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	
ABCC11	85320	genome.wustl.edu	37	16	48204014	48204014	+	Splice_Site	SNP	A	A	C	novel	unknown	TCGA-A2-A0ST-01A-12D-A099-09	TCGA-A2-A0ST-10A-01D-A099-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	16	48204014	48204014	A	C	SNP	ABCC11	NM_032583	human	genbank	57_37b	-1	reviewed	splice_site	c.3891+2	e27+2	1.000	-	-	-	no_errors	
ARHGAP21	57584	genome.wustl.edu	37	10	24923969	24923969	+	Missense_Mutation	SNP	C	C	A	novel	unknown	TCGA-A2-A0ST-01A-12D-A099-09	TCGA-A2-A0ST-10A-01D-A099-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	10	24923969	24923969	C	A	SNP	ARHGAP21	NM_020824	human	genbank	57_37b	-1	validated	missense	c.332	p.G111V	1.000	superfamily_PDZ domain-like,HMMPfam_PDZ,HMMSmart_SM00228	superfamily_PDZ domain-like,HMMPfam_PDZ,HMMSmart_SM00228,superfamily_PH domain-like,HMMPfam_PH,HMMSmart_SM00233,superfamily_GTPase activation domain GAP,HMMSmart_SM00324,HMMPfam_RhoGAP	-	no_errors	
CENPF	1063	genome.wustl.edu	37	1	214814571	214814571	+	Silent	SNP	C	C	T	rs3795521	byCluster;byFrequency;by1000genomes	TCGA-A2-A0ST-01A-12D-A099-09	TCGA-A2-A0ST-10A-01D-A099-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	214814571	214814571	C	T	SNP	CENPF	NM_016343	human	genbank	57_37b	+1	reviewed	silent	c.2890	p.L964	0.001	NULL	HMMPfam_Cenp-F_N,superfamily_Spectrin repeat,HMMPfam_Cenp-F_leu_zip,superfamily_Prefoldin,HMMPfam_Rb-bdg_C_Cenp-F	-		
DSPP	1834	genome.wustl.edu	37	4	88537298	88537306	+	In_Frame_Del	DEL	AGCAGCGAT	AGCAGCGAT	-	novel	unknown	TCGA-A2-A0ST-01A-12D-A099-09	TCGA-A2-A0ST-10A-01D-A099-09	AGCAGCGAT	AGCAGCGAT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	4	88537298	88537306	AGCAGCGAT	-	DEL	DSPP	NM_014208	human	genbank	57_37b	+1	reviewed	in_frame_del	c.3484_3492	p.SSD1165in_frame_del	0.007:0.006:0.008:0.010:0.005:0.000:0.000:0.001:0.000	NULL	NULL	(deletion:cds_exon[88534937,88537720])	no_errors	
EAF1	85403	genome.wustl.edu	37	3	15469355	15469355	+	Silent	SNP	G	G	A	novel	unknown	TCGA-A2-A0ST-01A-12D-A099-09	TCGA-A2-A0ST-10A-01D-A099-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3	15469355	15469355	G	A	SNP	EAF1	NM_033083	human	genbank	57_37b	+1	validated	silent	c.69	p.E23	1.000	HMMPfam_EAF	HMMPfam_EAF	-	no_errors	
EFHD2	79180	genome.wustl.edu	37	1	15736758	15736758	+	Frame_Shift_Del	DEL	G	G	-	novel	unknown	TCGA-A2-A0ST-01A-12D-A099-09	TCGA-A2-A0ST-10A-01D-A099-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	15736758	15736758	G	-	DEL	EFHD2	NM_024329	human	genbank	57_37b	+1	validated	frame_shift_del	c.291	p.E98fs	1.000	superfamily_SSF47473,HMMSmart_EFh,HMMPfam_efhand	PatternScan_EF_HAND_1,superfamily_SSF47473,HMMSmart_EFh,HMMPfam_efhand	(deletion:cds_exon[15736468,15736775])	no_errors	
ENSG00000246002	0	genome.wustl.edu	37	8	134068069	134068070	+	RNA	INS	-	-	CAG	novel	unknown	TCGA-A2-A0ST-01A-12D-A099-09	TCGA-A2-A0ST-10A-01D-A099-09	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	8	134068069	134068070	-	CAG	INS	ENSG00000246002	ENST00000500883	human	ensembl	57_37b	+1	known	rna	NULL	NULL	0.000:0.010	-	-	-	no_errors	
FANCE	2178	genome.wustl.edu	37	6	35423973	35423973	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-A2-A0ST-01A-12D-A099-09	TCGA-A2-A0ST-10A-01D-A099-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	35423973	35423973	G	A	SNP	FANCE	NM_021922	human	genbank	57_37b	+1	reviewed	missense	c.698	p.R233K	0.000	NULL	NULL	-	no_errors	
FIP1L1	81608	genome.wustl.edu	37	4	54319248	54319249	+	Frame_Shift_Del	DEL	AG	AG	-	novel	unknown	TCGA-A2-A0ST-01A-12D-A099-09	TCGA-A2-A0ST-10A-01D-A099-09	AG	AG					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	4	54319248	54319249	AG	-	DEL	FIP1L1	NM_030917	human	genbank	57_37b	+1	reviewed	frame_shift_del	c.1447_1448	p.E486fs	0.975:0.991	NULL	HMMPfam_Fip1	(deletion:cds_exon[54319087,54319300])	no_errors	
