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3	129821650	129821650	G	A	SNP	ENSG00000214311	ENST00000304751	human	ensembl	57_37b	-1	known	silent	c.852	p.T284	0.945	superfamily_S-adenosyl-L-methionine-dependent methyltransferases,HMMPfam_Methyltransf_16	superfamily_S-adenosyl-L-methionine-dependent methyltransferases,HMMPfam_Methyltransf_16	-		
ENSG00000238643	0	genome.wustl.edu	37	GL000229.1	17347	17347	+	RNA	SNP	G	G	A	novel	unknown	TCGA-AR-A1AW-01	TCGA-AR-A1AW-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	GL000229.1	17347	17347	G	A	SNP	ENSG00000238643	ENST00000459109	human	ensembl	57_37b	+1	novel	rna	NULL	NULL	NULL	-	-	-	no_errors	
ENSG00000246407	0	genome.wustl.edu	37	12	8384821	8384821	+	RNA	SNP	C	C	T	rs11044162	byCluster;byFrequency	TCGA-AR-A1AW-01	TCGA-AR-A1AW-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	12	8384821	8384821	C	T	SNP	ENSG00000246407	ENST00000499592	human	ensembl	57_37b	-1	known	rna	NULL	NULL	0.034	-	-	-		
ENSG00000246452	0	genome.wustl.edu	37	X	100871711	100871711	+	RNA	SNP	C	C	G	novel	unknown	TCGA-AR-A1AW-01	TCGA-AR-A1AW-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	X	100871711	100871711	C	G	SNP	ENSG00000246452	ENST00000499482	human	ensembl	57_37b	+1	known	rna	NULL	NULL	0.000	-	-	-	no_errors	
FLJ36000	0	genome.wustl.edu	37	17	21904121	21904121	+	RNA	SNP	G	G	A	rs2137464	byCluster;byFrequency;by2Hit2Allele	TCGA-AR-A1AW-01	TCGA-AR-A1AW-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	17	21904121	21904121	G	A	SNP	FLJ36000	NR_027084	human	genbank	57_37b	+1	predicted	rna	NULL	NULL	0.029	-	-	-		
GNAS	2778	genome.wustl.edu	37	20	57485019	57485019	+	Missense_Mutation	SNP	A	A	G	novel	unknown	TCGA-AR-A1AW-01	TCGA-AR-A1AW-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	20	57485019	57485019	A	G	SNP	GNAS	NM_080425	human	genbank	57_37b	+1	reviewed	missense	c.2782	p.I928V	1.000	HMMPfam_G-alpha,HMMSmart_SM00275,superfamily_P-loop containing nucleoside triphosphate hydrolases	HMMPfam_G-alpha,HMMSmart_SM00275,superfamily_P-loop containing nucleoside triphosphate hydrolases,superfamily_Transducin (alpha subunit) insertion domain	-	no_errors	
HLA-A	3105	genome.wustl.edu	37	6	29910604	29910604	+	Silent	SNP	C	C	A	rs113699656	byCluster;by1000genomes	TCGA-AR-A1AW-01	TCGA-AR-A1AW-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	29910604	29910604	C	A	SNP	HLA-A	NM_002116	human	genbank	57_37b	+1	reviewed	silent	c.144	p.A48	0.000	HMMPfam_MHC_I,superfamily_MHC antigen-recognition domain	HMMPfam_MHC_I,superfamily_MHC antigen-recognition domain,HMMPfam_C1-set,superfamily_Immunoglobulin,HMMSmart_SM00407,PatternScan_IG_MHC,HMMPfam_MHC_I_C	-		
HLA-A	3105	genome.wustl.edu	37	6	29910730	29910730	+	Missense_Mutation	SNP	T	T	A	rs112599652	byCluster;by1000genomes	TCGA-AR-A1AW-01	TCGA-AR-A1AW-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	29910730	29910730	T	A	SNP	HLA-A	NM_002116	human	genbank	57_37b	+1	reviewed	missense	c.270	p.N90K	0.000	HMMPfam_MHC_I,superfamily_MHC antigen-recognition domain	HMMPfam_MHC_I,PatternScan_IG_MHC,HMMPfam_C1-set,HMMSmart_SM00407,HMMPfam_MHC_I_C,superfamily_MHC antigen-recognition domain,superfamily_Immunoglobulin	-		
