To study the gene expression profile on nasopharyngeal carcinoma (NPC),lung cancer (LC) and normal adult nasopharynx (NP) tissue and to obtain the NPC-related gene, the total RNA extracted from these tissues were retro-transcripted and labeled with α- ³²P isotype. The cDNA probes were hybrided to high density cDNA microarray GF200 with 5 184 genes and ESTs,then the signals were analyzed by Pathways software. The results showed that the low density signals were distributed in three types of tissues and the number of genes and ESTs with the density value over 200 was respectively 110,134 and 158 among NPC,LC and NP tissue. The results indicated that the different expression genes existed among NPC, LC and NP tissues and some new genes could play an important role in NPC. The high-density microarray was a rapid and effective method to select the different expression genes.