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
C1orf168	199920	genome.wustl.edu	36	1	57027291	57027291	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	C	C			C	C	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	1	57027291	57027291	C	T	SNP	C1orf168	NM_001004303	human	genbank	54_36p	-1	validated	missense	c.862	p.V288M	0.410	NULL	superfamily_SH3-domain	-	no_errors
RNF111	54778	genome.wustl.edu	36	15	57155571	57155571	+	Nonsense_Mutation	SNP	C	C	T			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	C	C			C	C	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	15	57155571	57155571	C	T	SNP	RNF111	NM_017610	human	genbank	54_36p	+1	reviewed	nonsense	c.1813	p.Q605*	1.000	NULL	HMMSmart_SM00184,HMMPfam_zf-C3HC4,superfamily_RING/U-box	-	no_errors
LRP1B	53353	genome.wustl.edu	36	2	140799826	140799826	+	Silent	SNP	T	T	C			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	T	T			T	T	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	2	140799826	140799826	T	C	SNP	LRP1B	NM_018557	human	genbank	54_36p	-1	validated	silent	c.12315	p.S4105	0.934	HMMPfam_Ldl_recept_b,HMMSmart_LY,superfamily_SSF63825	HMMPfam_Ldl_recept_b,HMMSmart_LY,PatternScan_ASX_HYDROXYL,HMMPfam_NHL,HMMSmart_EGF_CA,HMMPfam_Ldl_recept_a,HMMSmart_LDLa,PatternScan_LDLRA_1,superfamily_LDL_rcpt_classA_cys-rich,HMMPfam_EGF,HMMSmart_EGF,PatternScan_EGF_1,PatternScan_EGF_2,HMMPfam_EGF_CA,HMMPfam_EGF_2,PatternScan_EGF_CA,superfamily_SSF57196,superfamily_SSF63825	-	no_errors
BICD1	636	genome.wustl.edu	36	12	32421790	32421790	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	G	G			G	G	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	12	32421790	32421790	G	A	SNP	BICD1	NM_001714	human	genbank	54_36p	+1	reviewed	missense	c.2890	p.A964T	0.995	NULL	HMMPfam_BicD	-	no_errors
CYBB	1536	genome.wustl.edu	36	X	37550606	37550606	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	G	G			G	G	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	X	37550606	37550606	G	A	SNP	CYBB	NM_000397	human	genbank	54_36p	+1	reviewed	missense	c.1337	p.R446Q	1.000	HMMPfam_NAD_binding_6,superfamily_Ferredoxin reductase-like C-terminal NADP-linked domain	HMMPfam_FAD_binding_8,HMMPfam_NAD_binding_6,HMMPfam_Ferric_reduct,superfamily_Riboflavin synthase domain-like,superfamily_Ferredoxin reductase-like C-terminal NADP-linked domain	-	no_errors
JAM2	58494	genome.wustl.edu	36	21	25988020	25988020	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	G	G			G	G	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	21	25988020	25988020	G	A	SNP	JAM2	NM_021219	human	genbank	54_36p	+1	reviewed	missense	c.323	p.R108H	0.994	HMMSmart_IG,HMMPfam_V-set,superfamily_SSF48726	HMMSmart_IGc2,HMMSmart_IG,HMMPfam_V-set,HMMPfam_ig,superfamily_SSF48726	-	no_errors
NAPA	8775	genome.wustl.edu	36	19	52687146	52687146	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	C	C			C	C	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	19	52687146	52687146	C	T	SNP	NAPA	NM_003827	human	genbank	54_36p	-1	reviewed	missense	c.604	p.A202T	1.000	superfamily_TPR-like	HMMPfam_NSF,superfamily_TPR-like	-	no_errors
KCNQ2	3785	genome.wustl.edu	36	20	61509008	61509008	+	Silent	SNP	G	G	T			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	G	G			G	G	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	20	61509008	61509008	G	T	SNP	KCNQ2	NM_172107	human	genbank	54_36p	-1	reviewed	silent	c.2052	p.G684	1.000	NULL	HMMPfam_Ion_trans,HMMPfam_KCNQ_channel,superfamily_Voltage-gated potassium channels	-	no_errors
CSMD1	64478	genome.wustl.edu	36	8	2987460	2987460	+	Frame_Shift_Del	DEL	C	C	-			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	C	C			C	C	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	8	2987460	2987460	C	-	DEL	CSMD1	NM_033225	human	genbank	54_36p	-1	validated	frame_shift_del	c.6179	p.N2061fs	0.975	NULL	superfamily_Spermadhesin CUB domain,HMMPfam_CUB,HMMSmart_SM00042,superfamily_Complement control module/SCR domain,HMMPfam_Sushi,HMMSmart_SM00032	-	pseudogene:no_stop_codon:bad_bp_length_for_coding_region
