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	
AMAC1	146861	genome.wustl.edu	37	17	33520540	33520540	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-BH-A0W5-01	TCGA-BH-A0W5-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	17	33520540	33520540	C	T	SNP	AMAC1	NM_152462	human	genbank	57_37b	-1	validated	missense	c.787	p.A263T	1.000	superfamily_Multidrug resistance efflux transporter EmrE	HMMPfam_DUF6,superfamily_Multidrug resistance efflux transporter EmrE	-	no_errors	
ANO4	121601	genome.wustl.edu	37	12	101505394	101505394	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-BH-A0W5-01	TCGA-BH-A0W5-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	12	101505394	101505394	G	A	SNP	ANO4	NM_178826	human	genbank	57_37b	+1	validated	missense	c.2251	p.A751T	1.000	HMMPfam_DUF590	HMMPfam_DUF590	-	no_errors	
APLNR	187	genome.wustl.edu	37	11	57003835	57003835	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-BH-A0W5-01	TCGA-BH-A0W5-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	11	57003835	57003835	G	A	SNP	APLNR	NM_005161	human	genbank	57_37b	-1	reviewed	missense	c.644	p.T215I	0.106	superfamily_SSF81321,HMMPfam_7tm_1	superfamily_SSF81321,HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1	-	no_errors	
CHAF1A	10036	genome.wustl.edu	37	19	4429539	4429539	+	Missense_Mutation	SNP	A	A	G	novel	unknown	TCGA-BH-A0W5-01	TCGA-BH-A0W5-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	19	4429539	4429539	A	G	SNP	CHAF1A	NM_005483	human	genbank	57_37b	+1	validated	missense	c.1709	p.Y570C	1.000	NULL	NULL	-	no_errors	
CTCF	10664	genome.wustl.edu	37	16	67645923	67645923	+	Missense_Mutation	SNP	A	A	C	novel	unknown	TCGA-BH-A0W5-01	TCGA-BH-A0W5-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	16	67645923	67645923	A	C	SNP	CTCF	NM_006565	human	genbank	57_37b	+1	reviewed	missense	c.851	p.H284P	1.000	HMMPfam_zf-C2H2,HMMSmart_SM00355,PatternScan_ZINC_FINGER_C2H2_1,superfamily_C2H2 and C2HC zinc fingers	HMMPfam_zf-C2H2,HMMSmart_SM00355,PatternScan_ZINC_FINGER_C2H2_1,superfamily_C2H2 and C2HC zinc fingers	-	no_errors	
ELF4	2000	genome.wustl.edu	37	X	129206310	129206310	+	Silent	SNP	G	G	A	novel	unknown	TCGA-BH-A0W5-01	TCGA-BH-A0W5-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	X	129206310	129206310	G	A	SNP	ELF4	NM_001127197	human	genbank	57_37b	-1	reviewed	silent	c.423	p.P141	0.000	NULL	superfamily_SSF46785,HMMPfam_Ets,HMMSmart_ETS,PatternScan_ETS_DOMAIN_1,PatternScan_ETS_DOMAIN_2	-	no_errors	
GIF	2694	genome.wustl.edu	37	11	59603364	59603364	+	Silent	SNP	G	G	A	rs2867802	byCluster;byFrequency;by1000genomes	TCGA-BH-A0W5-01	TCGA-BH-A0W5-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	11	59603364	59603364	G	A	SNP	GIF	NM_005142	human	genbank	57_37b	-1	reviewed	silent	c.990	p.N330	0.310	NULL	HMMPfam_Cobalamin_bind,PatternScan_COBALAMIN_BINDING	-		
HNF1A	6927	genome.wustl.edu	37	12	121431482	121431482	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-BH-A0W5-01	TCGA-BH-A0W5-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	12	121431482	121431482	G	A	SNP	HNF1A	NM_000545	human	genbank	57_37b	+1	reviewed	missense	c.686	p.R229Q	1.000	superfamily_Homeodomain-like,HMMSmart_SM00389,HMMPfam_Homeobox	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	-	no_errors	
KIFC3	3801	genome.wustl.edu	37	16	57794309	57794311	+	In_Frame_Del	DEL	TTC	TTC	-	novel	unknown	TCGA-BH-A0W5-01	TCGA-BH-A0W5-01	TTC	TTC					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	16	57794309	57794311	TTC	-	DEL	KIFC3	NM_005550	human	genbank	57_37b	-1	validated	in_frame_del	c.2252_2250	p.K750in_frame_del	1.000:1.000:1.000	superfamily_P-loop containing nucleoside triphosphate hydrolases,HMMSmart_SM00129,HMMPfam_Kinesin	superfamily_P-loop containing nucleoside triphosphate hydrolases,HMMSmart_SM00129,HMMPfam_Kinesin,PatternScan_KINESIN_MOTOR_DOMAIN1	(deletion:cds_exon[57794194,57794328])	no_errors	
