A genome-wide association study of n-3 and n-6 plasma fatty acids in a Singaporean Chinese population

Dorajoo, Rajkumar; Sun, Ye; Han, Yi; Ke, Tingjing; Burger, Ayala; Chang, Xuling; Low, Hui Qi; Guan, Weihua; Lemaitre, Rozenn N.; Khor, Chiea-Chuen; Yuan, Jian-Min; Koh, Woon-Puay; Ong, Choon Nam; Tai, E. Shyong; Liu, Jianjun; van Dam, Rob M.; Heng, Chew-Kiat; Friedlander, Yechiel

doi:10.1007/s12263-015-0502-2

Genes & Nutrition

Table 4 The associations between reported n-3 and n-6 FA subtype index SNPs (Lemaitre et al. 2011; Guan et al. 2014) and n-6 fatty acids (LA, GLA, DGLA and AA) in the meta-analysis data from SCHS

From: A genome-wide association study of n-3 and n-6 plasma fatty acids in a Singaporean Chinese population

Index SNPs from reported GWAS studies for omega-3 and omega-6 fatty acid subtypes (Lemaitre et al. 2011; Guan et al. 2014)					SCHS meta-analysis (N = 1361)
					Power	Comment	Test allele	TAF	LA
Trait	SNP	Chr	Position	Reported gene	Power	Comment	Test allele	TAF	β	p value
LA	rs10740118	10	64771213	JMJD1C	15.43	Imp	G	0.705	−0.009	0.1128
	rs174547	11	61570783	FADS1	99.99	Typed	T	0.338	−0.048	1.12 × 10 ⁻¹⁶*
	rs16966952	16	15135943	NTAN1/PDXDC1	32.36	Typed	G	0.605	0.009	0.0498*
GLA	rs174547	11	61570783	FADS1	58.38	Typed	T	0.338	−0.048	1.12 × 10 ⁻¹⁶
GLA	rs16966952	16	15135943	NTAN1/PDXDC1	12.05	Typed	G	0.605	0.009	0.0598
DGLA	rs174547	11	61570783	FADS1	99.99	Typed	T	0.338	−0.048	1.12 × 10 ⁻¹⁶
DGLA	rs16966952	16	15135943	NTAN1/PDXDC1	99.99	Typed	G	0.605	0.009	0.0598
AA	rs174547	11	61570783	FADS1	99.99	Typed	T	0.338	−0.048	1.12 × 10 ⁻¹⁶
AA	rs16966952	16	15135943	NTAN1/PDXDC1	60.62	Typed	G	0.605	0.009	0.0598
Adrenic acid	rs174547	11	61570783	FADS1	NA	Typed	T	0.338	−0.048	1.12 × 10 ⁻¹⁶
Adrenic acid	rs3134950	6	32235455	PPT2	NA	Imp	C	0.411	−0.008	0.1109
ALA	rs174547	11	61570783	FADS1	50.42	Typed	T	0.338	−0.048	1.12 × 10 ⁻¹⁶
EPA	rs3798713	6	11116608	ELOVL2	40.39	Imp	G	0.278	0.005	0.3276
	rs174538	11	61560081	FADS1	99.99	Typed	G	0.342	−0.045	2.22 × 10 ⁻¹⁶
	rs174535	11	61551356	FADS1	99.99	Typed	T	0.332	−0.047	3.99 × 10 ⁻¹⁶
DPA	rs780094	2	27741237	GCKR	NA	Typed	T	0.454	−0.014	0.005
	rs3734398	6	10982973	ELOVL2	NA	Typed	T	0.067	−0.011	0.2521
	rs174547	11	61570783	FADS1	NA	Imp	T	0.338	−0.048	1.12 × 10 ⁻¹⁶
DHA	rs2236212	6	11103001	ELOVL2	52.23	Imp	G	0.282	−0.002	0.6754

