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
ATN1	0	genome.wustl.edu	37	12	7045892	7045903	+	In_Frame_Del	DEL	CAGCAGCAGCAG	CAGCAGCAGCAG	-	novel	unknown	TCGA-EW-A1PG-01A-11D-A142-09	TCGA-EW-A1PG-10A-01D-A142-09	CAGCAGCAGCAG	CAGCAGCAGCAG					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	bd3801e2-c5bb-4116-9ce3-97903fc6956e	01c3cc25-bb81-4cc3-a9aa-e07f44991c3f	12	7045892	7045903	CAGCAGCAGCAG	-	DEL	ATN1	NM_001007026.1	human	genbank	58_37c	+1	reviewed	in_frame_del	c.1462_1473	p.QQQQ491in_frame_del	0.834:0.709:0.730:0.772:0.719:0.700:0.962:0.955:0.948:0.969:0.915:0.004	HMMPfam_Atrophin-1	HMMPfam_Atrophin-1	-	no_errors
C2orf90	0	genome.wustl.edu	37	2	905660	905660	+	Missense_Mutation	SNP	G	G	A	rs112574570	unknown	TCGA-EW-A1PG-01A-11D-A142-09	TCGA-EW-A1PG-10A-01D-A142-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	bd3801e2-c5bb-4116-9ce3-97903fc6956e	01c3cc25-bb81-4cc3-a9aa-e07f44991c3f	2	905660	905660	G	A	SNP	C2orf90	ENST00000434864	human	ensembl	58_37c	-1	known	missense	c.286	p.R96W	0.000	NULL	NULL	-	no_errors
CADM3	0	genome.wustl.edu	37	1	159163753	159163753	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-EW-A1PG-01A-11D-A142-09	TCGA-EW-A1PG-10A-01D-A142-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	bd3801e2-c5bb-4116-9ce3-97903fc6956e	01c3cc25-bb81-4cc3-a9aa-e07f44991c3f	1	159163753	159163753	C	T	SNP	CADM3	NM_021189.3	human	genbank	58_37c	+1	validated	missense	c.716	p.A239V	0.488	HMMSmart_IG,HMMPfam_C2-set_2,superfamily_SSF48726	HMMSmart_4.1m,HMMSmart_IGc2,HMMSmart_IG,HMMPfam_V-set,HMMPfam_ig,HMMPfam_C2-set_2,superfamily_SSF48726	-	no_errors
CDH26	0	genome.wustl.edu	37	20	58559787	58559787	+	Nonsense_Mutation	SNP	T	T	A	novel	unknown	TCGA-EW-A1PG-01A-11D-A142-09	TCGA-EW-A1PG-10A-01D-A142-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	bd3801e2-c5bb-4116-9ce3-97903fc6956e	01c3cc25-bb81-4cc3-a9aa-e07f44991c3f	20	58559787	58559787	T	A	SNP	CDH26	NM_177980.2	human	genbank	58_37c	+1	reviewed	nonsense	c.635	p.L212*	0.000	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin	HMMPfam_Cadherin,HMMSmart_CA,PatternScan_CADHERIN_1,superfamily_Cadherin	-	no_errors
ENSG00000204038	0	genome.wustl.edu	37	10	82013213	82013213	+	Missense_Mutation	SNP	G	C	C	novel	unknown	TCGA-EW-A1PG-01A-11D-A142-09	TCGA-EW-A1PG-10A-01D-A142-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	bd3801e2-c5bb-4116-9ce3-97903fc6956e	01c3cc25-bb81-4cc3-a9aa-e07f44991c3f	10	82013213	82013213	G	C	SNP	ENSG00000204038	ENST00000356374	human	ensembl	58_37c	+1	known	missense	c.731	p.G244A	0.745	NULL	NULL	-	no_errors
