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	transcript_error_WU
UNC5B	219699	genome.wustl.edu	36	10	72722278	72722278	+	Missense_Mutation	SNP	A	A	G			TCGA-AB-2812-03B-01W-0728-08	TCGA-AB-2812-11B-01W-0728-08	A	A			A	A	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	10	72722278	72722278	A	G	SNP	UNC5B	NM_170744	human	genbank	54_36p	+1	validated	missense	c.1733	p.Y578C	1.000	HMMPfam_ZU5,HMMSmart_SM00218	HMMPfam_Death,HMMSmart_SM00005,HMMPfam_TSP_1,HMMSmart_SM00209,superfamily_TSP-1 type 1 repeat,HMMPfam_ZU5,HMMSmart_SM00218,HMMSmart_SM00408,HMMSmart_SM00409,superfamily_DEATH domain,HMMPfam_I-set,superfamily_Immunoglobulin	-	no_errors
FKBP11	51303	genome.wustl.edu	36	12	47602220	47602220	+	Silent	SNP	C	C	A			TCGA-AB-2812-03B-01W-0728-08	TCGA-AB-2812-11B-01W-0728-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	12	47602220	47602220	C	A	SNP	FKBP11	NM_016594	human	genbank	54_36p	-1	validated	silent	c.420	p.L140	0.997	superfamily_SSF54534,HMMPfam_FKBP_C	superfamily_SSF54534,HMMPfam_FKBP_C	-	no_errors
NHLRC2	374354	genome.wustl.edu	36	10	115654646	115654646	+	Silent	SNP	T	T	C			TCGA-AB-2812-03B-01W-0728-08	TCGA-AB-2812-11B-01W-0728-08	T	T			T	T	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	10	115654646	115654646	T	C	SNP	NHLRC2	NM_198514	human	genbank	54_36p	+1	provisional	silent	c.1785	p.P595	0.999	NULL	superfamily_Thioredoxin-like,superfamily_NHL repeat,HMMPfam_NHL	-	no_errors
LOC646093	646093	genome.wustl.edu	36	5	179585997	179585997	+	RNA	SNP	C	C	T			TCGA-AB-2812-03B-01W-0728-08	TCGA-AB-2812-11B-01W-0728-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	5	179585997	179585997	C	T	SNP	LOC646093	XR_017054	human	genbank	54_36p	-1	model	rna	NULL	NULL	0.998	-	-	-	pseudogene
PVRL2	5819	genome.wustl.edu	36	19	50073438	50073440	+	In_Frame_Del	DEL	GAG	GAG	-			TCGA-AB-2812-03B-01W-0728-08	TCGA-AB-2812-11B-01W-0728-08	GAG	GAG			GAG	GAG	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	19	50073438	50073440	GAG	-	DEL	PVRL2	NM_002856	human	genbank	54_36p	+1	reviewed	in_frame_del	c.1161_1163	p.R391in_frame_del	0.993:0.998:1.000	NULL	HMMPfam_V-set,superfamily_Immunoglobulin,HMMSmart_SM00409,HMMSmart_SM00406,HMMPfam_C2-set_2,HMMPfam_ig	-	no_errors
KCND2	3751	genome.wustl.edu	36	7	119702775	119702775	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2812-03B-01W-0728-08	TCGA-AB-2812-11B-01W-0728-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	7	119702775	119702775	G	A	SNP	KCND2	NM_012281	human	genbank	54_36p	+1	reviewed	missense	c.853	p.V285I	1.000	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels	HMMSmart_SM00225,HMMPfam_K_tetra,HMMPfam_Ion_trans,superfamily_POZ domain,superfamily_Voltage-gated potassium channels	-	no_errors
LOC100130488	100130488	genome.wustl.edu	36	2	94764967	94764967	+	RNA	SNP	C	C	A			TCGA-AB-2812-03B-01W-0728-08	TCGA-AB-2812-11B-01W-0728-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	2	94764967	94764967	C	A	SNP	LOC100130488	XR_037399	human	genbank	54_36p	-1	model	rna	NULL	NULL	0.992	-	-	-	pseudogene
LOC729863	729863	genome.wustl.edu	36	18	15262351	15262351	+	RNA	SNP	C	C	A			TCGA-AB-2812-03B-01W-0728-08	TCGA-AB-2812-11B-01W-0728-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	18	15262351	15262351	C	A	SNP	LOC729863	XR_015683	human	genbank	54_36p	+1	model	rna	NULL	NULL	0.000	-	-	-	pseudogene
