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	Tumor_Sample_UUID	Matched_Norm_Sample_UUID	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	transcript_error
APTX	54840	genome.wustl.edu	37	9	33001567	33001567	+	Missense_Mutation	SNP	C	C	A	novel	unknown	TCGA-A8-A082-01A-11W-A019-09	TCGA-A8-A082-10A-01W-A021-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	575d25ea-eae7-423a-9464-d3b2806bf9eb	576b6dc6-351b-4a61-b6e4-fbfda702de27	9	33001567	33001567	C	A	SNP	APTX	NM_175069.1	human	genbank	58_37c	-1	reviewed	missense	c.36	p.W12C	0.439	superfamily_SMAD_FHA	HMMPfam_HIT,superfamily_SMAD_FHA,superfamily_His_triad-like_motif,PatternScan_HIT_1	-	no_errors
BPTF	2186	genome.wustl.edu	37	17	65925453	65925453	+	Silent	SNP	C	C	T	novel	unknown	TCGA-A8-A082-01A-11W-A019-09	TCGA-A8-A082-10A-01W-A021-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	575d25ea-eae7-423a-9464-d3b2806bf9eb	576b6dc6-351b-4a61-b6e4-fbfda702de27	17	65925453	65925453	C	T	SNP	BPTF	NM_182641.3	human	genbank	58_37c	+1	reviewed	silent	c.6000	p.G2000	0.966	NULL	HMMPfam_Bromodomain,HMMSmart_BROMO,superfamily_Bromodomain,HMMSmart_PHD,HMMPfam_DDT,superfamily_FYVE_PHD_ZnF,HMMPfam_FYDLN_acid,PatternScan_EGF_2,PatternScan_BROMODOMAIN_1,HMMSmart_DDT,PatternScan_ZF_PHD_1,HMMPfam_PHD	-	no_errors
C11orf63	79864	genome.wustl.edu	37	11	122828073	122828073	+	Silent	SNP	G	G	A	novel	unknown	TCGA-A8-A082-01A-11W-A019-09	TCGA-A8-A082-10A-01W-A021-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	575d25ea-eae7-423a-9464-d3b2806bf9eb	576b6dc6-351b-4a61-b6e4-fbfda702de27	11	122828073	122828073	G	A	SNP	C11orf63	NM_024806.2	human	genbank	58_37c	+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-A082-01A-11W-A019-09	TCGA-A8-A082-10A-01W-A021-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	575d25ea-eae7-423a-9464-d3b2806bf9eb	576b6dc6-351b-4a61-b6e4-fbfda702de27	3	190122573	190122573	G	A	SNP	CLDN16	NM_006580.3	human	genbank	58_37c	+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-A082-01A-11W-A019-09	TCGA-A8-A082-10A-01W-A021-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	575d25ea-eae7-423a-9464-d3b2806bf9eb	576b6dc6-351b-4a61-b6e4-fbfda702de27	9	116930472	116930472	C	G	SNP	COL27A1	NM_032888.2	human	genbank	58_37c	+1	validated	missense	c.637	p.L213V	1.000	HMMSmart_SM00210,superfamily_Concanavalin A-like lectins/glucanases	HMMPfam_COLFI,HMMSmart_SM00038,HMMSmart_SM00210,HMMPfam_Collagen,superfamily_Concanavalin A-like lectins/glucanases	-	no_errors
CPA4	51200	genome.wustl.edu	37	7	129939179	129939179	+	Nonsense_Mutation	SNP	C	C	T	novel	unknown	TCGA-A8-A082-01A-11W-A019-09	TCGA-A8-A082-10A-01W-A021-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	575d25ea-eae7-423a-9464-d3b2806bf9eb	576b6dc6-351b-4a61-b6e4-fbfda702de27	7	129939179	129939179	C	T	SNP	CPA4	NM_016352.3	human	genbank	58_37c	+1	reviewed	nonsense	c.220	p.Q74*	0.572	HMMPfam_Propep_M14,superfamily_Protease propeptides/inhibitors	HMMPfam_Peptidase_M14,HMMSmart_SM00631,PatternScan_CARBOXYPEPT_ZN_1,PatternScan_CARBOXYPEPT_ZN_2,HMMPfam_Propep_M14,superfamily_Protease propeptides/inhibitors,superfamily_Zn-dependent exopeptidases	-	no_errors
