Table 2.

SNPs showing strong associations (with combined P < 1 × 10⁻⁵ and in same association direction across three data sets) with puberty and natural menopause timing in East Asian women

						SGWAS (8073/3556)a		Stage II (8322/5108)a		Combined (16395/8664)b
SNP	Chr	Base positionc	Nearby gene	Allelesd	EAFe	Beta(SE)	P	Beta (SE)	P	Beta (SE)	P_METAL	P_het
Age at menarche
rs79195475	10	66964843	intergenic	T/C	0.75	−0.135 (0.032)	2.2 × 10−5	−0.089 (0.042)	0.035	−0.118 (0.026)	3.4 × 10−6	0.383
rs1023935	4	35150284	intergenic	T/C	0.89	−0.200 (0.044)	4.9 × 10−6	−0.084 (0.046)	0.066	−0.145 (0.032)	4.9 × 10−6	0.067
Age at natural menopause
rs3818134	22	31926725	SFI1	T/C	0.36	−0.454 (0.089)	3.5 × 10−7	−0.108 (0.087)	0.214	−0.276 (0.062)	8.8 × 10−6	0.005

SNP single-nucleotide polymorphism, SGWAS the Shanghai Genome-Wide Association Studies, Chr chromosome, EAF effective allele frequency, SE standard error, P__METAL P value from meta-analysis using METAL, P__het P value from between-study heterogeneity test

^aNumbers in parentheses indicate sample size for age at menarche and age at natural menopause, respectively

^bMeta-analysis using the inverse-variance-weighted models in METAL

^cChromosome position based on NCBI human genome build 37 from the 1000 Genomes Project

^dShown as effect allele/other allele

^eEffect allele frequencies estimated from 6541 samples in breast cancer, endometrial, and T2D GWAS from the Shanghai cohort