Table 3.

Top SNPs associated with PCs in combined-sexes and women-only sample

PC, sample	SNP	Chr	position	Code d allele	Non-Code d allele	Coded allele frequenc y	LD	pval	beta	h2q	In/near gene*
PC2, women	rs9351097	6	87194834	T	G	0.175	--	3.40 * 10−	0.252	0.0164	HTR1E
PC2, women	rs9362321	6	87192966	T	C	0.174	0.838	4.30 * 10−8	0.246	0.0162	HTR1E
PC2, women	rs9362322	6	87197144	A	T	0.196	0.838	9.30*10−8	0.242	0.0154	HTR1E
PC2, women	rs9362320	6	87192883	T	C	0.018	0.096	6.00*10−7	0.648	0.0135	HTR1E
PC2, women	rs6919366	6	87169891	G	T	0.337	0.336	9.30*10−7	0.176	0.0130	HTR1E
PC4, combined	rs6911565	6	87557585	A	C	0.137	0.178	1.10*10−5	−0.19	0.0081	HTR1E
PC4, combined	rs12665525	6	87553199	C	T	0.117	0.178	3.20*10−5	−0.18	0.0073	HTR1E
PC2, combined	rs7158720	14	32347622	A	C	0.209	--	1.40*10−7	0.161	0.0086	AKAP6
PC2, women	rs7158720	14	32347622	A	C	0.208	--	4.10*10−5	0.167	0.0091	AKAP6
PC2, combined	rs10148694	14	32343262	T	C	0.358	0.464	2.40*10−5	0.112	0.0055	AKAP6
PC4, women	rs4773155	13	109780420	A	C	0.432	--	2.50 * 10−8	0.356	0.0204	COL4A2
PC4, women	rs4447275	13	109769067	G	A	0.462	0.533	5.30*10−7	−0.272	0.0166	COL4A2

LD: linkage disequilibrium with the most-significant SNP

h²q - variance explained by a SNP

^*distance from the nearest gene was assumed not to exceed 500kb.