Objective:To investigate the association of Fetuin-A gene rs2248690 single nucleotide polymorphisms(SNPs) with poly-cystic ovary syndrome(PCOS) in Chongqing Han population. Methods:A total of 147 PCOS patients and 156 controls were genotyped by TaqMan SNP genotyping assay. Hyperinsulinemic-euglycemic clamp was performed on 147 PCOS women and 20 controls. M value was used to signify insulin sensitivity. Results:No significant difference in genotype and allele frequencies of rs2248690 was observed between PCOS patients and controls(OR=4.432,P=0.09,95%CI=0.925 to 21.224;OR=1.123,P=0.57,95%CI=0.751 to 1.679;respectively). Patients with AA genotype had higher fasting serum insulin,homeostasis model assessment-insulin resistance and lower M value as compared with those of AT and TT genotypes in PCOS group(P=0.00,P=0.00). Conclusions:Fetuin-A gene rs2248690 poly-morphism has no association with PCOS in Han population in Chongqing area,but it may associate with insulin resistance in PCOS.