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	
ADAD2	161931	genome.wustl.edu	37	16	84230500	84230500	+	Silent	SNP	A	A	C	rs2303243	byCluster;byFrequency;by2Hit2Allele;byHapMap;by1000genomes	TCGA-A8-A082-01	TCGA-A8-A082-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	16	84230500	84230500	A	C	SNP	ADAD2	NM_139174	human	genbank	57_37b	+1	validated	silent	c.1918	p.R640	0.977	HMMPfam_A_deamin	HMMPfam_dsrm,HMMPfam_A_deamin	-		
APTX	54840	genome.wustl.edu	37	9	33001567	33001567	+	Missense_Mutation	SNP	C	C	A	novel	unknown	TCGA-A8-A082-01	TCGA-A8-A082-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	9	33001567	33001567	C	A	SNP	APTX	NM_175069	human	genbank	57_37b	-1	reviewed	missense	c.36	p.W12C	0.439	superfamily_SMAD_FHA	superfamily_SMAD_FHA,superfamily_His_triad-like_motif,HMMPfam_HIT,PatternScan_HIT_1	-	no_errors	
BPTF	2186	genome.wustl.edu	37	17	65925453	65925453	+	Silent	SNP	C	C	T	novel	unknown	TCGA-A8-A082-01	TCGA-A8-A082-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	17	65925453	65925453	C	T	SNP	BPTF	NM_182641	human	genbank	57_37b	+1	reviewed	silent	c.6000	p.G2000	0.966	NULL	HMMPfam_FYDLN_acid,HMMPfam_DDT,HMMSmart_DDT,superfamily_FYVE_PHD_ZnF,HMMSmart_PHD,HMMPfam_PHD,PatternScan_ZF_PHD_1,PatternScan_EGF_2,HMMSmart_BROMO,superfamily_Bromodomain,HMMPfam_Bromodomain,PatternScan_BROMODOMAIN_1	-	no_errors	
C11orf63	79864	genome.wustl.edu	37	11	122828073	122828073	+	Silent	SNP	G	G	A	novel	unknown	TCGA-A8-A082-01	TCGA-A8-A082-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	11	122828073	122828073	G	A	SNP	C11orf63	NM_024806	human	genbank	57_37b	+1	validated	silent	c.2013	p.T671	0.983	NULL	NULL	-	no_errors	
CLDN16	10686	genome.wustl.edu	37	3	190122573	190122573	+	Silent	SNP	G	G	A	novel	unknown	TCGA-A8-A082-01	TCGA-A8-A082-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3	190122573	190122573	G	A	SNP	CLDN16	NM_006580	human	genbank	57_37b	+1	reviewed	silent	c.450	p.A150	0.000	HMMPfam_PMP22_Claudin	HMMPfam_PMP22_Claudin,PatternScan_CLAUDIN	-	no_errors	
COL27A1	85301	genome.wustl.edu	37	9	116930472	116930472	+	Missense_Mutation	SNP	C	C	G	novel	unknown	TCGA-A8-A082-01	TCGA-A8-A082-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	9	116930472	116930472	C	G	SNP	COL27A1	NM_032888	human	genbank	57_37b	+1	provisional	missense	c.637	p.L213V	1.000	HMMSmart_SM00210,superfamily_Concanavalin A-like lectins/glucanases	HMMSmart_SM00210,superfamily_Concanavalin A-like lectins/glucanases,HMMPfam_Collagen,HMMSmart_SM00038,HMMPfam_COLFI	-	no_errors	
CPA4	51200	genome.wustl.edu	37	7	129939179	129939179	+	Nonsense_Mutation	SNP	C	C	T	novel	unknown	TCGA-A8-A082-01	TCGA-A8-A082-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	7	129939179	129939179	C	T	SNP	CPA4	NM_016352	human	genbank	57_37b	+1	reviewed	nonsense	c.220	p.Q74*	0.572	superfamily_Protease propeptides/inhibitors,HMMPfam_Propep_M14	superfamily_Protease propeptides/inhibitors,HMMPfam_Propep_M14,superfamily_Zn-dependent exopeptidases,HMMSmart_SM00631,HMMPfam_Peptidase_M14,PatternScan_CARBOXYPEPT_ZN_1,PatternScan_CARBOXYPEPT_ZN_2	-	no_errors	
CROCCL1	84809	genome.wustl.edu	37	1	16946407	16946407	+	RNA	SNP	T	T	G	rs10796418	byCluster;by2Hit2Allele;byHapMap	TCGA-A8-A082-01	TCGA-A8-A082-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	16946407	16946407	T	G	SNP	CROCCL1	NR_026752	human	genbank	57_37b	-1	validated	rna	NULL	NULL	1.000	-	-	-		
