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Diabetes mellitus is a group of common metabolic disorders that share the phenotype of hyperglycemia. The Pro12Ala polymorphism in exon B of the gene that codes for PPARg2 has been associated, in some populations, with type 2 diabetes. The objective of this study was to determine if there is an association between the Pro12Ala polymorphism of PPARgn2 and type 2 diabetes mellitus in a sample of the Panamanian population. The possible association of the Pro12Ala polymorphism was evaluated in a sample of 195 individuals (99 controls and 96 experimental). The Pro12Ala polymorphism was detected by polymerase chain reaction and restriction fragment length polymorphism (PCR-RFLP) analysis. A higher frequency of the Pro12Ala genotype was observed in the experimental group (DM2) compared to the control group (0.114 vs 0.010). The frequency of the Ala12 allele (lowest frequency allele) in our study was 2.8%. This work represents the first study on the association between type 2 diabetes mellitus and the Pro12Ala polymorphism (rs18012829) in a sample of cases and controls in Panama. The odds ratio (OR) showed an association with a relative risk of 1.9735 in those with the Pro12Ala genotype. The frequency of the Pro12Ala genotype was higher in women, suggesting that they may be more predisposed to developing this condition.