Results of the study showed the target positive association of rs1801282/PPARG (OR = 1.24, 95%Cl = 1.20–1.46, P = 0.010), rs745975/HNF4A (OR = 1.30, 95%Cl = 1.06–1.38, P = 0.004), rs806052/GLIS3 (OR = 1.32, 95%Cl = 1.07–1.66, P = 0.016), rs8192552/MTNR1B (OR = 1.53, 95%Cl = 0.56–1.95, P = 0.012) and rs1805097/IRS-2 (OR = 1.27, 95%Cl = 1.36–1.92, P = 0.045), with T2DM; whereas rs6415788/GLIS3, rs61788900/NOTCH2, rs61788901/NOTCH2 and rs11810554/NOTCH2 (P>0.05) showed no significant association. Here, HNF4A is linked to type 2 diabetes mellitus.