ENPP3	5169	genome.wustl.edu	37	6	132054845	132054845	+	Missense_Mutation	SNP	G	G	C	novel	unknown	TCGA-A8-A082-01	TCGA-A8-A082-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	132054845	132054845	G	C	SNP	ENPP3	NM_005021	human	genbank	57_37b	+1	reviewed	missense	c.2071	p.G691R	1.000	superfamily_SSF54060,HMMSmart_NUC	HMMSmart_SO,HMMPfam_Somatomedin_B,superfamily_SSF90188,PatternScan_SMB_1,superfamily_Alkaline_phosphatase_core,HMMPfam_Phosphodiest,superfamily_SSF54060,HMMSmart_NUC	-	no_errors	
EP400	57634	genome.wustl.edu	37	12	132551471	132551471	+	Silent	SNP	C	C	T	novel	unknown	TCGA-A8-A082-01	TCGA-A8-A082-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	12	132551471	132551471	C	T	SNP	EP400	NM_015409	human	genbank	57_37b	+1	validated	silent	c.8703	p.V2901	0.045	NULL	HMMPfam_HSA,HMMSmart_HSA,superfamily_SSF52540,HMMSmart_DEXDc,HMMPfam_SNF2_N,HMMSmart_HELICc,HMMPfam_Helicase_C,superfamily_Homeodomain_like	-	no_errors	
FOXA1	3169	genome.wustl.edu	37	14	38061240	38061240	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-A8-A082-01	TCGA-A8-A082-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	14	38061240	38061240	G	A	SNP	FOXA1	NM_004496	human	genbank	57_37b	-1	reviewed	missense	c.749	p.S250F	1.000	HMMSmart_FH,superfamily_SSF46785,HMMPfam_Fork_head	HMMPfam_Fork_head_N,HMMSmart_FH,superfamily_SSF46785,PatternScan_FORK_HEAD_1,HMMPfam_Fork_head,PatternScan_FORK_HEAD_2,HMMPfam_HNF_C	-	no_errors	
GDAP1	54332	genome.wustl.edu	37	8	75276279	75276279	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-A8-A082-01	TCGA-A8-A082-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	8	75276279	75276279	G	A	SNP	GDAP1	NM_018972	human	genbank	57_37b	+1	reviewed	missense	c.754	p.A252T	1.000	superfamily_Glutathione S-transferase (GST) C-terminal domain,HMMPfam_GST_C	HMMPfam_GST_N,superfamily_Thioredoxin-like,superfamily_Glutathione S-transferase (GST) C-terminal domain,HMMPfam_GST_C	-	no_errors	
KIF19	124602	genome.wustl.edu	37	17	72350402	72350402	+	Missense_Mutation	SNP	G	G	A	rs2271534	byCluster;by1000genomes	TCGA-A8-A082-01	TCGA-A8-A082-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	17	72350402	72350402	G	A	SNP	KIF19	NM_153209	human	genbank	57_37b	+1	validated	missense	c.2410	p.A804T	0.117	NULL	HMMSmart_SM00129,superfamily_P-loop containing nucleoside triphosphate hydrolases,HMMPfam_Kinesin,PatternScan_KINESIN_MOTOR_DOMAIN1	-		
LANCL2	55915	genome.wustl.edu	37	7	55479727	55479727	+	Missense_Mutation	SNP	T	T	G	novel	unknown	TCGA-A8-A082-01	TCGA-A8-A082-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	7	55479727	55479727	T	G	SNP	LANCL2	NM_018697	human	genbank	57_37b	+1	validated	missense	c.953	p.V318G	0.988	HMMPfam_LANC_like,superfamily_Glyco_trans_6hp	HMMPfam_LANC_like,superfamily_Glyco_trans_6hp	-	no_errors	
LSS	4047	genome.wustl.edu	37	21	47635176	47635176	+	Missense_Mutation	SNP	T	T	C	rs34115287	byCluster;byFrequency;by1000genomes	TCGA-A8-A082-01	TCGA-A8-A082-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	21	47635176	47635176	T	C	SNP	LSS	NM_001001438	human	genbank	57_37b	-1	reviewed	missense	c.929	p.H310R	0.016	superfamily_Terp_cyc_toroid	superfamily_Terp_cyc_toroid,HMMPfam_Prenyltrans,PatternScan_TERPENE_SYNTHASES	-		