HLA-A	3105	genome.wustl.edu	37	6	29910752	29910752	+	Missense_Mutation	SNP	G	G	C	rs75646802	unknown	TCGA-AR-A1AW-01	TCGA-AR-A1AW-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	29910752	29910752	G	C	SNP	HLA-A	NM_002116	human	genbank	57_37b	+1	reviewed	missense	c.292	p.D98H	0.000	HMMPfam_MHC_I,superfamily_MHC antigen-recognition domain	HMMPfam_MHC_I,PatternScan_IG_MHC,HMMPfam_C1-set,HMMSmart_SM00407,HMMPfam_MHC_I_C,superfamily_MHC antigen-recognition domain,superfamily_Immunoglobulin	-		
HLA-A	3105	genome.wustl.edu	37	6	29911925	29911925	+	Missense_Mutation	SNP	C	C	T	rs77235917	unknown	TCGA-AR-A1AW-01	TCGA-AR-A1AW-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	29911925	29911925	C	T	SNP	HLA-A	NM_002116	human	genbank	57_37b	+1	reviewed	missense	c.646	p.H216Y	0.050	HMMPfam_C1-set,superfamily_Immunoglobulin	HMMPfam_MHC_I,PatternScan_IG_MHC,HMMPfam_C1-set,HMMSmart_SM00407,HMMPfam_MHC_I_C,superfamily_MHC antigen-recognition domain,superfamily_Immunoglobulin	-		
HLA-C	3107	genome.wustl.edu	37	6	31239501	31239501	+	Missense_Mutation	SNP	G	G	T	rs114612783	by1000genomes	TCGA-AR-A1AW-01	TCGA-AR-A1AW-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	31239501	31239501	G	T	SNP	HLA-C	NM_002117	human	genbank	57_37b	-1	reviewed	missense	c.218	p.A73E	0.999	HMMPfam_MHC_I,superfamily_MHC antigen-recognition domain	HMMPfam_MHC_I,superfamily_MHC antigen-recognition domain,superfamily_Immunoglobulin,HMMPfam_C1-set,HMMSmart_SM00407,HMMPfam_MHC_I_C	-		
HLA-DRB6	3128	genome.wustl.edu	37	6	32521160	32521160	+	RNA	SNP	C	C	G	rs62621247	byCluster	TCGA-AR-A1AW-01	TCGA-AR-A1AW-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	32521160	32521160	C	G	SNP	HLA-DRB6	NR_001298	human	genbank	57_37b	-1	provisional	rna	NULL	NULL	0.953	-	-	-		
HNF1A	6927	genome.wustl.edu	37	12	121416622	121416622	+	Silent	SNP	C	C	G	rs1169289	byCluster;byFrequency;by2Hit2Allele;byHapMap;by1000genomes	TCGA-AR-A1AW-01	TCGA-AR-A1AW-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	12	121416622	121416622	C	G	SNP	HNF1A	NM_000545	human	genbank	57_37b	+1	reviewed	silent	c.51	p.L17	0.995	superfamily_Dimerization cofactor of HNF-1 alpha,HMMPfam_HNF-1_N	superfamily_Dimerization cofactor of HNF-1 alpha,HMMPfam_HNF-1_N,superfamily_lambda repressor-like DNA-binding domains,superfamily_Homeodomain-like,HMMSmart_SM00389,HMMPfam_Homeobox,PatternScan_HOMEOBOX_1,HMMPfam_HNF-1B_C,HMMPfam_HNF-1A_C	-		
LILRA1	11024	genome.wustl.edu	37	19	55107152	55107152	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AR-A1AW-01	TCGA-AR-A1AW-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	19	55107152	55107152	C	T	SNP	LILRA1	NM_006863	human	genbank	57_37b	+1	provisional	missense	c.710	p.A237V	0.000	superfamily_Immunoglobulin,HMMSmart_SM00409,HMMSmart_SM00408	superfamily_Immunoglobulin,HMMSmart_SM00409,HMMSmart_SM00408,HMMPfam_ig	-	no_errors	
