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	
CCDC34	91057	genome.wustl.edu	37	11	27384449	27384466	+	In_Frame_Del	DEL	TCATCCACGTCTTCCTCA	TCATCCACGTCTTCCTCA	-	novel	unknown	TCGA-A2-A0YI-01A-31D-A10M-09	TCGA-A2-A0YI-10A-01D-A10M-09	TCATCCACGTCTTCCTCA	TCATCCACGTCTTCCTCA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	11	27384449	27384466	TCATCCACGTCTTCCTCA	-	DEL	CCDC34	NM_030771	human	genbank	57_37b	-1	validated	in_frame_del	c.293_276	p.DEEDVD92in_frame_del	0.006:0.005:0.003:0.005:0.006:0.002:0.000:0.000:0.000:0.001:0.003:0.000:0.001:0.005:0.003:0.002:0.002:0.002	NULL	NULL	(deletion:cds_exon[27384383,27384741])	no_errors	
CDK5RAP2	55755	genome.wustl.edu	37	9	123210362	123210362	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-A2-A0YI-01A-31D-A10M-09	TCGA-A2-A0YI-10A-01D-A10M-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	9	123210362	123210362	G	A	SNP	CDK5RAP2	NM_018249	human	genbank	57_37b	-1	reviewed	missense	c.2836	p.R946W	0.008	NULL	HMMPfam_Microtub_assoc	-	no_errors	
CLIP1	6249	genome.wustl.edu	37	12	122826098	122826098	+	Missense_Mutation	SNP	C	C	G	novel	unknown	TCGA-A2-A0YI-01A-31D-A10M-09	TCGA-A2-A0YI-10A-01D-A10M-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	12	122826098	122826098	C	G	SNP	CLIP1	NM_002956	human	genbank	57_37b	-1	validated	missense	c.1620	p.E540D	1.000	NULL	superfamily_Cap-Gly domain,HMMPfam_CAP_GLY,PatternScan_CAP_GLY_1	-	no_errors	
ENSG00000247905	0	genome.wustl.edu	37	17	36829498	36829498	+	RNA	SNP	A	A	C	novel	unknown	TCGA-A2-A0YI-01A-31D-A10M-09	TCGA-A2-A0YI-10A-01D-A10M-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	17	36829498	36829498	A	C	SNP	ENSG00000247905	ENST00000502030	human	ensembl	57_37b	+1	known	rna	NULL	NULL	0.022	-	-	-	no_errors	
HLA-DQB2	3120	genome.wustl.edu	37	6	32731313	32731313	+	RNA	SNP	T	A	A	rs115736414	byCluster;by1000genomes	TCGA-A2-A0YI-01A-31D-A10M-09	TCGA-A2-A0YI-10A-01D-A10M-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	32731313	32731313	T	A	SNP	HLA-DQB2	NR_003937	human	genbank	57_37b	-1	provisional	rna	NULL	NULL	0.006	-	-	-		
LOC100290691	0	genome.wustl.edu	37	19	1098247	1098247	+	Missense_Mutation	SNP	A	A	G	rs11084883	byCluster;byFrequency;by2Hit2Allele;byHapMap;by1000genomes	TCGA-A2-A0YI-01A-31D-A10M-09	TCGA-A2-A0YI-10A-01D-A10M-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	19	1098247	1098247	A	G	SNP	LOC100290691	XM_002347893	human	genbank	57_37b	-1	model	missense	c.455	p.L152S	0.590	PatternScan_CARBOXYPEPT_ZN_2	PatternScan_CARBOXYPEPT_ZN_2	-		
MAP2K5	5607	genome.wustl.edu	37	15	67873162	67873162	+	Splice_Site	SNP	G	G	C	novel	unknown	TCGA-A2-A0YI-01A-31D-A10M-09	TCGA-A2-A0YI-10A-01D-A10M-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	15	67873162	67873162	G	C	SNP	MAP2K5	NM_145160	human	genbank	57_37b	+1	reviewed	splice_site	c.322+1	e4+1	1.000	-	-	-	no_errors	
MEFV	4210	genome.wustl.edu	37	16	3306365	3306365	+	Silent	SNP	G	G	T	novel	unknown	TCGA-A2-A0YI-01A-31D-A10M-09	TCGA-A2-A0YI-10A-01D-A10M-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	16	3306365	3306365	G	T	SNP	MEFV	NM_000243	human	genbank	57_37b	-1	reviewed	silent	c.223	p.R75	0.351	superfamily_DEATH domain,HMMPfam_PAAD_DAPIN	superfamily_DEATH domain,HMMPfam_PAAD_DAPIN,HMMPfam_zf-B_box,HMMSmart_SM00336,superfamily_B-box zinc-binding domain,HMMSmart_SM00589,HMMPfam_SPRY,HMMSmart_SM00449	-	no_errors	
