Endometriosis is one of the most common benign gynaecological diseases, causing pain and infertility in women of reproductive age. Currently, the gold standard to diagnose endometriosis is visualization by laparoscopy. Our aim was to evaluate serum MCP-1, CA125 and CA19-9 as non-invasive markers and to assess the impact of GSTM1 gene polymorphisms on risk of endometriosis in Egyptian women. Our results have shown statistically significant differences of mean MCP-1, CA125, CA19-9 concentrations and GSTM1 null genotype frequency among cases and control groups. GSTM1 null genotype did not prove to be a highly significant diagnostic tool for prediction of endometriosis. On conclusion, utilizing the three serum markers together, a model with higher diagnostic performance was constructed.