LOC100291370	0	genome.wustl.edu	37	16	3108713	3108713	+	Missense_Mutation	SNP	G	G	C	rs79530442	byCluster;byFrequency;by1000genomes	TCGA-AR-A1AW-01	TCGA-AR-A1AW-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	16	3108713	3108713	G	C	SNP	LOC100291370	XM_002347596	human	genbank	57_37b	-1	model	missense	c.695	p.P232R	0.000	NULL	NULL	-		
LOC642943	0	genome.wustl.edu	37	9	95647974	95647974	+	RNA	SNP	G	G	C	rs2281715	byCluster;by2Hit2Allele;byHapMap;by1000genomes	TCGA-AR-A1AW-01	TCGA-AR-A1AW-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	9	95647974	95647974	G	C	SNP	LOC642943	XR_039168	human	genbank	57_37b	+1	model	rna	NULL	NULL	0.051	-	-	-		
MAGEA11	4110	genome.wustl.edu	37	X	148798316	148798316	+	Silent	SNP	C	C	G	novel	unknown	TCGA-AR-A1AW-01	TCGA-AR-A1AW-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	X	148798316	148798316	C	G	SNP	MAGEA11	NM_005366	human	genbank	57_37b	+1	reviewed	silent	c.1170	p.A390	0.116	HMMPfam_MAGE	HMMPfam_MAGE	-	no_errors	
MPZL1	9019	genome.wustl.edu	37	1	167741689	167741689	+	Nonsense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AR-A1AW-01	TCGA-AR-A1AW-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	167741689	167741689	C	T	SNP	MPZL1	NM_003953	human	genbank	57_37b	+1	validated	nonsense	c.436	p.Q146*	0.446	HMMPfam_V-set,superfamily_Immunoglobulin,HMMSmart_SM00409	HMMPfam_V-set,superfamily_Immunoglobulin,HMMSmart_SM00409,HMMSmart_SM00406	-	no_errors	
MUC16	94025	genome.wustl.edu	37	19	9007506	9007506	+	Silent	SNP	G	G	A	novel	unknown	TCGA-AR-A1AW-01	TCGA-AR-A1AW-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	19	9007506	9007506	G	A	SNP	MUC16	NM_024690	human	genbank	57_37b	-1	validated	silent	c.39462	p.S13154	0.000	NULL	PatternScan_ATPASE_ALPHA_BETA,superfamily_SEA domain,HMMSmart_SM00200,HMMPfam_SEA	-	no_errors	
NF1	4763	genome.wustl.edu	37	17	29586058	29586058	+	Missense_Mutation	SNP	G	G	C	novel	unknown	TCGA-AR-A1AW-01	TCGA-AR-A1AW-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	17	29586058	29586058	G	C	SNP	NF1	NM_001042492	human	genbank	57_37b	+1	reviewed	missense	c.4341	p.Q1447H	1.000	HMMSmart_SM00323,superfamily_GTPase activation domain GAP,HMMPfam_RasGAP	HMMSmart_SM00323,superfamily_GTPase activation domain GAP,HMMPfam_RasGAP,PatternScan_RAS_GTPASE_ACTIV_1,HMMSmart_SM00516	-	no_errors	
PCDH19	57526	genome.wustl.edu	37	X	99662740	99662740	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AR-A1AW-01	TCGA-AR-A1AW-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	X	99662740	99662740	G	A	SNP	PCDH19	NM_001105243	human	genbank	57_37b	-1	validated	missense	c.856	p.R286C	0.115	superfamily_Cadherin,HMMPfam_Cadherin,HMMSmart_CA	HMMPfam_Cadherin_2,superfamily_Cadherin,HMMSmart_CA,PatternScan_CADHERIN_1,HMMPfam_Cadherin	-	no_errors	
PHF6	84295	genome.wustl.edu	37	X	133559244	133559244	+	Missense_Mutation	SNP	A	A	T	novel	unknown	TCGA-AR-A1AW-01	TCGA-AR-A1AW-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	X	133559244	133559244	A	T	SNP	PHF6	NM_001015877	human	genbank	57_37b	+1	reviewed	missense	c.982	p.N328Y	1.000	HMMSmart_SM00249	HMMSmart_SM00249,superfamily_FYVE/PHD zinc finger	-	no_errors	