LOC727983	727983	genome.wustl.edu	36	22	17216085	17216085	+	RNA	SNP	T	T	A			TCGA-AB-2812-03B-01W-0728-08	TCGA-AB-2812-11B-01W-0728-08	T	T			T	T	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	22	17216085	17216085	T	A	SNP	LOC727983	XR_039696	human	genbank	54_36p	+1	model	rna	NULL	NULL	0.004	-	-	-	pseudogene
TNNC2	7125	genome.wustl.edu	36	20	43886574	43886574	+	Missense_Mutation	SNP	G	G	T			TCGA-AB-2812-03B-01W-0728-08	TCGA-AB-2812-11B-01W-0728-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	20	43886574	43886574	G	T	SNP	TNNC2	NM_003279	human	genbank	54_36p	-1	reviewed	missense	c.166	p.L56M	1.000	superfamily_EF-hand,HMMSmart_SM00054,HMMPfam_efhand	superfamily_EF-hand,HMMSmart_SM00054,HMMPfam_efhand,PatternScan_EF_HAND_1	-	no_errors
CNTN5	53942	genome.wustl.edu	36	11	99717125	99717125	+	Missense_Mutation	SNP	A	A	C			TCGA-AB-2812-03B-01W-0728-08	TCGA-AB-2812-11B-01W-0728-08	A	A			A	A	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	11	99717125	99717125	A	C	SNP	CNTN5	NM_014361	human	genbank	54_36p	+1	reviewed	missense	c.3008	p.E1003A	1.000	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III,HMMPfam_I-set,HMMPfam_V-set,HMMPfam_ig,superfamily_Immunoglobulin	-	no_errors
RASGEF1A	221002	genome.wustl.edu	36	10	43021377	43021377	+	Missense_Mutation	SNP	G	G	T			TCGA-AB-2812-03B-01W-0728-08	TCGA-AB-2812-11B-01W-0728-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	10	43021377	43021377	G	T	SNP	RASGEF1A	NM_145313	human	genbank	54_36p	-1	validated	missense	c.194	p.P65H	1.000	HMMPfam_RasGEF_N,HMMSmart_SM00229,superfamily_Ras GEF	HMMPfam_RasGEF_N,HMMSmart_SM00229,HMMPfam_RasGEF,HMMSmart_SM00147,superfamily_Ras GEF	-	no_errors
RTN4	57142	genome.wustl.edu	36	2	55130882	55130882	+	Missense_Mutation	SNP	T	T	C			TCGA-AB-2812-03B-01W-0728-08	TCGA-AB-2812-11B-01W-0728-08	T	T			T	T	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	2	55130882	55130882	T	C	SNP	RTN4	NM_020532	human	genbank	54_36p	-1	reviewed	missense	c.59	p.Q20R	0.781	NULL	HMMPfam_Reticulon	-	no_errors
ENSG00000215604	0	genome.wustl.edu	36	13	17942000	17942000	+	Nonsense_Mutation	SNP	G	G	A			TCGA-AB-2812-03B-01W-0728-08	TCGA-AB-2812-11B-01W-0728-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	13	17942000	17942000	G	A	SNP	ENSG00000215604	ENST00000342944	human	ensembl	54_36p	-1	known	nonsense	c.337	p.Q113*	0.805	NULL	HMMPfam_KRAB,HMMSmart_SM00349,superfamily_KRAB domain (Kruppel-associated box Pfam 01352),HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers	-	no_stop_codon
WT1	7490	genome.wustl.edu	36	11	32374485	32374486	+	Frame_Shift_Ins	INS	-	-	GACCG			TCGA-AB-2812-03B-01W-0728-08	TCGA-AB-2812-11B-01W-0728-08	-	-			-	-	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	11	32374485	32374486	-	GACCG	INS	WT1	NM_024426	human	genbank	54_36p	-1	reviewed	frame_shift_ins	c.1143_1142	p.A382fs	0.771:0.996	HMMPfam_WT1	HMMPfam_WT1,HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers	-	no_errors
