Table 1 GWAS meta-analysis associations with P < 5 × 10⁻⁸.

Locus	rsID	Gene	Effect allele	Discovery (N = 5533)^a				Replication (N = 3370)^b				Meta-analysis
Locus	rsID	Gene	Effect allele	OR [95% CI]	β	s.e.	P	OR [95% CI]	β	s.e.	P	OR [95% CI]	β	s.e.	P	EAF
SCAD meta-analysis
1q21.2	rs12740679	Near C1orf51	G	1.97 [1.60–2.43]	0.68	0.11	2.88E−10	1.56 [1.21–2.02]	0.45	0.13	7.32E−04	1.80 [1.53–2.12]	0.59	0.08	2.19E−12	0.26
6p24.1	rs9349379^c	PHACTR1	A	1.54 [1.28–1.84]	0.43	0.09	4.14E−06	1.43 [1.13–1.81]	0.36	0.12	2.70E−03	1.50 [1.29–1.73]	0.40	0.07	4.36E−08	0.62
12q13.3	rs11172113^c	LRP1	T	1.52 [1.26–1.83]	0.42	0.09	1.05E−05	1.50 [1.19–1.90]	0.41	0.12	6.77E−04	1.51 [1.31–1.75]	0.41	0.07	2.63E−08	0.61
21q22.11	rs28451064	Near LINC00310	G	1.71 [1.29–2.28]	0.54	0.15	2.10E−04	1.99 [1.40–2.83]	0.69	0.18	1.25E−04	1.82 [1.46–2.27]	0.60	0.11	1.19E−07	0.87

Locus	rsID	Gene	Effect allele	Discovery (N = 4895)^d				Replication (N = 2996)^e				Meta-analysis
Locus	rsID	Gene	Effect allele	OR [95% CI]	β	s.e.	P	OR [95% CI]	β	s.e.	P	OR [95% CI]	β	s.e.	P	EAF
SCAD females-only meta-analysis
1q21.2	rs12740679	Near C1orf51	G	2.07 [1.65–2.59]	0.73	0.11	2.78E−10	1.51 [1.15–1.98]	0.41	0.14	3.03E−03	1.82 [1.53–2.16]	0.60	0.09	1.48E−11	0.26
6p24.1	rs9349379^c	PHACTR1	A	1.55 [1.27–1.88]	0.44	0.10	1.15E−05	1.38 [1.08–1.77]	0.32	0.13	1.10E−02	1.48 [1.27–1.72]	0.39	0.08	5.13E−07	0.62
12q13.3	rs11172113^c	LRP1	T	1.56 [1.28–1.90]	0.44	0.10	1.18E−05	1.51 [1.17–1.93]	0.41	0.13	1.29E−03	1.54 [1.32–1.80]	0.43	0.08	5.59E−08	0.61
21q22.11	rs28451064	Near LINC00310	G	1.84 [1.35–2.50]	0.61	0.16	9.28E−05	2.13 [1.47–3.10]	0.76	0.19	7.56E−05	1.95 [1.54–2.47]	0.67	0.12	3.20E−08	0.87

Results of the overall SCAD GWAS meta-analysis (total N = 8903), including both males and females, and the females-only GWAS meta-analysis (total N = 7891) are shown. Discovery GWAS and replication association analysis were all based on generalized mixed models in SAIGE, which uses the saddlepoint approximation (SPA) correction that accounts for case and control imbalances. GC correction was applied before standard error-weighted meta-analysis. SNPs with imputation Rsq ≥ 0.8 and MAF ≥ 1% were analyzed. P values here are two sided and unadjusted from multiple correction. Variants with association P < 5 × 10⁻⁸ pass the genome-wide significance Bonferroni-corrected threshold. All of the association models are adjusted for the first 5 PCs; and age, sex, and PCs matched between cases and controls.
Rsq r-squared, OR odds ratio, CI confidence interval, s.e. standard error, EAF effect allele frequency, AF allele frequency.
^a270 cases vs. 5263 ctrls, λ_GC = 0.94.
^b163 cases vs. 3207 ctrls, λ_GC = 0.97.
^cGenotyped SNP.
^d241 case vs. 4654 ctrls, λ_GC = 0.97.
^e146 case vs. 2850 ctrls, λ_GC = 0.96.

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