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
ACTB	60	genome.wustl.edu	37	7	5567503	5567503	+	Missense_Mutation	SNP	C	C	G	novel	unknown	TCGA-AO-A0JJ-01A-11W-A071-09	TCGA-AO-A0JJ-10A-01W-A071-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	7	5567503	5567503	C	G	SNP	ACTB	NM_001101	human	genbank	57_37b	-1	reviewed	missense	c.1004	p.R335P	1.000	HMMPfam_Actin,HMMSmart_SM00268,superfamily_Actin-like ATPase domain	superfamily_Actin-like ATPase domain,HMMPfam_Actin,HMMSmart_SM00268,PatternScan_ACTINS_1,PatternScan_ACTINS_ACT_LIKE,PatternScan_ACTINS_2	-	no_errors
ACTG2	72	genome.wustl.edu	37	2	74146651	74146651	+	Missense_Mutation	SNP	G	G	T	novel	unknown	TCGA-AO-A0JJ-01A-11W-A071-09	TCGA-AO-A0JJ-10A-01W-A071-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	2	74146651	74146651	G	T	SNP	ACTG2	NM_001615	human	genbank	57_37b	+1	reviewed	missense	c.1080	p.K360N	1.000	HMMPfam_Actin,HMMSmart_SM00268,superfamily_Actin-like ATPase domain,PatternScan_ACTINS_2	superfamily_Actin-like ATPase domain,HMMPfam_Actin,HMMSmart_SM00268,PatternScan_ACTINS_1,PatternScan_ACTINS_ACT_LIKE,PatternScan_ACTINS_2	-	no_errors
BSPRY	54836	genome.wustl.edu	37	9	116122954	116122954	+	Silent	SNP	A	A	G	rs752757	byCluster;byFrequency;by2Hit2Allele;byHapMap;by1000genomes	TCGA-AO-A0JJ-01A-11W-A071-09	TCGA-AO-A0JJ-10A-01W-A071-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	9	116122954	116122954	A	G	SNP	BSPRY	NM_017688	human	genbank	57_37b	+1	validated	silent	c.468	p.K156	1.000	NULL	HMMPfam_zf-B_box,superfamily_B-box zinc-binding domain,HMMSmart_SM00589,HMMSmart_SM00449,HMMPfam_SPRY	-	
BTN2A3	54718	genome.wustl.edu	37	6	26431261	26431261	+	Missense_Mutation	SNP	G	G	T	novel	unknown	TCGA-AO-A0JJ-01A-11W-A071-09	TCGA-AO-A0JJ-10A-01W-A071-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	26431261	26431261	G	T	SNP	BTN2A3	ENST00000297020	human	ensembl	57_37b	+1	known	missense	c.1179	p.E393D	0.001	HMMPfam_SPRY,HMMSmart_SPRY	superfamily_SSF48726,HMMPfam_V-set,HMMSmart_IGv,HMMSmart_PRY,HMMPfam_SPRY,HMMSmart_SPRY	-	no_errors
C10orf71	118461	genome.wustl.edu	37	10	50532174	50532174	+	Silent	SNP	A	A	G	novel	unknown	TCGA-AO-A0JJ-01A-11W-A071-09	TCGA-AO-A0JJ-10A-01W-A071-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	10	50532174	50532174	A	G	SNP	C10orf71	NM_001135196	human	genbank	57_37b	+1	validated	silent	c.1584	p.R528	0.000	NULL	PatternScan_SUGAR_TRANSPORT_1	-	no_errors
CDH1	999	genome.wustl.edu	37	16	68846121	68846127	+	Frame_Shift_Del	DEL	AGTCACT	AGTCACT	-	novel	unknown	TCGA-AO-A0JJ-01A-11W-A071-09	TCGA-AO-A0JJ-10A-01W-A071-09	AGTCACT	AGTCACT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	16	68846121	68846127	AGTCACT	-	DEL	CDH1	NM_004360	human	genbank	57_37b	+1	reviewed	frame_shift_del	c.1092_1098	p.V365fs	0.000:0.964:0.980:0.846:0.436:0.010:0.000	superfamily_Cadherin-like,HMMPfam_Cadherin,HMMSmart_SM00112,PatternScan_CADHERIN_1	superfamily_Cadherin-like,HMMPfam_Cadherin_pro,HMMPfam_Cadherin,HMMSmart_SM00112,PatternScan_CADHERIN_1,HMMPfam_Cadherin_C	(deletion:cds_exon[68846038,68846166])	no_errors