Index SNPs from reported GWAS studies for omega-3 and omega-6 fatty acid subtypes (Lemaitre et al. 2011; Guan et al. 2014)	SCHS meta-analysis (N = 1361)
	GLA		DGLA		DGLA^a		AA
Trait	β	p value	β	p value	β	p value	β	p value
LA	−0.003	0.8861	−0.022	0.1284	−0.019	0.4126	−0.003	0.7314
	0.523	1.68 × 10 ⁻¹⁷⁰	0.177	1.06 × 10 ⁻²⁹	−0.139	1.46 × 10 ⁻²⁴	0.152	3.88 × 10 ⁻⁶⁶
	0.008	0.7179	0.034	0.0104	0.030	9.88 × 10 ⁻⁴	−0.004	0.6162
GLA	0.523	1.68 × 10 ⁻¹⁷⁰*	0.177	1.06 × 10 ⁻²⁹	−0.139	1.46 × 10 ⁻²⁴	0.152	3.88 × 10 ⁻⁶⁶
GLA	0.008	0.7179	0.034	0.0104	0.030	9.88 × 10 ⁻⁴	−0.004	0.6162
DGLA	0.523	1.68 × 10 ⁻¹⁷⁰	0.177	1.06 × 10⁻²⁹	−0.139	1.46 × 10 ⁻²⁴*	0.152	3.88 × 10 ⁻⁶⁶
DGLA	0.008	0.7179	0.034	0.0104*	0.030	9.88 × 10 ⁻⁴*	−0.004	0.6162
AA	0.523	1.68 × 10 ⁻¹⁷⁰	0.177	1.06 × 10 ⁻²⁹	−0.139	1.46 × 10 ⁻²⁴	0.152	3.88 × 10 ⁻⁶⁶*
AA	0.008	0.7179	0.034	0.0104	0.030	9.88 × 10 ⁻⁴	−0.004	0.6162
Adrenic acid	0.523	1.68 × 10 ⁻¹⁷⁰	0.177	1.06 × 10 ⁻²⁹	−0.139	1.46 × 10 ⁻²⁴	0.152	3.88 × 10 ⁻⁶⁶
Adrenic acid	0.013	0.5676	0.007	0.6049	0.007	0.5962	0.012	0.1767
ALA	0.523	1.68 × 10 ⁻¹⁷⁰	0.177	1.06 × 10 ⁻²⁹	−0.139	1.46 × 10 ⁻²⁴	0.152	3.88 × 10 ⁻⁶⁶
EPA	0.008	0.7389	0.006	0.665	0.006	0.9063	−0.008	0.3949
	0.508	1.74 × 10 ⁻¹⁷⁰	0.170	2.65 × 10 ⁻²⁹	−0.132	2.51 × 10 ⁻²³	0.148	1.90 × 10 ⁻⁶³
	0.512	2.18 × 10 ⁻¹⁷⁰	0.176	2.79 × 10 ⁻²⁹	−0.135	2.02 × 10 ⁻²³	0.151	1.99 × 10 ⁻⁶⁴
DPA	0.014	0.5094	−0.016	0.2143	−0.023	0.011	−0.012	0.1811
	−0.026	0.5481	−0.013	0.6276	−0.001	0.9573	0.002	0.9037
	0.523	1.68 × 10 ⁻¹⁷⁰	0.177	1.06 × 10 ⁻²⁹	−0.139	1.46 × 10 ⁻²⁴	0.152	3.88 × 10 ⁻⁶⁶
DHA	0.001	0.9618	−0.002	0.8946	−0.002	0.9925	−0.005	0.6063

Significant (p value <0.05) associations indicated in bold
Power indicates power in the SCHS study to detect reported associations at these SNPs given reported effect estimates (Yokoyama et al. 2007; Wang et al. 2006) and MAF of SCHS dataset; NA: power not calculated for previously reported traits that were not measured in SCHS; and TAF: test allele frequency
* Indicates significant association for same n-6 trait in the SCHS data
^aDGLA trait adjusted for preceding FA level (GLA) in SCHS as this adjustment showed differences in effect estimates

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ISSN: 1865-3499

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