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
ATP2B1	490	genome.wustl.edu	37	12	90018057	90018057	+	Missense_Mutation	SNP	A	A	C	novel	unknown	TCGA-E2-A1B1-01A-21D-A12Q-09	TCGA-E2-A1B1-10A-01D-A12Q-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	12	90018057	90018057	A	C	SNP	ATP2B1	NM_001682	human	genbank	57_37b	-1	reviewed	missense	c.1247	p.F416C	1.000	superfamily_SSF81665,HMMPfam_E1-E2_ATPase	HMMPfam_Cation_ATPase_N,superfamily_SSF81665,HMMPfam_E1-E2_ATPase,superfamily_SSF81653,superfamily_SSF56784,HMMPfam_Hydrolase,PatternScan_ATPASE_E1_E2,superfamily_SSF81660,HMMPfam_Cation_ATPase_C	-	no_errors
C21orf33	8209	genome.wustl.edu	37	21	45553596	45553596	+	Missense_Mutation	SNP	T	T	C	rs968714	byCluster;byFrequency;by2Hit2Allele;byHapMap;by1000genomes	TCGA-E2-A1B1-01A-21D-A12Q-09	TCGA-E2-A1B1-10A-01D-A12Q-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	21	45553596	45553596	T	C	SNP	C21orf33	NM_004649	human	genbank	57_37b	+1	validated	missense	c.17	p.V6A	0.000	NULL	superfamily_Class I glutamine amidotransferase-like,HMMPfam_DJ-1_PfpI	-	
CDH11	1009	genome.wustl.edu	37	16	65016151	65016151	+	Silent	SNP	G	G	A	novel	unknown	TCGA-E2-A1B1-01A-21D-A12Q-09	TCGA-E2-A1B1-10A-01D-A12Q-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	16	65016151	65016151	G	A	SNP	CDH11	NM_001797	human	genbank	57_37b	-1	reviewed	silent	c.1053	p.N351	0.962	superfamily_Cadherin-like,HMMPfam_Cadherin,HMMSmart_SM00112	superfamily_Cadherin-like,HMMPfam_Cadherin,HMMSmart_SM00112,PatternScan_CADHERIN_1,HMMPfam_Cadherin_C	-	no_errors
CHI3L1	1116	genome.wustl.edu	37	1	203154335	203154335	+	Silent	SNP	G	G	C	novel	unknown	TCGA-E2-A1B1-01A-21D-A12Q-09	TCGA-E2-A1B1-10A-01D-A12Q-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	203154335	203154335	G	C	SNP	CHI3L1	NM_001276	human	genbank	57_37b	-1	reviewed	silent	c.234	p.G78	0.016	HMMPfam_Glyco_hydro_18,HMMSmart_Glyco_18,superfamily_Glyco_hydro_cat	PatternScan_CHITINASE_18,HMMPfam_Glyco_hydro_18,HMMSmart_Glyco_18,superfamily_Glyco_hydro_cat,superfamily_SSF54556	-	no_errors
DKFZp451A211	400169	genome.wustl.edu	37	13	114055905	114055905	+	RNA	SNP	G	G	A	rs7331116	byCluster;byFrequency;by2Hit2Allele;by1000genomes	TCGA-E2-A1B1-01A-21D-A12Q-09	TCGA-E2-A1B1-10A-01D-A12Q-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	13	114055905	114055905	G	A	SNP	DKFZp451A211	XR_078682	human	genbank	57_37b	-1	model	rna	NULL	NULL	0.001	-	-	-	
ENSG00000247963	0	genome.wustl.edu	37	5	40775675	40775675	+	RNA	SNP	A	A	C	novel	unknown	TCGA-E2-A1B1-01A-21D-A12Q-09	TCGA-E2-A1B1-10A-01D-A12Q-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	5	40775675	40775675	A	C	SNP	ENSG00000247963	ENST00000502157	human	ensembl	57_37b	+1	novel	rna	NULL	NULL	0.091	-	-	-	no_errors