CPT1C	126129	genome.wustl.edu	37	19	50208555	50208555	+	Missense_Mutation	SNP	G	G	T	novel	unknown	TCGA-AO-A0JJ-01A-11W-A071-09	TCGA-AO-A0JJ-10A-01W-A071-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	19	50208555	50208555	G	T	SNP	CPT1C	NM_152359	human	genbank	57_37b	+1	provisional	missense	c.964	p.D322Y	1.000	superfamily_CoA-dependent acyltransferases,HMMPfam_Carn_acyltransf	superfamily_CoA-dependent acyltransferases,HMMPfam_Carn_acyltransf,PatternScan_ACYLTRANSF_C_1,PatternScan_ACYLTRANSF_C_2	-	no_errors
EHD2	30846	genome.wustl.edu	37	19	48219929	48219929	+	Silent	SNP	G	A	A	rs61746407	byCluster;by1000genomes	TCGA-AO-A0JJ-01A-11W-A071-09	TCGA-AO-A0JJ-10A-01W-A071-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	19	48219929	48219929	G	A	SNP	EHD2	NM_014601	human	genbank	57_37b	+1	reviewed	silent	c.60	p.T20	0.981	NULL	superfamily_P-loop containing nucleoside triphosphate hydrolases,HMMPfam_Dynamin_N,superfamily_EF-hand,HMMSmart_SM00027,PatternScan_EF_HAND_1	-	
ENSG00000236421	0	genome.wustl.edu	37	16	15082496	15082496	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AO-A0JJ-01A-11W-A071-09	TCGA-AO-A0JJ-10A-01W-A071-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	16	15082496	15082496	C	T	SNP	ENSG00000236421	ENST00000329923	human	ensembl	57_37b	-1	known	missense	c.1522	p.E508K	1.000	HMMPfam_DUF2152	HMMPfam_DUF2152	-	no_errors
ENSG00000245214	0	genome.wustl.edu	37	1	150130828	150130828	+	RNA	SNP	G	G	A	novel	unknown	TCGA-AO-A0JJ-01A-11W-A071-09	TCGA-AO-A0JJ-10A-01W-A071-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	150130828	150130828	G	A	SNP	ENSG00000245214	ENST00000430673	human	ensembl	57_37b	-1	novel	rna	NULL	NULL	0.026	-	-	-	no_errors
ENSG00000246072	0	genome.wustl.edu	37	1	153908309	153908309	+	RNA	SNP	G	A	A	rs11586075	byCluster;byFrequency;byHapMap;by1000genomes	TCGA-AO-A0JJ-01A-11W-A071-09	TCGA-AO-A0JJ-10A-01W-A071-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	153908309	153908309	G	A	SNP	ENSG00000246072	ENST00000502184	human	ensembl	57_37b	+1	novel	rna	NULL	NULL	0.000	-	-	-	
ENSG00000247356	0	genome.wustl.edu	37	19	46274972	46274972	+	RNA	SNP	A	A	C	rs915915	byCluster;byFrequency;by2Hit2Allele;byHapMap;by1000genomes	TCGA-AO-A0JJ-01A-11W-A071-09	TCGA-AO-A0JJ-10A-01W-A071-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	19	46274972	46274972	A	C	SNP	ENSG00000247356	ENST00000501006	human	ensembl	57_37b	+1	known	rna	NULL	NULL	0.044	-	-	-	
ERBB2IP	55914	genome.wustl.edu	37	5	65370946	65370946	+	Missense_Mutation	SNP	A	A	T	novel	unknown	TCGA-AO-A0JJ-01A-11W-A071-09	TCGA-AO-A0JJ-10A-01W-A071-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	5	65370946	65370946	A	T	SNP	ERBB2IP	NM_018695	human	genbank	57_37b	+1	reviewed	missense	c.3728	p.H1243L	1.000	NULL	superfamily_SSF52058,HMMPfam_LRR_1,superfamily_PDZ,HMMPfam_PDZ,HMMSmart_PDZ	-	no_errors
