Table 3. MetS SNP association with phenotypes and their gene annotation at 17p12 QTL.

SNPs within 1 LOD reduction from the linkage peak were tested against the 42 phenotypes. For phenotypic abbreviations, see Table 1. SNPs were mapped to genes and the known functions of these genes summarized, based on data from the NCBI build 36 human genome assembly. Annotations were determined at the position and within 250kb up- and downstream of the associated SNP. Data shown in column “−Log10(p)” are levels of the highest association. The QTL-specific significance threshold based on the effective number of SNPs was ρ_α=0.05=3.63×10⁻⁵, −log(p-value)=4.361. Prioritized biologically relevant genes are shaded in gray and SNP associations that exceed statistical QTL-specific significance threshold are bolded. MAF, minor allele frequency.

	Variant	Minor Allele	MAF	−Log10(p)	Associated phenotype	Nearest gene	Location	Annotation
Body composition and insulin responsiveness	rs9889434	T	0.46	2.56	Weight	MYOCD	intergenic	Cardiogenesis
	rs12943502	C	0.49	3.15	Height	NM_001001684	intergenic	unknown function
	rs2052003	T	0.33	2.77	BMI	MYOCD	intronic	Cardiogenesis
	rs2052003	T	0.33	2.99	WC	MYOCD	intronic	Cardiogenesis
	rs4792371	G	0.46	3.35	HC	HS3ST3A1	intronic	heparan sulfate
	rs7219760	T	0.09	2.96	WHR	NM_001001684	intergenic	unknown function
	rs9893022	A	0.03	2.75	Fatkg	HS3ST3A1	intergenic	heparan sulfate
	rs2190699	G	0.34	2.95	Fatpct	RICH2	intronic	GTPase activator
	rs3944086	C	0.11	2.80	Leankg	HS3ST3A1	intergenic	heparan sulfate
	rs9907078	C	0.33	3.02	Leanpct	CDRT15	upstream	unknown function
	rs12949155	G	0.43	3.47	SubQF	NM_001001684	intergenic	unknown function
	rs4343329	C	0.26	6.54	VF	TNFRSF13B	intronic	pro-inflammation
	rs7225344	C	0.26	5.68	VF	TNFRSF13B	intronic	pro-inflammation
	rs4985700	C	0.40	5.13	VF	TNFRSF13B	intronic	pro-inflammation
	rs7226097	C	0.41	4.22	VF	TNFRSF13B	intronic	pro-inflammation
	rs11651352	A	0.23	4.17	VF	TNFRSF13B	downstream	pro-inflammation
	rs4343329	C	0.26	5.23	TAF	TNFRSF13B	intronic	pro-inflammation
	rs8081054	A	0.33	4.74	TAF	NM_001001684	intergenic	unknown function
	rs7225344	C	0.26	4.51	TAF	TNFRSF13B	intronic	pro-inflammation
	rs8079010	A	0.34	3.98	RQ	TRPV2	intronic	stress response
	rs4985700	C	0.40	4.01	REE	TNFRSF13B	intronic	pro-inflammation
	rs9303119	G	0.45	2.81	REE/weight	NM_001001684	intergenic	unknown function
	rs7222088	G	0.43	3.53	REE/Leanmass	AK123100	intronic	unknown function
	rs2108683	A	0.11	3.48	FG	COX10	intronic	Respiratory chain
	rs3744342	G	0.48	3.04	FI	HS3ST3A1	intergenic	heparan sulfate
	rs3744342	G	0.48	2.91	IGR	HS3ST3A1	intergenic	heparan sulfate
	rs6502302	A	0.01	2.87	HOMA	HS3ST3A1	intergenic	heparan sulfate
	rs9908356	G	0.21	3.19	SI	PMP22	intergenic	Peripheral nervous
	rs2106795	T	0.14	3.79	SG	HS3ST3A1	intergenic	heparan sulfate
	rs2996033	T	0.25	2.95	AIR	HS3ST3A1	intergenic	heparan sulfate
	rs12453295	A	0.01	3.02	DI	MYOCD	intronic	Cardiogenesis
Lipids/lipoprotein and cardiovascular performance	rs4792303	A	0.05	2.80	TG	RICH2	intronic	GTPase activator
	rs173160	C	0.34	3.22	TC	MYOCD	intergenic	Cardiogenesis
	rs11870163	T	0.42	3.11	LDL-c	HS3ST3B1	intronic	heparan sulfate
	rs173160	C	0.34	2.72	cal. LDL-c	MYOCD	intergenic	Cardiogenesis
	rs8077611	A	0.01	3.54	HDL-c	NM_001001684	intergenic	unknown function
	rs230922	T	0.30	5.21	HMED	PMP22	intergenic	Peripheral nervous
	rs7214429	G	0.45	3.64	LMEDn	MPRIP	intronic	Myosin phosphatase
	rs7214429	G	0.45	3.20	LDLppd	MPRIP	intronic	Myosin phosphatase
	rs7214429	G	0.45	3.58	bMED	MPRIP	intronic	Myosin phosphatase
	rs7214091	C	0.40	4.05	sBP	TNFRSF13B	intergenic	heparan sulfate
	rs1233861	A	0.23	3.36	dBP	MYOCD	intergenic	Cardiogenesis
	rs12944789	C	0.36	4.36	Pulse	NM_001001684	intergenic	unknown function
Adipokine and cytokines	rs8070118	G	0.41	2.22	Adiponectin	HS3ST3A1	intergenic	heparan sulfate
	rs2906985	G	0.06	3.75	Leptin	CDRT4	intronic	unknown function
	rs9915627	A	0.21	4.13	TNF-alpha	HS3ST3A1	intergenic	heparan sulfate
	rs9904641	T	0.27	3.48	IL-1β	CDRT4	downstream	unknown function
	rs1736202	C	0.41	3.60	IL-6	COPS3	intronic	signal transduction