FAM90A24P	0	genome.wustl.edu	37	8	7877827	7877827	+	Missense_Mutation	SNP	C	C	T	rs76663936	unknown	TCGA-EW-A1PG-01A-11D-A142-09	TCGA-EW-A1PG-10A-01D-A142-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	bd3801e2-c5bb-4116-9ce3-97903fc6956e	01c3cc25-bb81-4cc3-a9aa-e07f44991c3f	8	7877827	7877827	C	T	SNP	FAM90A24P	ENST00000400118	human	ensembl	58_37c	-1	known	missense	c.1084	p.D362N	0.000	NULL	NULL	-	no_errors
FRAS1	0	genome.wustl.edu	37	4	79462038	79462038	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-EW-A1PG-01A-11D-A142-09	TCGA-EW-A1PG-10A-01D-A142-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	bd3801e2-c5bb-4116-9ce3-97903fc6956e	01c3cc25-bb81-4cc3-a9aa-e07f44991c3f	4	79462038	79462038	G	A	SNP	FRAS1	ENST00000512123	human	ensembl	58_37c	+1	known	missense	c.6484	p.E2162K	0.045	NULL	HMMPfam_Calx-beta,HMMSmart_SM00237	-	no_start_codon:pseudogene:no_stop_codon:bad_bp_length_for_coding_region
GBP1	0	genome.wustl.edu	37	1	89519074	89519074	+	Silent	SNP	C	C	T	novel	unknown	TCGA-EW-A1PG-01A-11D-A142-09	TCGA-EW-A1PG-10A-01D-A142-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	bd3801e2-c5bb-4116-9ce3-97903fc6956e	01c3cc25-bb81-4cc3-a9aa-e07f44991c3f	1	89519074	89519074	C	T	SNP	GBP1	NM_002053.2	human	genbank	58_37c	-1	validated	silent	c.1743	p.T581	0.000	superfamily_Interferon-induced guanylate-binding protein 1 (GBP1) C-terminal domain	HMMPfam_GBP_C,HMMPfam_GBP,superfamily_Interferon-induced guanylate-binding protein 1 (GBP1) C-terminal domain,superfamily_P-loop containing nucleoside triphosphate hydrolases	-	no_errors
HLA-DRB1	0	genome.wustl.edu	37	6	32557446	32557446	+	Missense_Mutation	SNP	G	G	C	rs148093782	unknown	TCGA-EW-A1PG-01A-11D-A142-09	TCGA-EW-A1PG-10A-01D-A142-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	bd3801e2-c5bb-4116-9ce3-97903fc6956e	01c3cc25-bb81-4cc3-a9aa-e07f44991c3f	6	32557446	32557446	G	C	SNP	HLA-DRB1	NM_002124.2	human	genbank	58_37c	-1	reviewed	missense	c.74	p.P25R	0.000	superfamily_MHC_I/II-like_Ag-recog	HMMPfam_MHC_II_beta,PatternScan_IG_MHC,HMMPfam_C1-set,HMMSmart_IGc1,superfamily_MHC_I/II-like_Ag-recog,superfamily_SSF48726	-	no_errors
IL10RB	0	genome.wustl.edu	37	21	34668541	34668541	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-EW-A1PG-01A-11D-A142-09	TCGA-EW-A1PG-10A-01D-A142-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	bd3801e2-c5bb-4116-9ce3-97903fc6956e	01c3cc25-bb81-4cc3-a9aa-e07f44991c3f	21	34668541	34668541	C	T	SNP	IL10RB	NM_000628.3	human	genbank	58_37c	+1	reviewed	missense	c.857	p.S286L	0.001	NULL	HMMSmart_FN3,superfamily_FN_III-like	-	no_errors