KCNT1	57582	genome.wustl.edu	37	9	138662242	138662242	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AO-A0JJ-01A-11W-A071-09	TCGA-AO-A0JJ-10A-01W-A071-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	9	138662242	138662242	G	A	SNP	KCNT1	NM_020822	human	genbank	57_37b	+1	validated	missense	c.1718	p.R573H	1.000	superfamily_NAD(P)-bd,HMMPfam_BK_channel_a	superfamily_SSF81324,HMMPfam_Ion_trans_2,superfamily_NAD(P)-bd,HMMPfam_BK_channel_a	-	no_errors
KIAA0649	9858	genome.wustl.edu	37	9	138377433	138377433	+	Silent	SNP	G	G	A	rs3827827	byCluster;byFrequency;by1000genomes	TCGA-AO-A0JJ-01A-11W-A071-09	TCGA-AO-A0JJ-10A-01W-A071-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	9	138377433	138377433	G	A	SNP	KIAA0649	NM_014811	human	genbank	57_37b	+1	validated	silent	c.1077	p.A359	0.000	NULL	NULL	-	
MED23	9439	genome.wustl.edu	37	6	131914256	131914268	+	Frame_Shift_Del	DEL	CTCATTGAATCTC	CTCATTGAATCTC	-	novel	unknown	TCGA-AO-A0JJ-01A-11W-A071-09	TCGA-AO-A0JJ-10A-01W-A071-09	CTCATTGAATCTC	CTCATTGAATCTC					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	131914256	131914268	CTCATTGAATCTC	-	DEL	MED23	NM_004830	human	genbank	57_37b	-1	reviewed	frame_shift_del	c.3288_3276	p.W1092fs	1.000:1.000:1.000:1.000:1.000:1.000:1.000:1.000:1.000:1.000:1.000:1.000:1.000	NULL	NULL	(deletion:cds_exon[131914146,131914311])	no_errors
MERTK	10461	genome.wustl.edu	37	2	112786351	112786351	+	Silent	SNP	C	C	T	novel	unknown	TCGA-AO-A0JJ-01A-11W-A071-09	TCGA-AO-A0JJ-10A-01W-A071-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	2	112786351	112786351	C	T	SNP	MERTK	NM_006343	human	genbank	57_37b	+1	reviewed	silent	c.2910	p.S970	0.348	NULL	superfamily_SSF48726,HMMSmart_IG,HMMPfam_ig,superfamily_FN_III-like,HMMPfam_fn3,HMMSmart_FN3,superfamily_Kinase_like,HMMPfam_Pkinase_Tyr,HMMSmart_TyrKc,PatternScan_PROTEIN_KINASE_ATP,PatternScan_PROTEIN_KINASE_TYR	-	no_errors
MUC2	4583	genome.wustl.edu	37	11	1080954	1080954	+	Silent	SNP	G	G	A	rs11245929	byCluster;byFrequency;by1000genomes	TCGA-AO-A0JJ-01A-11W-A071-09	TCGA-AO-A0JJ-10A-01W-A071-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	11	1080954	1080954	G	A	SNP	MUC2	NM_002457	human	genbank	57_37b	+1	reviewed	silent	c.1338	p.T446	0.032	HMMSmart_SM00216,HMMPfam_VWD	HMMSmart_SM00216,HMMPfam_VWD,HMMPfam_C8,superfamily_Serine proterase inhibitors,HMMSmart_SM00215,superfamily_PMP inhibitors,HMMSmart_SM00214,PatternScan_VWFC_1,PatternScan_EGF_1,HMMPfam_VWC,HMMPfam_Cys_knot,HMMSmart_SM00041,PatternScan_CTCK_1	-	
PGM2L1	283209	genome.wustl.edu	37	11	74109166	74109166	+	Missense_Mutation	SNP	A	A	G	rs12049823	byCluster;byFrequency;by1000genomes	TCGA-AO-A0JJ-01A-11W-A071-09	TCGA-AO-A0JJ-10A-01W-A071-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	11	74109166	74109166	A	G	SNP	PGM2L1	NM_173582	human	genbank	57_37b	-1	validated	missense	c.41	p.L14P	1.000	NULL	superfamily_Phosphoglucomutase first 3 domains,HMMPfam_PGM_PMM_I,HMMPfam_PGM_PMM_II,superfamily_Phosphoglucomutase C-terminal domain	-	
