Mining gene expression microarray data of nasopharyngeal carcinoma by literature profiling

Abstract

Abstract: Objective To study abnormal signal pathway in nasopharyngeal carcinoma (NPC). Method NPC gene expression microarray data was mined by analysis of literature profiles generated by extracting the frequencies of certain terms from the abstracts stored in the Medline literature database. The terms were then filtered on the basis of both repetitive occurrence and co-occurrence among multiple gene entries. Finally, clustering analysis was performed on the retained frequency values, shaping a coherent picture of the functional relationship among large and heterogeneous lists of genes. Result Sixteen function groups were found among 112 abnormally expressed genes, including 4 groups indicative of Epstein-Barr virus (EBV) infection, 6 groups indicative of normal nasopharyngeal tissues that acquired essential capabilities to develop into tumor, 2 groups involved in energy metabolism, 1 group suggesting abnormal phosphorylation of proteins, 2 groups related tother diseases, and 1 group associated with muscle activities. The pathways of p53 and Rb, which were frequently abnormal during tumor progression, were not found in these groups. Conclusion Initiation and progression of NPC may be caused by special signal transduction pathways.

CLC Number:

HUANG Zhong-xi, YAO Kai-tai. Mining gene expression microarray data of nasopharyngeal carcinoma by literature profiling[J]. Journal of Southern Medical University, 2004, 24(07): 798-801.

References

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