KLF7	0	genome.wustl.edu	37	2	207988824	207988824	+	Nonsense_Mutation	SNP	A	A	T	novel	unknown	TCGA-EW-A1PG-01A-11D-A142-09	TCGA-EW-A1PG-10A-01D-A142-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	bd3801e2-c5bb-4116-9ce3-97903fc6956e	01c3cc25-bb81-4cc3-a9aa-e07f44991c3f	2	207988824	207988824	A	T	SNP	KLF7	NM_003709.2	human	genbank	58_37c	-1	provisional	nonsense	c.407	p.L136*	1.000	NULL	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers	-	no_errors
LOC100132672	0	genome.wustl.edu	37	9	69502164	69502164	+	RNA	SNP	G	G	A	novel	unknown	TCGA-EW-A1PG-01A-11D-A142-09	TCGA-EW-A1PG-10A-01D-A142-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	bd3801e2-c5bb-4116-9ce3-97903fc6956e	01c3cc25-bb81-4cc3-a9aa-e07f44991c3f	9	69502164	69502164	G	A	SNP	LOC100132672	XR_038504.2	human	genbank	58_37c	+1	model	rna	NULL	NULL	0.996	-	-	-	pseudogene
LOC100289581	0	genome.wustl.edu	37	10	135491090	135491090	+	Missense_Mutation	SNP	C	C	A	novel	unknown	TCGA-EW-A1PG-01A-11D-A142-09	TCGA-EW-A1PG-10A-01D-A142-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	bd3801e2-c5bb-4116-9ce3-97903fc6956e	01c3cc25-bb81-4cc3-a9aa-e07f44991c3f	10	135491090	135491090	C	A	SNP	LOC100289581	XM_002343041.1	human	genbank	58_37c	+1	model	missense	c.701	p.P234H	0.124	NULL	HMMPfam_Homeobox,HMMSmart_SM00389,superfamily_Homeodomain-like	-	pseudogene
LOC442132	0	genome.wustl.edu	37	5	7300620	7300620	+	RNA	SNP	C	C	A	rs144573439	unknown	TCGA-EW-A1PG-01A-11D-A142-09	TCGA-EW-A1PG-10A-01D-A142-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	bd3801e2-c5bb-4116-9ce3-97903fc6956e	01c3cc25-bb81-4cc3-a9aa-e07f44991c3f	5	7300620	7300620	C	A	SNP	LOC442132	XR_040018.2	human	genbank	58_37c	-1	model	rna	NULL	NULL	0.015	-	-	-	no_errors
NAA20	0	genome.wustl.edu	37	20	20003112	20003112	+	Silent	SNP	A	A	G	novel	unknown	TCGA-EW-A1PG-01A-11D-A142-09	TCGA-EW-A1PG-10A-01D-A142-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	bd3801e2-c5bb-4116-9ce3-97903fc6956e	01c3cc25-bb81-4cc3-a9aa-e07f44991c3f	20	20003112	20003112	A	G	SNP	NAA20	NM_016100.3	human	genbank	58_37c	+1	validated	silent	c.66	p.P22	0.917	superfamily_Acyl-CoA N-acyltransferases (Nat)	HMMPfam_Acetyltransf_1,superfamily_Acyl-CoA N-acyltransferases (Nat)	-	no_errors
NCOA3	0	genome.wustl.edu	37	20	46279834	46279836	+	In_Frame_Del	DEL	CAA	CAA	-	novel	unknown	TCGA-EW-A1PG-01A-11D-A142-09	TCGA-EW-A1PG-10A-01D-A142-09	CAA	CAA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	bd3801e2-c5bb-4116-9ce3-97903fc6956e	01c3cc25-bb81-4cc3-a9aa-e07f44991c3f	20	46279834	46279836	CAA	-	DEL	NCOA3	NM_181659.2	human	genbank	58_37c	+1	reviewed	in_frame_del	c.3760_3762	p.Q1257in_frame_del	0.527:0.539:0.525	NULL	HMMSmart_SM00091,HMMPfam_HLH,HMMSmart_SM00353,superfamily_Nuclear receptor coactivator interlocking domain,HMMPfam_DUF1518,superfamily_HLH helix-loop-helix DNA-binding domain,HMMPfam_PAS,HMMPfam_Nuc_rec_co-act,HMMPfam_SRC-1,superfamily_PYP-like sensor domain (PAS domain)	-	no_errors