LARP6	55323	genome.wustl.edu	37	15	71125333	71125333	+	Silent	SNP	G	G	A	novel	unknown	TCGA-BH-A0W5-01	TCGA-BH-A0W5-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	15	71125333	71125333	G	A	SNP	LARP6	NM_018357	human	genbank	57_37b	-1	validated	silent	c.534	p.N178	0.179	NULL	superfamily_SSF46785,HMMSmart_LA,HMMPfam_La	-	no_errors	
MAGEB4	4115	genome.wustl.edu	37	X	30261121	30261121	+	Missense_Mutation	SNP	C	C	A	novel	unknown	TCGA-BH-A0W5-01	TCGA-BH-A0W5-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	X	30261121	30261121	C	A	SNP	MAGEB4	NM_002367	human	genbank	57_37b	+1	reviewed	missense	c.869	p.A290D	0.001	NULL	HMMPfam_MAGE	-	no_errors	
MAP3K1	4214	genome.wustl.edu	37	5	56177500	56177500	+	Nonsense_Mutation	SNP	A	A	T	novel	unknown	TCGA-BH-A0W5-01	TCGA-BH-A0W5-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	5	56177500	56177500	A	T	SNP	MAP3K1	NM_005921	human	genbank	57_37b	+1	validated	nonsense	c.2473	p.R825*	0.995	NULL	PatternScan_ZF_RING_1,HMMPfam_SWIM,superfamily_SSF57850,HMMSmart_RING,superfamily_Kinase_like,HMMSmart_S_TKc,HMMPfam_Pkinase,PatternScan_PROTEIN_KINASE_ATP,PatternScan_PROTEIN_KINASE_ST	-	no_errors	
MAP3K1	4214	genome.wustl.edu	37	5	56178253	56178253	+	Frame_Shift_Del	DEL	C	C	-	novel	unknown	TCGA-BH-A0W5-01	TCGA-BH-A0W5-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	5	56178253	56178253	C	-	DEL	MAP3K1	NM_005921	human	genbank	57_37b	+1	validated	frame_shift_del	c.3226	p.S1077fs	0.211	NULL	PatternScan_ZF_RING_1,HMMPfam_SWIM,superfamily_SSF57850,HMMSmart_RING,superfamily_Kinase_like,HMMSmart_S_TKc,HMMPfam_Pkinase,PatternScan_PROTEIN_KINASE_ATP,PatternScan_PROTEIN_KINASE_ST	(deletion:cds_exon[56177397,56178693])	no_errors	
MMACHC	25974	genome.wustl.edu	37	1	45966053	45966053	+	Missense_Mutation	SNP	T	T	C	novel	unknown	TCGA-BH-A0W5-01	TCGA-BH-A0W5-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	45966053	45966053	T	C	SNP	MMACHC	NM_015506	human	genbank	57_37b	+1	reviewed	missense	c.49	p.C17R	0.998	NULL	NULL	-	no_errors	
MUC17	140453	genome.wustl.edu	37	7	100677967	100677967	+	Missense_Mutation	SNP	C	C	G	novel	unknown	TCGA-BH-A0W5-01	TCGA-BH-A0W5-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	7	100677967	100677967	C	G	SNP	MUC17	NM_001040105	human	genbank	57_37b	+1	provisional	missense	c.3270	p.S1090R	0.019	NULL	superfamily_EGF/Laminin,PatternScan_EGF_1,superfamily_SEA domain,HMMSmart_SM00200,HMMPfam_SEA	-	no_errors	
NKAPL	222698	genome.wustl.edu	37	6	28227597	28227597	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-BH-A0W5-01	TCGA-BH-A0W5-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	28227597	28227597	G	A	SNP	NKAPL	NM_001007531	human	genbank	57_37b	+1	provisional	missense	c.448	p.E150K	1.000	NULL	HMMPfam_DUF926	-	no_errors	
PIK3CA	0	genome.wustl.edu	37	3	178952085	178952085	+	Missense_Mutation	SNP	A	A	G			TCGA-BH-A0W5-01	TCGA-BH-A0W5-01	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	
PPARGC1B	133522	genome.wustl.edu	37	5	149216402	149216402	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-BH-A0W5-01	TCGA-BH-A0W5-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	5	149216402	149216402	G	A	SNP	PPARGC1B	NM_133263	human	genbank	57_37b	+1	reviewed	missense	c.2384	p.S795N	1.000	NULL	superfamily_RNA-binding domain RBD,HMMSmart_SM00360,HMMPfam_RRM_1	-	no_errors	