PIK3CA	0	genome.wustl.edu	37	3	178952085	178952085	+	Missense_Mutation	SNP	A	A	G			TCGA-AR-A1AW-01	TCGA-AR-A1AW-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3	178952085	178952085	A	G	SNP	PIK3CA	NM_006218.2	human	genbank	58_37c	+1	reviewed	missense	c.3140	p.H1047R	1.000	superfamily_Kinase_like,HMMSmart_PI3Kc	HMMPfam_PI3K_p85B,HMMSmart_PI3K_p85B,superfamily_SSF54236,HMMPfam_PI3K_rbd,HMMSmart_PI3K_rbd,HMMSmart_PI3K_C2,superfamily_C2_CaLB,HMMSmart_C2,HMMPfam_PI3K_C2,superfamily_ARM-type_fold,HMMSmart_PI3Ka,HMMPfam_PI3Ka,superfamily_Kinase_like,HMMPfam_PI3_PI4_kinase,HMMSmart_PI3Kc,PatternScan_PI3_4_KINASE_1,PatternScan_PI3_4_KINASE_2	-	no_errors	
RASAL2	9462	genome.wustl.edu	37	1	178411925	178411925	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AR-A1AW-01	TCGA-AR-A1AW-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	178411925	178411925	G	A	SNP	RASAL2	NM_170692	human	genbank	57_37b	+1	reviewed	missense	c.989	p.R330H	1.000	superfamily_C2_CaLB,HMMSmart_C2,HMMPfam_C2	HMMSmart_PH,superfamily_SSF50729,superfamily_C2_CaLB,HMMSmart_C2,HMMPfam_C2,HMMSmart_RasGAP,superfamily_Rho_GAP,HMMPfam_RasGAP,PatternScan_RAS_GTPASE_ACTIV_1	-	no_errors	
SOCS4	122809	genome.wustl.edu	37	14	55510028	55510028	+	Missense_Mutation	SNP	C	C	A	novel	unknown	TCGA-AR-A1AW-01	TCGA-AR-A1AW-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	14	55510028	55510028	C	A	SNP	SOCS4	NM_080867	human	genbank	57_37b	+1	reviewed	missense	c.269	p.S90Y	1.000	NULL	superfamily_SH2 domain,HMMSmart_SM00252,HMMPfam_SH2,HMMSmart_SM00253,HMMPfam_SOCS_box	-	no_errors	
SYTL4	94121	genome.wustl.edu	37	X	99936233	99936233	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AR-A1AW-01	TCGA-AR-A1AW-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	X	99936233	99936233	G	A	SNP	SYTL4	NM_001129896	human	genbank	57_37b	-1	validated	missense	c.1549	p.R517W	0.997	superfamily_C2 domain (Calcium/lipid-binding domain CaLB)	HMMPfam_RPH3A_effector,superfamily_FYVE/PHD zinc finger,superfamily_C2 domain (Calcium/lipid-binding domain CaLB),HMMSmart_SM00239,HMMPfam_C2	-	no_errors	
TP53	7157	genome.wustl.edu	37	17	7577121	7577121	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AR-A1AW-01	TCGA-AR-A1AW-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	17	7577121	7577121	G	A	SNP	TP53	NM_000546	human	genbank	57_37b	-1	reviewed	missense	c.817	p.R273C	0.830	HMMPfam_P53,superfamily_p53-like transcription factors	HMMPfam_P53_TAD,HMMPfam_P53,superfamily_p53-like transcription factors,PatternScan_P53,HMMPfam_P53_tetramer,superfamily_p53 tetramerization domain	-	no_errors	
TRANK1	9881	genome.wustl.edu	37	3	36879889	36879889	+	Missense_Mutation	SNP	C	C	A	novel	unknown	TCGA-AR-A1AW-01	TCGA-AR-A1AW-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3	36879889	36879889	C	A	SNP	TRANK1	NM_014831	human	genbank	57_37b	-1	provisional	missense	c.3709	p.A1237S	0.999	NULL	superfamily_P-loop containing nucleoside triphosphate hydrolases	-	no_errors	