SERPINA4	5267	genome.wustl.edu	37	14	95030303	95030303	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AO-A0JJ-01A-11W-A071-09	TCGA-AO-A0JJ-10A-01W-A071-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	14	95030303	95030303	G	A	SNP	SERPINA4	NM_006215	human	genbank	57_37b	+1	provisional	missense	c.484	p.V162I	0.107	superfamily_Prot_inh_serpin,HMMPfam_Serpin,HMMSmart_SERPIN	superfamily_Prot_inh_serpin,HMMPfam_Serpin,HMMSmart_SERPIN,PatternScan_SERPIN	-	no_errors
SLMO2	51012	genome.wustl.edu	37	20	57613687	57613687	+	Missense_Mutation	SNP	T	T	G	novel	unknown	TCGA-AO-A0JJ-01A-11W-A071-09	TCGA-AO-A0JJ-10A-01W-A071-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	20	57613687	57613687	T	G	SNP	SLMO2	NM_016045	human	genbank	57_37b	-1	validated	missense	c.35	p.H12P	1.000	NULL	HMMPfam_PRELI	-	no_errors
SRXN1	140809	genome.wustl.edu	37	20	629434	629434	+	Missense_Mutation	SNP	A	A	T	novel	unknown	TCGA-AO-A0JJ-01A-11W-A071-09	TCGA-AO-A0JJ-10A-01W-A071-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	20	629434	629434	A	T	SNP	SRXN1	NM_080725	human	genbank	57_37b	-1	provisional	missense	c.338	p.I113N	1.000	HMMSmart_SM00470	HMMSmart_SM00470	-	no_errors
STK32B	55351	genome.wustl.edu	37	4	5399971	5399971	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AO-A0JJ-01A-11W-A071-09	TCGA-AO-A0JJ-10A-01W-A071-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	4	5399971	5399971	G	A	SNP	STK32B	NM_018401	human	genbank	57_37b	+1	provisional	missense	c.472	p.G158R	0.995	superfamily_Protein kinase-like (PK-like),HMMSmart_SM00219,HMMSmart_SM00220,HMMPfam_Pkinase	superfamily_Protein kinase-like (PK-like),HMMSmart_SM00219,HMMSmart_SM00220,HMMPfam_Pkinase,PatternScan_PROTEIN_KINASE_ATP,PatternScan_PROTEIN_KINASE_ST	-	no_errors
SYPL2	284612	genome.wustl.edu	37	1	110020512	110020512	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-AO-A0JJ-01A-11W-A071-09	TCGA-AO-A0JJ-10A-01W-A071-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	110020512	110020512	G	A	SNP	SYPL2	NM_001040709	human	genbank	57_37b	+1	validated	missense	c.529	p.D177N	1.000	HMMPfam_MARVEL	HMMPfam_MARVEL	-	no_errors
UNC13C	440279	genome.wustl.edu	37	15	54825146	54825146	+	Nonsense_Mutation	SNP	C	C	T	novel	unknown	TCGA-AO-A0JJ-01A-11W-A071-09	TCGA-AO-A0JJ-10A-01W-A071-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	15	54825146	54825146	C	T	SNP	UNC13C	NM_001080534	human	genbank	57_37b	+1	provisional	nonsense	c.5578	p.Q1860*	1.000	NULL	superfamily_SSF57889,HMMSmart_C1,PatternScan_ZF_DAG_PE_1,HMMPfam_C1_1,superfamily_C2_CaLB,HMMSmart_C2,HMMPfam_C2,HMMPfam_DUF1041,HMMPfam_Membr_traf_MHD	-	no_errors
ZNF655	79027	genome.wustl.edu	37	7	99161497	99161506	+	Frame_Shift_Del	DEL	CGCCTTCCCA	CGCCTTCCCA	-	novel	unknown	TCGA-AO-A0JJ-01A-11W-A071-09	TCGA-AO-A0JJ-10A-01W-A071-09	CGCCTTCCCA	CGCCTTCCCA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	7	99161497	99161506	CGCCTTCCCA	-	DEL	ZNF655	NM_001085367	human	genbank	57_37b	+1	reviewed	frame_shift_del	c.361_370	p.R121fs	1.000:1.000:0.998:1.000:1.000:1.000:1.000:1.000:0.997:1.000	superfamily_Krueppel-associated_box,HMMSmart_KRAB	superfamily_Krueppel-associated_box,HMMPfam_KRAB,HMMSmart_KRAB	(deletion:cds_exon[99161486,99161682])	no_errors
