After all QC, the dataset consisted of 706 probands and affected siblings, 464 (65.7%) male and 242 (34.3%) female, mean age 41.8 (standard deviation (SD) 9.8) years, and 1748 population controls, 755 (43.2%) male and 993 (56.8%) female, mean age 37.2 (SD 12.6) years, with 8,344,348 SNPs for analysis. The Manhattan plot for case/control analysis of AD is shown in Figure 1. The QQ plot for the final dataset after imputation and all QC is shown in Figure 2.