CROCCL1	84809	genome.wustl.edu	37	1	16946407	16946407	+	RNA	SNP	T	T	G	rs10796418	byCluster;by2Hit2Allele;byHapmap	TCGA-A8-A082-01A-11W-A019-09	TCGA-A8-A082-10A-01W-A021-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	575d25ea-eae7-423a-9464-d3b2806bf9eb	576b6dc6-351b-4a61-b6e4-fbfda702de27	1	16946407	16946407	T	G	SNP	CROCCL1	NR_026752.1	human	genbank	58_37c	-1	validated	rna	NULL	NULL	1.000	-	-	-	pseudogene
ENPP3	5169	genome.wustl.edu	37	6	132054845	132054845	+	Missense_Mutation	SNP	G	G	C	novel	unknown	TCGA-A8-A082-01A-11W-A019-09	TCGA-A8-A082-10A-01W-A021-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	575d25ea-eae7-423a-9464-d3b2806bf9eb	576b6dc6-351b-4a61-b6e4-fbfda702de27	6	132054845	132054845	G	C	SNP	ENPP3	NM_005021.3	human	genbank	58_37c	+1	reviewed	missense	c.2071	p.G691R	1.000	HMMSmart_NUC,superfamily_SSF54060	HMMPfam_Somatomedin_B,HMMSmart_SO,PatternScan_SMB_1,HMMSmart_NUC,HMMPfam_Phosphodiest,superfamily_Alkaline_phosphatase_core,superfamily_SSF54060,superfamily_SSF90188	-	no_errors
EP400	57634	genome.wustl.edu	37	12	132551471	132551471	+	Silent	SNP	C	C	T	novel	unknown	TCGA-A8-A082-01A-11W-A019-09	TCGA-A8-A082-10A-01W-A021-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	575d25ea-eae7-423a-9464-d3b2806bf9eb	576b6dc6-351b-4a61-b6e4-fbfda702de27	12	132551471	132551471	C	T	SNP	EP400	NM_015409.3	human	genbank	58_37c	+1	validated	silent	c.8703	p.V2901	0.045	NULL	HMMPfam_SNF2_N,HMMPfam_Helicase_C,HMMSmart_HELICc,HMMPfam_HSA,superfamily_Homeodomain_like,HMMSmart_HSA,HMMSmart_DEXDc,superfamily_SSF52540	-	no_errors
FOXA1	3169	genome.wustl.edu	37	14	38061240	38061240	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-A8-A082-01A-11W-A019-09	TCGA-A8-A082-10A-01W-A021-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	575d25ea-eae7-423a-9464-d3b2806bf9eb	576b6dc6-351b-4a61-b6e4-fbfda702de27	14	38061240	38061240	G	A	SNP	FOXA1	NM_004496.2	human	genbank	58_37c	-1	reviewed	missense	c.749	p.S250F	1.000	HMMPfam_Fork_head,HMMSmart_FH,superfamily_SSF46785	HMMPfam_Fork_head,HMMSmart_FH,HMMPfam_Fork_head_N,PatternScan_FORK_HEAD_1,PatternScan_FORK_HEAD_2,HMMPfam_HNF_C,superfamily_SSF46785	-	no_errors
GDAP1	54332	genome.wustl.edu	37	8	75276279	75276279	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-A8-A082-01A-11W-A019-09	TCGA-A8-A082-10A-01W-A021-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	575d25ea-eae7-423a-9464-d3b2806bf9eb	576b6dc6-351b-4a61-b6e4-fbfda702de27	8	75276279	75276279	G	A	SNP	GDAP1	NM_018972.2	human	genbank	58_37c	+1	reviewed	missense	c.754	p.A252T	1.000	HMMPfam_GST_C,superfamily_Glutathione S-transferase (GST) C-terminal domain	HMMPfam_GST_N,HMMPfam_GST_C,superfamily_Glutathione S-transferase (GST) C-terminal domain,superfamily_Thioredoxin-like	-	no_errors
LANCL2	55915	genome.wustl.edu	37	7	55479727	55479727	+	Missense_Mutation	SNP	T	T	G	novel	unknown	TCGA-A8-A082-01A-11W-A019-09	TCGA-A8-A082-10A-01W-A021-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	575d25ea-eae7-423a-9464-d3b2806bf9eb	576b6dc6-351b-4a61-b6e4-fbfda702de27	7	55479727	55479727	T	G	SNP	LANCL2	NM_018697.3	human	genbank	58_37c	+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
