Abstract: Objective: To explore the protein expressions of Tim-3 and Galectin-9 in nasopharyngeal carcinoma tissues and their impact on clinical efficacy and prognosis.Methods: 60 patients of nasopharyngeal carcinoma admitted to our hospital from October 2016 to October 2019 were collected, and all patients received intensity modulated radiation therapy.Immunohistochemical SP method was used to detect the protein expressions of Tim-3 and Galectin-9 in carcinoma tissues and adjacent tissues of 60 patients with nasopharyngeal carcinoma, and the relationship between protein expressions and clinical features, radiotherapy efficacy and prognosis was analyzed.Results: The positive expression rates of Tim-3 and Galectin-9 proteins in nasopharyngeal carcinoma tissues were significantly higher than those in adjacent tissues (58.33% vs 31.67%, 71.67% vs 33.33%, all P< 0.05); the expressions of Tim-3 and Galectin-9 in carcinoma tissues were correlated with clinical stages and distant metastasis (P< 0.05), but not with patient gender, tumor size, age and serum EB virus (P> 0.05); the radiosensitivity of Tim-3 and Galectin-9 protein positive patients was significantly higher than that of Tim-3 and Galectin-9 negative patients (all P< 0.05); the positive expression rates of Tim-3 and Galectin-9 proteins were positively correlated with the recurrence rate of nasopharyngeal carcinoma (r=0.345, r=0.287, all P< 0.05).Conclusion: Tim-3 protein and Galectin-9 protein play an important role in invasion and metastasis of nasopharyngeal carcinoma, patients with high expressions of Tim-3 protein and Galectin-9 protein have poor prognosis, patients with positive Tim-3 and Galectin-9 protein have low radiation resistance and the combined detection of Tim-3 protein and Galectin-9 protein has certain guiding significance for the treatment and prognosis of nasopharyngeal carcinoma.