MAP3K1	4214	genome.wustl.edu	37	5	56183243	56183248	+	In_Frame_Del	DEL	AGAATT	AGAATT	-	novel	unknown	TCGA-A8-A082-01	TCGA-A8-A082-01	AGAATT	AGAATT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	5	56183243	56183248	AGAATT	-	DEL	MAP3K1	NM_005921	human	genbank	57_37b	+1	validated	in_frame_del	c.4153_4158	p.RI1385in_frame_del	1.000:1.000:1.000:1.000:1.000:1.000	superfamily_Kinase_like,HMMSmart_S_TKc,HMMPfam_Pkinase	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[56183205,56183347])	no_errors	
MAP3K1	4214	genome.wustl.edu	37	5	56183311	56183311	+	Frame_Shift_Del	DEL	A	A	-	novel	unknown	TCGA-A8-A082-01	TCGA-A8-A082-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	5	56183311	56183311	A	-	DEL	MAP3K1	NM_005921	human	genbank	57_37b	+1	validated	frame_shift_del	c.4221	p.Q1408fs	1.000	HMMSmart_S_TKc,superfamily_Kinase_like,HMMPfam_Pkinase	HMMSmart_RING,HMMSmart_S_TKc,HMMPfam_SWIM,PatternScan_PROTEIN_KINASE_ST,superfamily_Kinase_like,PatternScan_PROTEIN_KINASE_ATP,HMMPfam_Pkinase,PatternScan_ZF_RING_1,superfamily_SSF57850	(deletion:cds_exon[56183205,56183347])	no_errors	
MGA	23269	genome.wustl.edu	37	15	41988487	41988487	+	Missense_Mutation	SNP	C	C	G	novel	unknown	TCGA-A8-A082-01	TCGA-A8-A082-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	15	41988487	41988487	C	G	SNP	MGA	NM_001080541	human	genbank	57_37b	+1	validated	missense	c.1279	p.L427V	0.964	NULL	superfamily_p53-like transcription factors,HMMSmart_SM00425,HMMPfam_T-box,PatternScan_TBOX_2,HMMPfam_HLH,superfamily_HLH helix-loop-helix DNA-binding domain,HMMSmart_SM00353	-	no_errors	
MMP9	4318	genome.wustl.edu	37	20	44640290	44640290	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-A8-A082-01	TCGA-A8-A082-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	20	44640290	44640290	G	A	SNP	MMP9	NM_004994	human	genbank	57_37b	+1	reviewed	missense	c.901	p.A301T	0.036	"superfamily_Metalloproteases (""zincins"") catalytic domain,HMMSmart_SM00235,HMMPfam_Peptidase_M10,superfamily_Kringle-like,HMMSmart_SM00059,HMMPfam_fn2,PatternScan_FN2_1"	"superfamily_PGBD-like,HMMPfam_PG_binding_1,PatternScan_CYSTEINE_SWITCH,superfamily_Metalloproteases (""zincins"") catalytic domain,HMMSmart_SM00235,HMMPfam_Peptidase_M10,superfamily_Kringle-like,HMMSmart_SM00059,HMMPfam_fn2,PatternScan_FN2_1,HMMPfam_PT,superfamily_Hemopexin-like domain,HMMPfam_Hemopexin,HMMSmart_SM00120,PatternScan_HEMOPEXIN"	-	no_errors	
MRPL46	26589	genome.wustl.edu	37	15	89002851	89002851	+	Missense_Mutation	SNP	T	T	G	novel	unknown	TCGA-A8-A082-01	TCGA-A8-A082-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	15	89002851	89002851	T	G	SNP	MRPL46	NM_022163	human	genbank	57_37b	-1	reviewed	missense	c.833	p.D278A	1.000	NULL	NULL	-	no_errors	
NAA11	0	genome.wustl.edu	37	4	80246828	80246828	+	Silent	SNP	C	C	T	novel	unknown	TCGA-A8-A082-01	TCGA-A8-A082-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	4	80246828	80246828	C	T	SNP	NAA11	NM_032693	human	genbank	57_37b	-1	validated	silent	c.204	p.P68	0.615	superfamily_Acyl_CoA_acyltransferase,HMMPfam_Acetyltransf_1	superfamily_Acyl_CoA_acyltransferase,HMMPfam_Acetyltransf_1	-	no_errors	
OAS2	4939	genome.wustl.edu	37	12	113435383	113435383	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-A8-A082-01	TCGA-A8-A082-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	12	113435383	113435383	C	T	SNP	OAS2	NM_016817	human	genbank	57_37b	+1	reviewed	missense	c.686	p.T229M	0.000	HMMPfam_OAS1_C,superfamily_PAP/OAS1 substrate-binding domain	superfamily_Nucleotidyltransferase,PatternScan_25A_SYNTH_1,HMMPfam_OAS1_C,superfamily_PAP/OAS1 substrate-binding domain,PatternScan_25A_SYNTH_2,HMMPfam_NTP_transf_2	-	no_errors	