FAT3	120114	genome.wustl.edu	37	11	92533820	92533820	+	Missense_Mutation	SNP	C	C	G	novel	unknown	TCGA-E2-A1B1-01A-21D-A12Q-09	TCGA-E2-A1B1-10A-01D-A12Q-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	11	92533820	92533820	C	G	SNP	FAT3	NM_001008781	human	genbank	57_37b	+1	validated	missense	c.7641	p.D2547E	0.576	superfamily_Concanavalin A-like lectins/glucanases,superfamily_Cadherin-like,HMMPfam_Cadherin,HMMSmart_SM00112	superfamily_Cadherin-like,HMMPfam_Cadherin,HMMSmart_SM00112,PatternScan_CADHERIN_1,superfamily_Concanavalin A-like lectins/glucanases,superfamily_EGF/Laminin,HMMSmart_SM00181,HMMSmart_SM00282,HMMPfam_Laminin_G_2,HMMSmart_SM00179,HMMPfam_EGF,PatternScan_EGF_1,PatternScan_EGF_CA,PatternScan_ASX_HYDROXYL,PatternScan_EGF_2	-	no_errors
GRK4	2868	genome.wustl.edu	37	4	2986263	2986263	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-E2-A1B1-01A-21D-A12Q-09	TCGA-E2-A1B1-10A-01D-A12Q-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	4	2986263	2986263	C	T	SNP	GRK4	NM_182982	human	genbank	57_37b	+1	reviewed	missense	c.76	p.R26C	1.000	NULL	superfamily_Regulator of G-protein signaling RGS,HMMPfam_RGS,HMMSmart_SM00315,superfamily_Protein kinase-like (PK-like),HMMSmart_SM00219,HMMSmart_SM00220,HMMPfam_Pkinase,PatternScan_PROTEIN_KINASE_ATP,PatternScan_PROTEIN_KINASE_ST,HMMSmart_SM00133	-	no_errors
HGFAC	3083	genome.wustl.edu	37	4	3446079	3446079	+	Missense_Mutation	SNP	G	T	T	rs41264743	unknown	TCGA-E2-A1B1-01A-21D-A12Q-09	TCGA-E2-A1B1-10A-01D-A12Q-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	4	3446079	3446079	G	T	SNP	HGFAC	NM_001528	human	genbank	57_37b	+1	reviewed	missense	c.640	p.G214C	0.337	HMMPfam_fn1,PatternScan_FN1_1,HMMSmart_FN1	superfamily_Kringle-like,HMMSmart_FN2,HMMPfam_fn2,PatternScan_FN2_1,superfamily_SSF57196,HMMSmart_EGF,HMMPfam_EGF,PatternScan_EGF_1,HMMPfam_fn1,PatternScan_FN1_1,HMMSmart_FN1,PatternScan_EGF_2,HMMSmart_KR,HMMPfam_Kringle,PatternScan_KRINGLE_1,superfamily_Pept_Ser_Cys,HMMSmart_Tryp_SPc,HMMPfam_Trypsin,PatternScan_TRYPSIN_HIS,PatternScan_TRYPSIN_SER	-	
HLF	3131	genome.wustl.edu	37	17	53345424	53345424	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-E2-A1B1-01A-21D-A12Q-09	TCGA-E2-A1B1-10A-01D-A12Q-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	17	53345424	53345424	G	A	SNP	HLF	NM_002126	human	genbank	57_37b	+1	reviewed	missense	c.428	p.C143Y	1.000	NULL	HMMSmart_SM00338,HMMPfam_bZIP_2	-	no_errors
LAMC3	10319	genome.wustl.edu	37	9	133911706	133911706	+	Silent	SNP	C	C	T	rs2275131	byCluster;byFrequency;by2Hit2Allele;byHapMap;by1000genomes	TCGA-E2-A1B1-01A-21D-A12Q-09	TCGA-E2-A1B1-10A-01D-A12Q-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	9	133911706	133911706	C	T	SNP	LAMC3	NM_006059	human	genbank	57_37b	+1	reviewed	silent	c.963	p.A321	1.000	HMMPfam_Laminin_EGF,HMMSmart_EGF_Lam,superfamily_SSF57196,PatternScan_EGF_LAM_1	HMMSmart_LamNT,HMMPfam_Laminin_N,HMMPfam_Laminin_EGF,HMMSmart_EGF_Lam,superfamily_SSF57196,PatternScan_EGF_1,PatternScan_EGF_LAM_1,HMMPfam_Laminin_B,PatternScan_EGF_2	-	
