Introduction Polycystic ovary syndrome (PCOS) is the most common disorder of the endocrine system, affecting 5%-10% of women of reproductive age worldwide (1,2). Although the prevalence of this syndrome has increased significantly, its etiology is not completely understood yet (2,3). PCOS is a multifactorial disorder in which genetic, hormonal, and environmental factors play significant roles (2). This disorder is defined by signs and symptoms such as menstrual irregularity, hyperandrogenism, and polycystic ovarian morphology. The ultrasound definition of polycystic ovarian morphology is 12 or more follicles in each ovary measuring 2-9 mm in diameter (5). To establish the diagnosis of PCOS according to the Rotterdam criteria, at least two of the previously mentioned symptoms and signs must be present (1,2). These criteria have been associated with problematic features such as infertility, miscarriages, preeclampsia, metabolic disorders (e.g., type 2 diabetes mellitus), and cardiovascular disease (1,4). Previous evidence shows that women with PCOS have a seven-fold increase in the risk of developing type 2 diabetes mellitus. In other words, 33% of women with PCOS develop glucose intolerance and about 10% of them develop type 2 diabetes mellitus early in life (4). According to some studies (6-8), these women are also more prone to other metabolic aberrations including hyperhomocysteinemia, hyperandrogenism, and elevated triglycerides (TG), total cholesterol (TC), and low-density lipoprotein (LDL). In addition, women with PCOS, particularly those with elevated homocysteine levels, may have reduced high-density lipoprotein (HDL) and sex hormone-binding globulin (SHBG) levels (2). It has been advocated that women of reproductive age should undergo regular testing to prevent these complications (4). Nonetheless, the demographic, anthropometric, and biochemical characteristics of Jordanian women with PCOS have not so far received attention. Therefore, this study had to aims including comparing demographic, Abstract Objectives: To compare the demographic, anthropometric, and biochemical characteristics between women with polycystic ovary syndrome (PCOS) and healthy women and to identify the independent biochemical markers of PCOS. Materials and Methods: A case-control study was conducted on 77 women with PCOS and 73 healthy controls aged between 18 and 49 years. Blood samples were obtained for the determination of plasma total homocysteine (tHcy), total cholesterol (TC), triglycerides (TG), low-and high-density lipoprotein, TC/high-density lipoprotein ratio, total testosterone (TT), sex hormone-binding globulin, and free androgen index (FAI). Finally, multivariable logistic regression analysis was performed to identify the independent biochemical markers of PCOS. Results: The mean differences between cases and controls in tHcy, TG, and sex hormone-binding globulin were statistically significant. tHcy and TG were elevated in cases while sex hormone-binding globulin demonstrated a reduction. All three markers were identifi...