NEUROD1	0	genome.wustl.edu	37	2	182542799	182542799	+	Missense_Mutation	SNP	A	A	T	novel	unknown	TCGA-EW-A1PG-01A-11D-A142-09	TCGA-EW-A1PG-10A-01D-A142-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	bd3801e2-c5bb-4116-9ce3-97903fc6956e	01c3cc25-bb81-4cc3-a9aa-e07f44991c3f	2	182542799	182542799	A	T	SNP	NEUROD1	NM_002500.2	human	genbank	58_37c	-1	reviewed	missense	c.789	p.D263E	0.436	NULL	HMMPfam_HLH,HMMSmart_SM00353,superfamily_HLH helix-loop-helix DNA-binding domain	-	no_errors
OR11H1	0	genome.wustl.edu	37	22	16449539	16449539	+	Missense_Mutation	SNP	A	A	G	rs61969156	unknown	TCGA-EW-A1PG-01A-11D-A142-09	TCGA-EW-A1PG-10A-01D-A142-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	bd3801e2-c5bb-4116-9ce3-97903fc6956e	01c3cc25-bb81-4cc3-a9aa-e07f44991c3f	22	16449539	16449539	A	G	SNP	OR11H1	NM_001005239.1	human	genbank	58_37c	-1	provisional	missense	c.266	p.V89A	0.234	HMMPfam_7tm_1,superfamily_SSF81321	HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1,superfamily_SSF81321	-	no_errors
SEC22B	0	genome.wustl.edu	37	1	145112468	145112468	+	Missense_Mutation	SNP	A	A	C	novel	unknown	TCGA-EW-A1PG-01A-11D-A142-09	TCGA-EW-A1PG-10A-01D-A142-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	bd3801e2-c5bb-4116-9ce3-97903fc6956e	01c3cc25-bb81-4cc3-a9aa-e07f44991c3f	1	145112468	145112468	A	C	SNP	SEC22B	NM_004892.4	human	genbank	58_37c	+1	reviewed	missense	c.442	p.I148L	1.000	HMMPfam_Synaptobrevin	HMMPfam_Synaptobrevin,superfamily_SNARE-like	-	pseudogene
TERF2IP	0	genome.wustl.edu	37	16	75690204	75690206	+	In_Frame_Del	DEL	GAA	GAA	-	novel	unknown	TCGA-EW-A1PG-01A-11D-A142-09	TCGA-EW-A1PG-10A-01D-A142-09	GAA	GAA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	bd3801e2-c5bb-4116-9ce3-97903fc6956e	01c3cc25-bb81-4cc3-a9aa-e07f44991c3f	16	75690204	75690206	GAA	-	DEL	TERF2IP	NM_018975.3	human	genbank	58_37c	+1	reviewed	in_frame_del	c.895_897	p.E302in_frame_del	0.540:0.562:0.617	NULL	superfamily_Homeodomain-like,HMMPfam_Myb_DNA-bind_2	-	no_errors
USP36	0	genome.wustl.edu	37	17	76798549	76798554	+	In_Frame_Del	DEL	TTTTTC	TTTTTC	-	novel	unknown	TCGA-EW-A1PG-01A-11D-A142-09	TCGA-EW-A1PG-10A-01D-A142-09	TTTTTC	TTTTTC					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	bd3801e2-c5bb-4116-9ce3-97903fc6956e	01c3cc25-bb81-4cc3-a9aa-e07f44991c3f	17	76798549	76798554	TTTTTC	-	DEL	USP36	NM_025090.3	human	genbank	58_37c	-1	validated	in_frame_del	c.2879_2874	p.KK959in_frame_del	0.178:0.173:0.043:0.038:0.100:0.107	NULL	HMMPfam_UCH,PatternScan_IG_MHC,PatternScan_UCH_2_1,PatternScan_UCH_2_2,superfamily_SSF54001	-	no_errors