ASAP2	8853	genome.wustl.edu	36	2	9432400	9432400	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	C	C			C	C	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	2	9432400	9432400	C	T	SNP	ASAP2	NM_003887	human	genbank	54_36p	+1	reviewed	missense	c.1622	p.A541V	0.977	HMMPfam_ArfGap,HMMSmart_SM00105,superfamily_Ankyrin repeat	HMMPfam_ArfGap,HMMSmart_SM00105,superfamily_Pyk2-associated protein beta ARF-GAP domain,HMMPfam_SH3_1,HMMSmart_SM00326,superfamily_SH3-domain,HMMPfam_PH,HMMSmart_SM00233,HMMPfam_Ank,HMMSmart_SM00248,superfamily_Ankyrin repeat,superfamily_PH domain-like	-	no_errors
UGT1A10	54575	genome.wustl.edu	36	2	234210397	234210397	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	C	C			C	C	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	2	234210397	234210397	C	T	SNP	UGT1A10	NM_019075	human	genbank	54_36p	+1	reviewed	missense	c.490	p.P164S	0.874	HMMPfam_UDPGT,superfamily_UDP-Glycosyltransferase/glycogen phosphorylase	HMMPfam_UDPGT,PatternScan_UDPGT,superfamily_UDP-Glycosyltransferase/glycogen phosphorylase	-	no_errors
PLRG1	5356	genome.wustl.edu	36	4	155677932	155677932	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	C	C			C	C	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	4	155677932	155677932	C	T	SNP	PLRG1	NM_002669	human	genbank	54_36p	-1	provisional	missense	c.1441	p.E481K	1.000	HMMSmart_SM00320,superfamily_WD40 repeat-like,HMMPfam_WD40	HMMSmart_SM00320,superfamily_WD40 repeat-like,PatternScan_WD_REPEATS_1,HMMPfam_WD40	-	no_errors
IL1R1	3554	genome.wustl.edu	36	2	102159637	102159637	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	G	G			G	G	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	2	102159637	102159637	G	A	SNP	IL1R1	NM_000877	human	genbank	54_36p	+1	reviewed	missense	c.1696	p.V566M	0.000	NULL	HMMPfam_TIR,HMMSmart_SM00255,superfamily_Toll/Interleukin receptor TIR domain,HMMSmart_SM00409,HMMPfam_ig,superfamily_Immunoglobulin	-	no_errors
MGLL	11343	genome.wustl.edu	36	3	128896697	128896697	+	Silent	SNP	C	C	T			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	C	C			C	C	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	3	128896697	128896697	C	T	SNP	MGLL	NM_007283	human	genbank	54_36p	-1	validated	silent	c.627	p.L209	0.991	HMMPfam_Abhydrolase_1,superfamily_SSF53474	HMMPfam_Abhydrolase_1,PatternScan_LIPASE_SER,superfamily_SSF53474	-	no_errors
ABCG8	64241	genome.wustl.edu	36	2	43933059	43933059	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	G	G			G	G	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	2	43933059	43933059	G	A	SNP	ABCG8	NM_022437	human	genbank	54_36p	+1	reviewed	missense	c.624	p.M208I	0.069	HMMPfam_ABC_tran,superfamily_P-loop containing nucleoside triphosphate hydrolases	HMMPfam_ABC_tran,HMMPfam_ABC2_membrane,PatternScan_ABC_TRANSPORTER_1,superfamily_P-loop containing nucleoside triphosphate hydrolases	-	no_errors
LRP4	4038	genome.wustl.edu	36	11	46862048	46862048	+	Silent	SNP	G	G	A			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	G	G			G	G	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	11	46862048	46862048	G	A	SNP	LRP4	NM_002334	human	genbank	54_36p	-1	validated	silent	c.2562	p.I854	1.000	HMMPfam_Ldl_recept_b,HMMSmart_SM00135,superfamily_YWTD domain	HMMPfam_Ldl_recept_b,HMMSmart_SM00135,PatternScan_ASX_HYDROXYL,HMMSmart_SM00179,HMMPfam_Ldl_recept_a,HMMSmart_SM00192,PatternScan_LDLRA_1,superfamily_LDL receptor-like module,HMMPfam_EGF,HMMSmart_SM00181,PatternScan_EGF_2,HMMPfam_EGF_CA,PatternScan_EGF_CA,superfamily_EGF/Laminin,superfamily_YWTD domain	-	no_errors