FAT1	2195	genome.wustl.edu	36	4	187867211	187867211	+	Silent	SNP	C	C	T			TCGA-AB-2812-03B-01W-0728-08	TCGA-AB-2812-11B-01W-0728-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	4	187867211	187867211	C	T	SNP	FAT1	NM_005245	human	genbank	54_36p	-1	reviewed	silent	c.765	p.P255	0.106	HMMSmart_SM00112,superfamily_Cadherin-like	PatternScan_ASX_HYDROXYL,HMMSmart_SM00282,HMMSmart_SM00179,HMMPfam_Cadherin,HMMSmart_SM00112,PatternScan_CADHERIN_1,HMMPfam_EGF,HMMSmart_SM00181,superfamily_Concanavalin A-like lectins/glucanases,HMMPfam_Laminin_G_2,PatternScan_EGF_1,PatternScan_EGF_2,superfamily_Cadherin-like,PatternScan_EGF_CA,superfamily_EGF/Laminin	-	no_errors
ENSG00000215614	0	genome.wustl.edu	36	NT_113923	47796	47796	+	Missense_Mutation	SNP	A	A	G			TCGA-AB-2812-03B-01W-0728-08	TCGA-AB-2812-11B-01W-0728-08	A	A			A	A	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	NT_113923	47796	47796	A	G	SNP	ENSG00000215614	ENST00000400675	human	ensembl	54_36p	+1	known	missense	c.74	p.Y25C	NULL	HMMPfam_RFPL3_antisense	HMMPfam_RFPL3_antisense	-	no_start_codon:no_stop_codon
GXYLT1	283464	genome.wustl.edu	36	12	40799117	40799117	+	Silent	SNP	T	T	C			TCGA-AB-2812-03B-01W-0728-08	TCGA-AB-2812-11B-01W-0728-08	T	T			T	T	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	12	40799117	40799117	T	C	SNP	GLT8D3	NM_173601	human	genbank	54_36p	-1	validated	silent	c.438	p.Q146	0.647	superfamily_Nucleotide-diphospho-sugar transferases,HMMPfam_Glyco_transf_8	superfamily_Nucleotide-diphospho-sugar transferases,HMMPfam_Glyco_transf_8	-	no_errors
PPP1R3A	5506	genome.wustl.edu	36	7	113307023	113307023	+	Missense_Mutation	SNP	G	G	T			TCGA-AB-2812-03B-01W-0728-08	TCGA-AB-2812-11B-01W-0728-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	7	113307023	113307023	G	T	SNP	PPP1R3A	NM_002711	human	genbank	54_36p	-1	reviewed	missense	c.1360	p.P454T	0.001	NULL	HMMPfam_CBM_21	-	no_errors
SLC12A3	6559	genome.wustl.edu	36	16	55484452	55484452	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2812-03B-01W-0728-08	TCGA-AB-2812-11B-01W-0728-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	16	55484452	55484452	C	T	SNP	SLC12A3	NM_000339	human	genbank	54_36p	+1	reviewed	missense	c.2533	p.L845F	0.999	NULL	HMMPfam_AA_permease_N,HMMPfam_AA_permease	-	no_errors
ANO1	55107	genome.wustl.edu	36	11	69626900	69626900	+	Silent	SNP	G	G	T			TCGA-AB-2812-03B-01W-0728-08	TCGA-AB-2812-11B-01W-0728-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	11	69626900	69626900	G	T	SNP	ANO1	NM_018043	human	genbank	54_36p	+1	validated	silent	c.522	p.L174	0.999	NULL	HMMPfam_DUF590	-	no_errors
FLT3	2322	genome.wustl.edu	36	13	27506256	27506257	+	In_Frame_Ins	INS	-	-	TCATATTCATATTCTCTGAAATCAACGTAGAAGTACTCATTATCTGAGGAG			TCGA-AB-2812-03B-01W-0728-08	TCGA-AB-2812-11B-01W-0728-08					-	-	Verified	Valid	Somatic		Capture				Illumina GAIIx																ITD-check	NA	NA	NA	NA	NA
CFLAR	8837	genome.wustl.edu	36	2	201703073	201703073	+	Silent	SNP	G	G	A			TCGA-AB-2812-03B-01W-0728-08	TCGA-AB-2812-11B-01W-0728-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	2	201703073	201703073	G	A	SNP	CFLAR	NM_003879	human	genbank	54_36p	+1	validated	silent	c.240	p.E80	0.938	NULL	HMMSmart_SM00031,superfamily_DEATH domain,HMMPfam_DED,superfamily_Caspase-like,HMMSmart_SM00115,HMMPfam_Peptidase_C14	-	no_errors
