The model with the lowest AIC and highest AUC was a 4-protein model including TOP1, HIST1H3A, IGFBP1, and CD5L which discriminated endometriosis cases from controls with an AUC = 0.71 (95%CI = 0.66–0.76) from the conditional logistic regression model. The gene discussed is TOP1; the disease is endometriosis.