Table 2. Loci with common lead SNP for depression and more than one secondary phenotype.

SNP; Single-Nucleotide Polymorphism, CHR; chromosome, MinBP; minimum base position, MaxBP; maximum base position, Dep; depression, CAD; coronary artery disease, T2D; type 2 diabetes, CRP; c-reactive protein, HDL; high-density lipoprotein, LDL; low-density lipoprotein, TC; total cholesterol, TG; triglycerides, DBP; diastolic blood pressure, SBP; systolic blood pressure.

LEAD SNPs shared for Depression and more than one secondary phenotype at conjFDR<0.05
CHR	LEAD SNP	MinBP	MaxBP	Nearest Gene	Z score of the SNP in Dep GWAS	Locus novel in Dep	Phenotype
1	rs301805	8404093	8895448	RERE	-5,63	No	DBP,SBP
2	rs71441095	27961614	28284633	MRPL33:RBKS	-4,05	Yes	CRP,TC,TG
5	rs3806843	1,4E+08	1,4E+08	PCDHA1:PCDHA2:PCDHA3:PCDHA4:PCDHA5:PCDHA6	-4,49	No	DBP,SBP
7	rs10950398	12233848	12286050	TMEM106B	4,70	No	HDL,TG
8	rs62526892	91518135	91797902	TMEM64	-4,87	Yes	DBP,SBP
11	rs112181005	46708196	47367371	C11orf49	-4,30	Yes	CRP,HDL,TG,DBP,SBP
11	rs174594	61539020	61624181	FADS2	4,47	No	HDL,LDL,TC,TG
11	rs4417256	28379460	28577867	RP11-22P4.1	4,51	Yes	DBP,SBP
11	rs7118275	16253187	16373664	SOX6	4,69	Yes	DBP,SBP
12	rs77741769	1,21E+08	1,21E+08	RPL12P33	5,57	No	LDL,TC,CRP
13	rs536966	27087872	27146921	WASF3	4,71	Yes	DBP,SBP
14	rs10149470	1,04E+08	1,04E+08	RNU7-160P	5,53	No	DBP,SBP
16	rs3812984	71991135	72849510	PMFBP1	4,83	No	LDL,TC
16	rs4616299	7657373	7673819	RBFOX1	-4,88	No	DBP,TG
17	rs11867618	65825248	65984537	BPTF	4,39	Yes	TG,SBP,HDL
17	rs9916772	9725091	9725888	GLP2R	4,32	Yes	DBP,SBP
18	rs10503002	53057188	53164693	TCF4	4,29	No	DBP,SBP
20	rs76410441	39613707	40269840	CHD6	5,03	No	DBP,SBP
22	rs9611525	41215672	42216326	RANGAP1	4,96	No	LDL,TC

CHR: Chromosome, MinBP: minimum base position, MaxBP: maximum base position. Locus novel in Dep: Locus novel for depression in our study.

Phenotype: Which phenotypes have the same LEAD SNP.

The build used to determine the base pair position was GRCh37/Hg19