PIK3CA	5290	genome.wustl.edu	37	3	178921553	178921553	+	Missense_Mutation	SNP	T	T	A	novel	unknown	TCGA-A2-A0YI-01A-31D-A10M-09	TCGA-A2-A0YI-10A-01D-A10M-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3	178921553	178921553	T	A	SNP	PIK3CA	NM_006218	human	genbank	57_37b	+1	reviewed	missense	c.1035	p.N345K	1.000	HMMSmart_PI3K_C2,superfamily_C2_CaLB,HMMSmart_C2	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	
RASGEF1C	255426	genome.wustl.edu	37	5	179564989	179564989	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-A2-A0YI-01A-31D-A10M-09	TCGA-A2-A0YI-10A-01D-A10M-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	5	179564989	179564989	C	T	SNP	RASGEF1C	NM_175062	human	genbank	57_37b	-1	validated	missense	c.64	p.E22K	0.454	NULL	superfamily_Ras GEF,HMMPfam_RasGEF_N,HMMSmart_SM00147,HMMPfam_RasGEF,PatternScan_RASGEF	-	no_errors	
SCN9A	6335	genome.wustl.edu	37	2	167099093	167099093	+	Silent	SNP	C	C	T	novel	unknown	TCGA-A2-A0YI-01A-31D-A10M-09	TCGA-A2-A0YI-10A-01D-A10M-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	2	167099093	167099093	C	T	SNP	SCN9A	NM_002977	human	genbank	57_37b	-1	reviewed	silent	c.3513	p.R1171	0.995	HMMPfam_Na_trans_assoc,superfamily_Voltage-gated potassium channels	superfamily_Voltage-gated potassium channels,HMMPfam_Ion_trans,HMMPfam_Na_trans_assoc,HMMSmart_SM00015,HMMPfam_IQ	-	no_errors	
SIPA1L3	23094	genome.wustl.edu	37	19	38655323	38655323	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-A2-A0YI-01A-31D-A10M-09	TCGA-A2-A0YI-10A-01D-A10M-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	19	38655323	38655323	C	T	SNP	SIPA1L3	NM_015073	human	genbank	57_37b	+1	validated	missense	c.3985	p.P1329S	0.016	NULL	superfamily_SSF111347,HMMPfam_Rap_GAP,superfamily_PDZ,HMMPfam_PDZ,HMMSmart_PDZ	-	no_errors	
SPEN	23013	genome.wustl.edu	37	1	16258660	16258661	+	Frame_Shift_Del	DEL	CA	CA	-	novel	unknown	TCGA-A2-A0YI-01A-31D-A10M-09	TCGA-A2-A0YI-10A-01D-A10M-09	CA	CA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	16258660	16258661	CA	-	DEL	SPEN	NM_015001	human	genbank	57_37b	+1	reviewed	frame_shift_del	c.5925_5926	p.K1976fs	0.124:0.296	NULL	superfamily_SSF54928,HMMSmart_RRM,HMMPfam_RRM_1,superfamily_SPOC-like,HMMPfam_SPOC	(deletion:cds_exon[16254586,16262761])	no_errors	
THSD7A	221981	genome.wustl.edu	37	7	11509516	11509516	+	Silent	SNP	C	C	T	novel	unknown	TCGA-A2-A0YI-01A-31D-A10M-09	TCGA-A2-A0YI-10A-01D-A10M-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	7	11509516	11509516	C	T	SNP	THSD7A	NM_015204	human	genbank	57_37b	-1	validated	silent	c.2358	p.S786	0.006	superfamily_TSP-1 type 1 repeat,HMMSmart_SM00209,HMMPfam_TSP_1	superfamily_TSP-1 type 1 repeat,HMMSmart_SM00209,HMMPfam_TSP_1	-	no_errors	
TRPC5	7224	genome.wustl.edu	37	X	111155993	111155993	+	Missense_Mutation	SNP	G	G	T	novel	unknown	TCGA-A2-A0YI-01A-31D-A10M-09	TCGA-A2-A0YI-10A-01D-A10M-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	X	111155993	111155993	G	T	SNP	TRPC5	NM_012471	human	genbank	57_37b	-1	validated	missense	c.426	p.D142E	1.000	superfamily_Ankyrin repeat,HMMPfam_Ank,HMMSmart_SM00248	superfamily_Ankyrin repeat,HMMPfam_Ank,HMMSmart_SM00248,HMMPfam_TRP_2,HMMPfam_Ion_trans,PatternScan_RIBOSOMAL_S2_1	-	no_errors	
ZNFX1	57169	genome.wustl.edu	37	20	47881273	47881273	+	Missense_Mutation	SNP	G	G	T	novel	unknown	TCGA-A2-A0YI-01A-31D-A10M-09	TCGA-A2-A0YI-10A-01D-A10M-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	20	47881273	47881273	G	T	SNP	ZNFX1	NM_021035	human	genbank	57_37b	-1	validated	missense	c.2131	p.L711I	1.000	superfamily_P-loop containing nucleoside triphosphate hydrolases	superfamily_P-loop containing nucleoside triphosphate hydrolases,HMMPfam_zf-NF-X1,HMMSmart_SM00438	-	no_errors	
