Nasopharyngeal cancer (NPC) is a type of head and neck cancer and occurs in the uppermost region of the throat situated behind the nasal cavity.98% of them are poor differential nasopharyngeal squamous carcinoma.75% of NPC were found with enlarged lymph nodes in the neck, and also usually cranial nerve dysfunction (usually Ⅱ ~ Ⅵ or Ⅸ ~ Ⅻ ). CNE2 is a kind of poor differential nasopharyngeal squamous carcinoma cell line, which existed some vital characteristic of poor differential nasopharyngeal squamous carcinoma. High malignant NPC tissues (in Ⅳ -stage, poor differential nasopharyngeal squamous carcinoma) and high malignant poor differential nasopharyngeal squamous carcinoma cell line CNE2 as the test samples were chosed and good 2-DE patterns of the 6 cases nasopharyngeal squamous carcinoma tissues and poor differential pharyngeal were established squamous carcinoma cell line CNE2 proteins with high resolution and good reproducibility using Immobilized pH gradient two-dimensional technology. Total 145 protein spots (66 spots in the tissues and 79 spots in the cell line) were analyzed by MALDI-TOF-MS, and 74 protein spots were identified. 3 proteins of the identified proteins were found to over express in poor differential pharyngeal squamous carcinoma cell line, as well as in 6 cases Ⅳ -stage nasopharyngeal squamous carcinoma tissues. Their mRNAs in cell line CNE2 and in 14 cases of human nasopharyngeal squamous carcinoma tissues were tested by RT-PCR. All mRNAs of TIM1 、 DJ1 and NM23-H1 were expressed both in cell line CNE2 and in tissues (3 cases in Ⅳ -stage, 1 cases in Ⅲ -stage and 1 cases in Ⅱ -stage, but none of 6 cases in chronic epithelium tissues), and one of 6 cases chronic epithelium tissues did expressed none of TIM1, DJ1 and NM23-H1 mRNAs. mRNAs of nm23-H1, DJ1 and TIM1 in Ⅲ , Ⅳ -stage NPC tissues were expressed simultaneity, which were compared with chronic nasopharyngitis epithelium tissues, were existed the evidently difference (x2=10.214 ， P＜ 0.005). The over expressions of nm23-H1, DJ1 and TIM1 in both the NPC tissues and the cell line may be correlated with the pathogenesis of poor differential nasopharyngeal squamous carcinoma.