Background: In this current work we aimed to find the effect of four different single Nucleotide Polymorphisms(SNPs) rs1122608(SMARCA4)，rs2230806(ABCA1), rs12563308（ANGPTL3）,and rs662799（APOA5 ) on coronary heart disease(CHD) in a Han Chinese population in Xinjiang region of China. Methods: This study involved 914 subjects with 493 CHD patients and 421 healthy controls. The genotype distribution of analyzed and their relations with CHD risk factors were assessed.Results: No statistical differences were found in genotype and allele distributions of above SNPs between CHD and healthy controls (P>0.05). Serum level of high-density lipoprotein cholesterol (HDL-C) was higher in in TT genotype of rs1122608 when compared with GT and GG genotypes (P< 0.01) in CHD patients ; serum triglyceride(TG) level was higher in rs662799 GG genotype than GA and AA genotypes(P <0.00); AA of rs662799 was associated with higher HDL-C level compared with other two genotypes (P < 0.01) ; rs12563308 and rs223086 were not associated with any serum lipid traits (P > 0.05 for all). Logistic regression analysis showed that the SNPs examined were not related to CHD (p > 0.05). Also no association was found between four SNPs with the angiographic severity of CHD patients (p > 0.05). Conclusions: APOA5 rs662799 GG allele is associated with elevated triglyceride and might act as a risk factor for CHD; SMARCA4 rs1122608 TT allele and APOA5 rs662799 AA allele are associated with elevated high-density lipoprotein cholesterol levels, and might play a protective role in the development of CHD.

No abstract