Stratified analysis by stroke type found that MTHFR A1298C polymorphism was obviously correlated with increased stroke risk in the three genetic models of ischemic stroke (C vs A: OR = 1.22, 95%CI = 1.09–1.37, p = 0.002; CC + CA vs AA: OR = 1.24, 95%CI = 1.09–1.42, p = 0.002; CC vs CA + AA: OR = 1.38, 95%CI = 1.12–1.69, p = 0.002). The gene discussed is MTHFR; the disease is Stroke.