NAV1	89796	genome.wustl.edu	36	1	200043815	200043815	+	Missense_Mutation	SNP	C	C	G			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	C	C			C	C	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	1	200043815	200043815	C	G	SNP	NAV1	NM_020443	human	genbank	54_36p	+1	reviewed	missense	c.3751	p.P1251A	1.000	NULL	HMMSmart_AAA,PatternScan_PPASE,superfamily_SSF52540	-	no_errors
FAM19A4	151647	genome.wustl.edu	36	3	68884727	68884727	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	C	C			C	C	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	3	68884727	68884727	C	T	SNP	FAM19A4	NM_001005527	human	genbank	54_36p	-1	reviewed	missense	c.263	p.R88Q	1.000	NULL	NULL	-	no_errors
PAPPA2	60676	genome.wustl.edu	36	1	175025647	175025647	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	C	C			C	C	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	1	175025647	175025647	C	T	SNP	PAPPA2	NM_020318	human	genbank	54_36p	+1	validated	missense	c.4795	p.P1599S	0.691	HMMSmart_SM00032,superfamily_Complement control module/SCR domain	"HMMPfam_Sushi,HMMSmart_SM00032,HMMPfam_Notch,HMMSmart_SM00004,superfamily_Notch domain,PatternScan_N6_MTASE,PatternScan_ZINC_PROTEASE,HMMSmart_SM00560,HMMPfam_Peptidase_M43,superfamily_Concanavalin A-like lectins/glucanases,superfamily_Complement control module/SCR domain,superfamily_Metalloproteases (""zincins"") catalytic domain"	-	no_errors
NOS1	4842	genome.wustl.edu	36	12	116154185	116154185	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	C	C			C	C	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	12	116154185	116154185	C	T	SNP	NOS1	NM_000620	human	genbank	54_36p	-1	validated	missense	c.3370	p.E1124K	1.000	HMMPfam_FAD_binding_1,superfamily_Riboflavin synthase domain-like	HMMPfam_NAD_binding_1,HMMPfam_PDZ,HMMSmart_SM00228,superfamily_PDZ domain-like,HMMPfam_FAD_binding_1,HMMPfam_NO_synthase,PatternScan_NOS,superfamily_Nitric oxide (NO) synthase oxygenase domain,HMMPfam_Flavodoxin_1,superfamily_Riboflavin synthase domain-like,superfamily_Flavoproteins,superfamily_Ferredoxin reductase-like C-terminal NADP-linked domain	-	no_errors
PARP6	56965	genome.wustl.edu	36	15	70336820	70336820	+	Missense_Mutation	SNP	G	G	T			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	G	G			G	G	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	15	70336820	70336820	G	T	SNP	PARP6	NM_020214	human	genbank	54_36p	-1	provisional	missense	c.922	p.R308S	0.993	NULL	HMMPfam_PARP,superfamily_ADP-ribosylation	-	no_errors
SLC26A2	1836	genome.wustl.edu	36	5	149338005	149338005	+	Silent	SNP	T	T	C			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	T	T			T	T	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	5	149338005	149338005	T	C	SNP	SLC26A2	NM_000112	human	genbank	54_36p	+1	reviewed	silent	c.597	p.N199	0.008	NULL	HMMPfam_STAS,superfamily_STAS,HMMPfam_Sulfate_transp,PatternScan_SLC26A	-	no_errors
WT1	7490	genome.wustl.edu	36	11	32374498	32374499	+	Frame_Shift_Ins	INS	-	-	TCGGGGCTAC			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	0	0			-	-	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	11	32374498	32374499	-	TCGGGGCTAC	INS	WT1	NM_024426	human	genbank	54_36p	-1	reviewed	frame_shift_ins	c.1130_1129	p.T377fs	0.991:0.888	HMMPfam_WT1	HMMPfam_WT1,HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers	-	no_errors
TTLL5	23093	genome.wustl.edu	36	14	75302285	75302285	+	Silent	SNP	A	A	G			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	A	A			A	A	Unknown	Valid	Somatic		WGS	Illumina_Capture			Illumina GAIIx	14	75302285	75302285	A	G	SNP	TTLL5	NM_015072	human	genbank	54_36p	+1	validated	silent	c.1836	p.R612	0.056	NULL	HMMPfam_TTL,superfamily_Glutathione synthetase ATP-binding domain-like	-	no_errors
