We identified differentially expressed genes comparing peritoneal endometriosis lesions (n ¼ 18), eutopic endometrium (n ¼ 17), and peritoneum (n ¼ 22) from the same patients with complete menstrual cycles using microarrays (54 675 probe sets) and immunohistochemistry. Peritoneal lesions and peritoneum demonstrated 3901 and 4973 significantly differentially expressed genes compared to eutopi…