MAP3K1	4214	genome.wustl.edu	37	5	56183243	56183248	+	In_Frame_Del	DEL	AGAATT	AGAATT	-	novel	unknown	TCGA-A8-A082-01A-11W-A019-09	TCGA-A8-A082-10A-01W-A021-09	AGAATT	AGAATT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	575d25ea-eae7-423a-9464-d3b2806bf9eb	576b6dc6-351b-4a61-b6e4-fbfda702de27	5	56183243	56183248	AGAATT	-	DEL	MAP3K1	NM_005921.1	human	genbank	58_37c	+1	validated	in_frame_del	c.4153_4158	p.RI1385in_frame_del	1.000:1.000:1.000:1.000:1.000:1.000	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	-	no_errors
MAP3K1	4214	genome.wustl.edu	37	5	56183311	56183311	+	Frame_Shift_Del	DEL	A	A	-	novel	unknown	TCGA-A8-A082-01A-11W-A019-09	TCGA-A8-A082-10A-01W-A021-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	575d25ea-eae7-423a-9464-d3b2806bf9eb	576b6dc6-351b-4a61-b6e4-fbfda702de27	5	56183311	56183311	A	-	DEL	MAP3K1	NM_005921.1	human	genbank	58_37c	+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	-	no_errors
MGA	23269	genome.wustl.edu	37	15	41988487	41988487	+	Missense_Mutation	SNP	C	C	G	novel	unknown	TCGA-A8-A082-01A-11W-A019-09	TCGA-A8-A082-10A-01W-A021-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	575d25ea-eae7-423a-9464-d3b2806bf9eb	576b6dc6-351b-4a61-b6e4-fbfda702de27	15	41988487	41988487	C	G	SNP	MGA	NM_001080541.2	human	genbank	58_37c	+1	validated	missense	c.1279	p.L427V	0.964	NULL	HMMPfam_HLH,HMMSmart_SM00353,HMMPfam_T-box,HMMSmart_SM00425,superfamily_p53-like transcription factors,superfamily_HLH helix-loop-helix DNA-binding domain,PatternScan_TBOX_2	-	no_errors
MMP9	4318	genome.wustl.edu	37	20	44640290	44640290	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-A8-A082-01A-11W-A019-09	TCGA-A8-A082-10A-01W-A021-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	575d25ea-eae7-423a-9464-d3b2806bf9eb	576b6dc6-351b-4a61-b6e4-fbfda702de27	20	44640290	44640290	G	A	SNP	MMP9	NM_004994.2	human	genbank	58_37c	+1	reviewed	missense	c.901	p.A301T	0.036	"HMMPfam_fn2,HMMSmart_SM00059,PatternScan_FN2_1,HMMPfam_Peptidase_M10,HMMSmart_SM00235,superfamily_Kringle-like,superfamily_Metalloproteases (""zincins"") catalytic domain"	"HMMPfam_fn2,HMMSmart_SM00059,PatternScan_FN2_1,superfamily_Hemopexin-like domain,HMMPfam_Peptidase_M10,PatternScan_CYSTEINE_SWITCH,HMMPfam_PG_binding_1,superfamily_PGBD-like,HMMSmart_SM00235,HMMPfam_PT,superfamily_Kringle-like,PatternScan_HEMOPEXIN,HMMPfam_Hemopexin,HMMSmart_SM00120,superfamily_Metalloproteases (""zincins"") catalytic domain"	-	no_errors
MRPL46	26589	genome.wustl.edu	37	15	89002851	89002851	+	Missense_Mutation	SNP	T	T	G	novel	unknown	TCGA-A8-A082-01A-11W-A019-09	TCGA-A8-A082-10A-01W-A021-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	575d25ea-eae7-423a-9464-d3b2806bf9eb	576b6dc6-351b-4a61-b6e4-fbfda702de27	15	89002851	89002851	T	G	SNP	MRPL46	NM_022163.3	human	genbank	58_37c	-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-A082-01A-11W-A019-09	TCGA-A8-A082-10A-01W-A021-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	575d25ea-eae7-423a-9464-d3b2806bf9eb	576b6dc6-351b-4a61-b6e4-fbfda702de27	4	80246828	80246828	C	T	SNP	NAA11	NM_032693.2	human	genbank	58_37c	-1	validated	silent	c.204	p.P68	0.615	HMMPfam_Acetyltransf_1,superfamily_Acyl_CoA_acyltransferase	HMMPfam_Acetyltransf_1,superfamily_Acyl_CoA_acyltransferase	-	no_errors