LOC100132598	0	genome.wustl.edu	37	13	19308238	19308238	+	Missense_Mutation	SNP	T	T	C	rs4575383	byCluster;by2Hit2Allele	TCGA-E2-A1B1-01A-21D-A12Q-09	TCGA-E2-A1B1-10A-01D-A12Q-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	13	19308238	19308238	T	C	SNP	LOC100132598	XM_001714168	human	genbank	57_37b	+1	model	missense	c.349	p.C117R	0.900	superfamily_C2H2 and C2HC zinc fingers,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	-	
NEDD4	4734	genome.wustl.edu	37	15	56141078	56141078	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-E2-A1B1-01A-21D-A12Q-09	TCGA-E2-A1B1-10A-01D-A12Q-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	15	56141078	56141078	G	A	SNP	NEDD4	NM_198400	human	genbank	57_37b	-1	validated	missense	c.2395	p.P799S	1.000	superfamily_WW_Rsp5_WWP,HMMSmart_WW,HMMPfam_WW,PatternScan_WW_DOMAIN_1	superfamily_WW_Rsp5_WWP,HMMSmart_WW,HMMPfam_WW,PatternScan_WW_DOMAIN_1,superfamily_HECT,HMMSmart_HECTc,HMMPfam_HECT	-	no_errors
NTRK3	4916	genome.wustl.edu	37	15	88476388	88476388	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-E2-A1B1-01A-21D-A12Q-09	TCGA-E2-A1B1-10A-01D-A12Q-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	15	88476388	88476388	G	A	SNP	NTRK3	NM_001012338	human	genbank	57_37b	-1	reviewed	missense	c.1744	p.R582W	0.988	superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase_Tyr,HMMSmart_SM00219,HMMSmart_SM00220	HMMPfam_LRRNT,HMMSmart_SM00013,superfamily_L domain-like,HMMPfam_LRR_1,HMMSmart_SM00082,superfamily_Immunoglobulin,HMMSmart_SM00409,HMMPfam_ig,HMMPfam_I-set,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase_Tyr,HMMSmart_SM00219,HMMSmart_SM00220,PatternScan_PROTEIN_KINASE_ATP,PatternScan_PROTEIN_KINASE_TYR,PatternScan_RECEPTOR_TYR_KIN_II	-	no_errors
PHIP	55023	genome.wustl.edu	37	6	79665349	79665351	+	In_Frame_Del	DEL	TTC	TTC	-	novel	unknown	TCGA-E2-A1B1-01A-21D-A12Q-09	TCGA-E2-A1B1-10A-01D-A12Q-09	TTC	TTC					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	79665349	79665351	TTC	-	DEL	PHIP	NM_017934	human	genbank	57_37b	-1	validated	in_frame_del	c.3833_3831	p.K1278in_frame_del	1.000:1.000:1.000	superfamily_Bromodomain	HMMSmart_SM00320,HMMPfam_WD40,superfamily_YVTN repeat-like/Quinoprotein amine dehydrogenase,PatternScan_WD_REPEATS_1,superfamily_Bromodomain,HMMSmart_SM00297,HMMPfam_Bromodomain,PatternScan_BROMODOMAIN_1	(deletion:cds_exon[79665330,79665399])	no_errors
PNLIP	5406	genome.wustl.edu	37	10	118318677	118318677	+	Silent	SNP	C	C	T	novel	unknown	TCGA-E2-A1B1-01A-21D-A12Q-09	TCGA-E2-A1B1-10A-01D-A12Q-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	10	118318677	118318677	C	T	SNP	PNLIP	NM_000936	human	genbank	57_37b	+1	reviewed	silent	c.942	p.F314	1.000	HMMPfam_Lipase,superfamily_alpha/beta-Hydrolases	HMMPfam_Lipase,superfamily_alpha/beta-Hydrolases,PatternScan_LIPASE_SER,superfamily_Lipase/lipooxygenase domain (PLAT/LH2 domain),HMMPfam_PLAT,HMMSmart_SM00308	-	no_errors
