This study aimed at exploring the diagnostic values and pathological conditions of serum HGF and CA199 in endometriosis (EMT).From May 2017 to January 2019, 86 patients with EMT, who were admitted to our hospital, were grouped as Group B, whereas 78 healthy women undergoing physical examinations during the same period were grouped as Group A. Serum HGF and CA199 levels in both groups were detected to analyze their diagnostic values for EMT and their relationships with clinical data.Compared with those in Group A, both serum HGF and CA199 expression elevated significantly in Group B (P<0.05). Their expression was correlated with the age, course of disease, number of nodules and infiltration depth of the patients (P<0.05). Besides, their expression was remarkably higher in patients with stages III ± IV than that in patients with stages I ± II (P<0.05). According to the Kaplan-Meier curves for tumor-free survival, the high expression of HGF and CA199 was related to the poor prognosis of the patients (P<0.05). According to the COX regression analysis for risk factors, the number of nodules, infiltration depth, American Fertility Society (AFS) staging, HGF and CA199 were the independent risk factors of EMT recurrence (P<0.05).HGF and CA199 increase in patients with EMT, and can be used as the biomarkers for diagnosing the disease and predicting its prognosis.