GALNT3	2591	genome.wustl.edu	37	2	166618262	166618262	+	Splice_Site	SNP	C	C	T	rs1968294	byCluster;byFrequency;bySubmitter;by1000genomes	TCGA-A2-A0ST-01A-12D-A099-09	TCGA-A2-A0ST-10A-01D-A099-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	2	166618262	166618262	C	T	SNP	GALNT3	ENST00000437849	human	ensembl	57_37b	-1	known	splice_site	c.266+1	e3+1	0.004	-	-	-		
IQSEC3	440073	genome.wustl.edu	37	12	247900	247900	+	Silent	SNP	G	G	A	rs7313003	byCluster;byFrequency;by2Hit2Allele;byHapMap;by1000genomes	TCGA-A2-A0ST-01A-12D-A099-09	TCGA-A2-A0ST-10A-01D-A099-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	12	247900	247900	G	A	SNP	IQSEC3	NM_015232	human	genbank	57_37b	+1	validated	silent	c.462	p.E154	0.000	NULL	superfamily_Sec7,HMMPfam_Sec7,HMMSmart_Sec7,superfamily_SSF50729,HMMSmart_PH	-		
MSH3	4437	genome.wustl.edu	37	5	79950742	79950750	+	In_Frame_Del	DEL	CCCCCAGCT	CCCCCAGCT	-	novel	unknown	TCGA-A2-A0ST-01A-12D-A099-09	TCGA-A2-A0ST-10A-01D-A099-09	CCCCCAGCT	CCCCCAGCT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	5	79950742	79950750	CCCCCAGCT	-	DEL	MSH3	NM_002439	human	genbank	57_37b	+1	reviewed	in_frame_del	c.196_204	p.PAP67in_frame_del	0.890:0.802:0.715:0.628:0.541:0.455:0.369:0.282:0.196	NULL	superfamily_DNA repair protein MutS domain I,HMMPfam_MutS_I,superfamily_DNA repair protein MutS domain II,HMMPfam_MutS_II,HMMPfam_MutS_III,superfamily_DNA repair protein MutS domain III,HMMSmart_SM00533,HMMPfam_MutS_V,superfamily_P-loop containing nucleoside triphosphate hydrolases,HMMSmart_SM00534,PatternScan_DNA_MISMATCH_REPAIR_2	(deletion:cds_exon[79950547,79950783])	no_errors	
NOL3	8996	genome.wustl.edu	37	16	67208570	67208570	+	Missense_Mutation	SNP	G	G	C	novel	unknown	TCGA-A2-A0ST-01A-12D-A099-09	TCGA-A2-A0ST-10A-01D-A099-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	16	67208570	67208570	G	C	SNP	NOL3	ENST00000445652	human	ensembl	57_37b	+1	known	missense	c.332	p.R111P	0.074	NULL	superfamily_DEATH domain,HMMSmart_SM00114,HMMPfam_CARD	-	no_errors	
OR11H12	440153	genome.wustl.edu	37	14	19377881	19377881	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-A2-A0ST-01A-12D-A099-09	TCGA-A2-A0ST-10A-01D-A099-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	14	19377881	19377881	G	A	SNP	OR11H12	NM_001013354	human	genbank	57_37b	+1	provisional	missense	c.288	p.M96I	0.883	HMMPfam_7tm_1,superfamily_SSF81321	HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1,superfamily_SSF81321	-	no_errors	
PEX11B	8799	genome.wustl.edu	37	1	145522575	145522575	+	Missense_Mutation	SNP	A	A	G	novel	unknown	TCGA-A2-A0ST-01A-12D-A099-09	TCGA-A2-A0ST-10A-01D-A099-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	145522575	145522575	A	G	SNP	PEX11B	NM_003846	human	genbank	57_37b	+1	provisional	missense	c.436	p.M146V	1.000	HMMPfam_PEX11	HMMPfam_PEX11	-	no_errors	
RALGDS	5900	genome.wustl.edu	37	9	135976698	135976698	+	Silent	SNP	G	G	A	rs35108384	byCluster;byFrequency;by1000genomes	TCGA-A2-A0ST-01A-12D-A099-09	TCGA-A2-A0ST-10A-01D-A099-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	9	135976698	135976698	G	A	SNP	RALGDS	ENST00000372062	human	ensembl	57_37b	-1	known	silent	c.2838	p.A946	0.001	NULL	superfamily_Ras GEF,HMMSmart_SM00229,HMMPfam_RasGEF_N,HMMSmart_SM00147,HMMPfam_RasGEF,PatternScan_RASGEF	-		
RNASEH2A	10535	genome.wustl.edu	37	19	12917877	12917877	+	Silent	SNP	G	G	A	novel	unknown	TCGA-A2-A0ST-01A-12D-A099-09	TCGA-A2-A0ST-10A-01D-A099-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	19	12917877	12917877	G	A	SNP	RNASEH2A	NM_006397	human	genbank	57_37b	+1	reviewed	silent	c.183	p.E61	1.000	superfamily_Ribonuclease H-like,HMMPfam_RNase_HII	superfamily_Ribonuclease H-like,HMMPfam_RNase_HII	-	no_errors	