PTPN13	5783	genome.wustl.edu	37	4	87728895	87728895	+	Missense_Mutation	SNP	C	C	G	novel	unknown	TCGA-E2-A1B1-01A-21D-A12Q-09	TCGA-E2-A1B1-10A-01D-A12Q-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	4	87728895	87728895	C	G	SNP	PTPN13	NM_080685	human	genbank	57_37b	+1	reviewed	missense	c.6943	p.Q2315E	1.000	superfamily_SSF52799,HMMSmart_PTPc,HMMPfam_Y_phosphatase	HMMSmart_KIND,superfamily_SSF101690,HMMSmart_B41,superfamily_SSF54236,HMMPfam_FERM_N,superfamily_FERM_3-hlx,HMMPfam_FERM_M,superfamily_SSF50729,HMMPfam_FERM_C,superfamily_PDZ,HMMPfam_PDZ,HMMSmart_PDZ,superfamily_SSF52799,HMMSmart_PTPc,HMMPfam_Y_phosphatase	-	no_errors
RPS10L	0	genome.wustl.edu	37	20	820143	820143	+	Missense_Mutation	SNP	C	C	T	rs11906867	byCluster;byFrequency;byHapMap	TCGA-E2-A1B1-01A-21D-A12Q-09	TCGA-E2-A1B1-10A-01D-A12Q-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	20	820143	820143	C	T	SNP	RPS10L	ENST00000217256	human	ensembl	57_37b	-1	known	missense	c.478	p.E160K	1.000	NULL	HMMPfam_S10_plectin	-	
SLAMF9	89886	genome.wustl.edu	37	1	159923409	159923409	+	Silent	SNP	G	G	A	novel	unknown	TCGA-E2-A1B1-01A-21D-A12Q-09	TCGA-E2-A1B1-10A-01D-A12Q-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	159923409	159923409	G	A	SNP	SLAMF9	NM_033438	human	genbank	57_37b	-1	reviewed	silent	c.81	p.S27	0.012	superfamily_Immunoglobulin	superfamily_Immunoglobulin	-	no_errors
SLC26A1	10861	genome.wustl.edu	37	4	983809	983809	+	Silent	SNP	C	C	T	rs4690221	byCluster;byFrequency;by1000genomes	TCGA-E2-A1B1-01A-21D-A12Q-09	TCGA-E2-A1B1-10A-01D-A12Q-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	4	983809	983809	C	T	SNP	SLC26A1	NM_022042	human	genbank	57_37b	-1	reviewed	silent	c.918	p.S306	0.985	HMMPfam_Sulfate_transp	PatternScan_SLC26A,HMMPfam_Sulfate_transp,HMMPfam_STAS,superfamily_STAS	-	
SRRM1	10250	genome.wustl.edu	37	1	24996733	24996733	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-E2-A1B1-01A-21D-A12Q-09	TCGA-E2-A1B1-10A-01D-A12Q-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	24996733	24996733	C	T	SNP	SRRM1	NM_005839	human	genbank	57_37b	+1	validated	missense	c.2327	p.P776L	0.997	NULL	superfamily_PWI domain,HMMSmart_SM00311,HMMPfam_PWI	-	no_errors
TRIP12	9320	genome.wustl.edu	37	2	230643194	230643194	+	Silent	SNP	G	G	A	novel	unknown	TCGA-E2-A1B1-01A-21D-A12Q-09	TCGA-E2-A1B1-10A-01D-A12Q-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	2	230643194	230643194	G	A	SNP	TRIP12	NM_004238	human	genbank	57_37b	-1	provisional	silent	c.5094	p.R1698	0.997	superfamily_HECT,HMMSmart_HECTc,HMMPfam_HECT	superfamily_ARM-type_fold,HMMPfam_WWE,superfamily_HECT,HMMSmart_HECTc,HMMPfam_HECT	-	no_errors
ZCCHC12	170261	genome.wustl.edu	37	X	117959237	117959237	+	Missense_Mutation	SNP	C	C	G	novel	unknown	TCGA-E2-A1B1-01A-21D-A12Q-09	TCGA-E2-A1B1-10A-01D-A12Q-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	X	117959237	117959237	C	G	SNP	ZCCHC12	NM_173798	human	genbank	57_37b	+1	provisional	missense	c.30	p.N10K	0.081	NULL	NULL	-	no_errors