PTPN5	84867	genome.wustl.edu	37	11	18764029	18764029	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-BH-A0W5-01	TCGA-BH-A0W5-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	11	18764029	18764029	G	A	SNP	PTPN5	NM_006906	human	genbank	57_37b	-1	validated	missense	c.505	p.P169S	0.267	NULL	superfamily_(Phosphotyrosine protein) phosphatases II,HMMSmart_SM00194,HMMPfam_Y_phosphatase,HMMSmart_SM00404,PatternScan_TYR_PHOSPHATASE_1	-	no_errors	
RPL10A	4736	genome.wustl.edu	37	6	35436736	35436736	+	Silent	SNP	G	G	A	novel	unknown	TCGA-BH-A0W5-01	TCGA-BH-A0W5-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	35436736	35436736	G	A	SNP	RPL10A	NM_007104	human	genbank	57_37b	+1	reviewed	silent	c.93	p.T31	0.961	superfamily_Ribosomal protein L1,HMMPfam_Ribosomal_L1	superfamily_Ribosomal protein L1,HMMPfam_Ribosomal_L1,PatternScan_RIBOSOMAL_L1	-	no_errors	
RTN4RL2	349667	genome.wustl.edu	37	11	57235426	57235426	+	Missense_Mutation	SNP	A	A	C	novel	unknown	TCGA-BH-A0W5-01	TCGA-BH-A0W5-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	11	57235426	57235426	A	C	SNP	RTN4RL2	NM_178570	human	genbank	57_37b	+1	provisional	missense	c.376	p.T126P	1.000	superfamily_SSF52058,HMMPfam_LRR_1	superfamily_SSF52058,HMMSmart_LRRNT,HMMPfam_LRR_1,HMMSmart_LRR_TYP,HMMSmart_LRRCT	-	no_errors	
SCN9A	6335	genome.wustl.edu	37	2	167159635	167159635	+	Missense_Mutation	SNP	A	A	G	novel	unknown	TCGA-BH-A0W5-01	TCGA-BH-A0W5-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	2	167159635	167159635	A	G	SNP	SCN9A	NM_002977	human	genbank	57_37b	-1	reviewed	missense	c.866	p.I289T	0.002	superfamily_Voltage-gated potassium channels,HMMPfam_Ion_trans	superfamily_Voltage-gated potassium channels,HMMPfam_Ion_trans,HMMPfam_Na_trans_assoc,HMMSmart_SM00015,HMMPfam_IQ	-	no_errors	
SLITRK3	22865	genome.wustl.edu	37	3	164908518	164908518	+	Missense_Mutation	SNP	A	A	G	novel	unknown	TCGA-BH-A0W5-01	TCGA-BH-A0W5-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3	164908518	164908518	A	G	SNP	SLITRK3	NM_014926	human	genbank	57_37b	-1	validated	missense	c.101	p.I34T	1.000	NULL	superfamily_SSF52058,HMMSmart_LRR_TYP,HMMSmart_LRRCT,HMMSmart_LRRNT,HMMPfam_LRR_1	-	no_errors	
SSNA1	8636	genome.wustl.edu	37	9	140083619	140083619	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-BH-A0W5-01	TCGA-BH-A0W5-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	9	140083619	140083619	G	A	SNP	SSNA1	NM_003731	human	genbank	57_37b	+1	validated	missense	c.154	p.E52K	0.998	NULL	NULL	-	no_errors	
STK19	8859	genome.wustl.edu	37	6	31939963	31939963	+	Missense_Mutation	SNP	C	C	G	novel	unknown	TCGA-BH-A0W5-01	TCGA-BH-A0W5-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	31939963	31939963	C	G	SNP	STK19	NM_032454	human	genbank	57_37b	+1	reviewed	missense	c.190	p.R64G	0.000	NULL	HMMPfam_Stk19	-	no_errors	
TRIP11	9321	genome.wustl.edu	37	14	92505990	92505990	+	Missense_Mutation	SNP	G	G	C	novel	unknown	TCGA-BH-A0W5-01	TCGA-BH-A0W5-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	14	92505990	92505990	G	C	SNP	TRIP11	NM_004239	human	genbank	57_37b	-1	reviewed	missense	c.40	p.Q14E	1.000	NULL	NULL	-	no_errors	
ZP4	57829	genome.wustl.edu	37	1	238053448	238053448	+	Missense_Mutation	SNP	C	C	A	novel	unknown	TCGA-BH-A0W5-01	TCGA-BH-A0W5-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	238053448	238053448	C	A	SNP	ZP4	NM_021186	human	genbank	57_37b	-1	reviewed	missense	c.204	p.Q68H	0.046	NULL	superfamily_Trefoil,HMMSmart_SM00018,HMMPfam_Trefoil,PatternScan_P_TREFOIL,HMMPfam_Zona_pellucida,HMMSmart_SM00241,PatternScan_ZP_1	-	no_errors	
