[ File names ] - GWAS using both sexes *.auto.rsq07.mac10.txt.gz *.chrx.rsq07.mac10.txt.gz - Sex stratified GWAS *.auto_sex_stratified.txt.gz *.chrx_sex_stratified.txt.gz [ Information ] - Removed variants with MAC < 10 - Effect allele = alternative allele - Positions are based on hg19 - Association test was performed using SAIGE (v 0.29.4.2; Wei Zhou et al. Nature Genetics 2018) - Please visit wiki page of SAIGE for more information (https://github.com/weizhouUMICH/SAIGE/wiki) [ Header ] CHR: chromosome POS: genome position SNPID: variant ID Allele1: reference allele Allele2: alternative allele AC_Allele2: allele count of alternative allele AF_Allele2: allele frequency of alternative allele N: sample size BETA: effect size (effect of alternative allele) SE: standard error of BETA Tstat: t statistic p.value: p value with the saddlepoint approximation method (SPA) applied p.value.NA: p value when SPA is not applied Is.SPA.converge: whether SPA is converged (1) or not (0) varT: estimated variance of score statistic with sample related incorporated varTstar: variance of score statistic without sample related incorporated AF.Cases/AF.Controls: allele frequency of alternative allele Rsq: imputation quality measure in minimac3 MAC: minor allele count Rsq.male: imputation quality for male Rsq.female: imputation quality for female **.x/**.y; male data and female data (e.g. BETA.x is BETA in male GWAS. In single sex diseases, **.x suggests target sex data, and **.y is set to NA) single sex diseases: Breast cancer, Cervical cancer, Endometrial cancer, Endometriosis, Ovarian cancer, Uterine fibroid, and Prostate cancer [ Additional header in *sex_stratified.txt.gz ] metabeta: beta estimated by fixed effect meta-analysis between male and female specific GWAS. metase: se of metabeta metap: p of metabeta Qpvalue: heterogeneity in effect size between male and female specific GWAS (Cochran’s Q test). Sample sizes in each GWAS (sex_stratified) are shown in the file named "hum0014_v21_sample_size.xlsx" (Click "Sample size file" [under "Dictionary file" at the hum0014.v17/hum0014.v18/hum0014.v21 MOLECULAR DATA table] to download the file).