OR8U8	504189	genome.wustl.edu	37	11	1857112	1857112	+	Missense_Mutation	SNP	C	C	A	rs907606	byCluster;byFrequency;bySubmitter;by2Hit2Allele;by1000genomes	TCGA-A8-A082-01	TCGA-A8-A082-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	11	1857112	1857112	C	A	SNP	OR8U8	NM_001013356	human	genbank	57_37b	+1	provisional	missense	c.845	p.S282Y	0.713	NULL	NULL	-		
PDCD6	10016	genome.wustl.edu	37	5	311478	311478	+	Silent	SNP	T	T	C	rs2244029	byCluster;byFrequency;by2Hit2Allele;byHapMap;by1000genomes	TCGA-A8-A082-01	TCGA-A8-A082-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	5	311478	311478	T	C	SNP	PDCD6	NM_013232	human	genbank	57_37b	+1	reviewed	silent	c.438	p.I146	0.031	superfamily_SSF47473,HMMSmart_EFh	superfamily_SSF47473,HMMSmart_EFh,HMMPfam_efhand,PatternScan_EF_HAND_1	-		
PDE11A	50940	genome.wustl.edu	37	2	178682608	178682608	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-A8-A082-01	TCGA-A8-A082-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	2	178682608	178682608	C	T	SNP	PDE11A	NM_016953	human	genbank	57_37b	-1	reviewed	missense	c.1621	p.D541N	1.000	HMMPfam_GAF,HMMSmart_SM00065,superfamily_GAF domain-like	superfamily_GAF domain-like,HMMPfam_GAF,HMMSmart_SM00065,superfamily_HD-domain/PDEase-like,HMMSmart_SM00471,HMMPfam_PDEase_I,PatternScan_PDEASE_I	-	no_errors	
PPL	5493	genome.wustl.edu	37	16	4937211	4937211	+	Silent	SNP	G	G	A	novel	unknown	TCGA-A8-A082-01	TCGA-A8-A082-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	16	4937211	4937211	G	A	SNP	PPL	NM_002705	human	genbank	57_37b	-1	reviewed	silent	c.2532	p.A844	1.000	superfamily_Spectrin repeat,HMMSmart_SM00150	HMMSmart_SM00150,superfamily_Spectrin repeat,superfamily_Plakin repeat,HMMSmart_SM00250,HMMPfam_Plectin	-	no_errors	
SLC13A4	26266	genome.wustl.edu	37	7	135376383	135376383	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-A8-A082-01	TCGA-A8-A082-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	7	135376383	135376383	G	A	SNP	SLC13A4	NM_012450	human	genbank	57_37b	-1	validated	missense	c.1231	p.R411C	1.000	HMMPfam_Na_sulph_symp	HMMPfam_Na_sulph_symp	-	no_errors	
TBX18	9096	genome.wustl.edu	37	6	85446535	85446535	+	Silent	SNP	C	C	T	novel	unknown	TCGA-A8-A082-01	TCGA-A8-A082-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	85446535	85446535	C	T	SNP	TBX18	NM_001080508	human	genbank	57_37b	-1	provisional	silent	c.1692	p.T564	0.007	NULL	superfamily_P53_like_DNA_bnd,HMMSmart_TBOX,HMMPfam_T-box,PatternScan_TBOX_1,PatternScan_TBOX_2	-	no_errors	
UTP14A	10813	genome.wustl.edu	37	X	129059021	129059021	+	Silent	SNP	A	A	G	novel	unknown	TCGA-A8-A082-01	TCGA-A8-A082-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	X	129059021	129059021	A	G	SNP	UTP14A	NM_006649	human	genbank	57_37b	+1	reviewed	silent	c.1599	p.L533	0.006	HMMPfam_Utp14	HMMPfam_Utp14	-	no_errors	
VIPAR	0	genome.wustl.edu	37	14	77910639	77910640	+	Frame_Shift_Ins	INS	-	-	TTGTC	novel	unknown	TCGA-A8-A082-01	TCGA-A8-A082-01	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	14	77910639	77910640	-	TTGTC	INS	VIPAR	NM_022067	human	genbank	57_37b	-1	provisional	frame_shift_ins	c.550_549	p.L183fs	1.000:0.230	HMMPfam_Golgin_A5	HMMPfam_Golgin_A5	-	no_errors	