OAS2	4939	genome.wustl.edu	37	12	113435383	113435383	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-A8-A082-01A-11W-A019-09	TCGA-A8-A082-10A-01W-A021-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	575d25ea-eae7-423a-9464-d3b2806bf9eb	576b6dc6-351b-4a61-b6e4-fbfda702de27	12	113435383	113435383	C	T	SNP	OAS2	NM_016817.2	human	genbank	58_37c	+1	reviewed	missense	c.686	p.T229M	0.000	HMMPfam_OAS1_C,superfamily_PAP/OAS1 substrate-binding domain	HMMPfam_NTP_transf_2,PatternScan_25A_SYNTH_1,PatternScan_25A_SYNTH_2,HMMPfam_OAS1_C,superfamily_Nucleotidyltransferase,superfamily_PAP/OAS1 substrate-binding domain	-	no_errors
PDE11A	50940	genome.wustl.edu	37	2	178682608	178682608	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-A8-A082-01A-11W-A019-09	TCGA-A8-A082-10A-01W-A021-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	575d25ea-eae7-423a-9464-d3b2806bf9eb	576b6dc6-351b-4a61-b6e4-fbfda702de27	2	178682608	178682608	C	T	SNP	PDE11A	NM_016953.3	human	genbank	58_37c	-1	reviewed	missense	c.1621	p.D541N	1.000	HMMPfam_GAF,HMMSmart_SM00065,superfamily_GAF domain-like	HMMPfam_PDEase_I,PatternScan_PDEASE_I,HMMPfam_GAF,HMMSmart_SM00065,HMMSmart_SM00471,superfamily_HD-domain/PDEase-like,superfamily_GAF domain-like	-	no_errors
PPL	5493	genome.wustl.edu	37	16	4937211	4937211	+	Silent	SNP	G	G	A	novel	unknown	TCGA-A8-A082-01A-11W-A019-09	TCGA-A8-A082-10A-01W-A021-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	575d25ea-eae7-423a-9464-d3b2806bf9eb	576b6dc6-351b-4a61-b6e4-fbfda702de27	16	4937211	4937211	G	A	SNP	PPL	NM_002705.4	human	genbank	58_37c	-1	reviewed	silent	c.2532	p.A844	1.000	HMMSmart_SM00150,superfamily_Spectrin repeat	HMMPfam_Plectin,HMMSmart_SM00250,HMMSmart_SM00150,superfamily_Spectrin repeat,superfamily_Plakin repeat	-	no_errors
SLC13A4	26266	genome.wustl.edu	37	7	135376383	135376383	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-A8-A082-01A-11W-A019-09	TCGA-A8-A082-10A-01W-A021-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	575d25ea-eae7-423a-9464-d3b2806bf9eb	576b6dc6-351b-4a61-b6e4-fbfda702de27	7	135376383	135376383	G	A	SNP	SLC13A4	NM_012450.2	human	genbank	58_37c	-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-A082-01A-11W-A019-09	TCGA-A8-A082-10A-01W-A021-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	575d25ea-eae7-423a-9464-d3b2806bf9eb	576b6dc6-351b-4a61-b6e4-fbfda702de27	6	85446535	85446535	C	T	SNP	TBX18	NM_001080508.1	human	genbank	58_37c	-1	provisional	silent	c.1692	p.T564	0.007	NULL	HMMPfam_T-box,HMMSmart_TBOX,superfamily_P53_like_DNA_bnd,PatternScan_TBOX_2,PatternScan_TBOX_1	-	no_errors
UTP14A	10813	genome.wustl.edu	37	X	129059021	129059021	+	Silent	SNP	A	A	G	novel	unknown	TCGA-A8-A082-01A-11W-A019-09	TCGA-A8-A082-10A-01W-A021-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	575d25ea-eae7-423a-9464-d3b2806bf9eb	576b6dc6-351b-4a61-b6e4-fbfda702de27	X	129059021	129059021	A	G	SNP	UTP14A	NM_006649.3	human	genbank	58_37c	+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-A082-01A-11W-A019-09	TCGA-A8-A082-10A-01W-A021-09	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	575d25ea-eae7-423a-9464-d3b2806bf9eb	576b6dc6-351b-4a61-b6e4-fbfda702de27	14	77910639	77910640	-	TTGTC	INS	VIPAR	NM_022067.2	human	genbank	58_37c	-1	provisional	frame_shift_ins	c.550_549	p.L183fs	1.000:0.230	HMMPfam_Golgin_A5	HMMPfam_Golgin_A5	-	no_errors
