用文献轮廓挖掘鼻咽癌微阵列表达数据

Mining gene expression microarray data of nasopharyngeal carcinoma by literature profiling

目的 探索鼻咽癌异常信号通路。方法 根据鼻咽癌微阵列表达谱,采用基于文献轮廓的数据挖掘方法,从Medline文献数据库中提取与基因相关的文献并分析词的频率,再根据重复发生和共发生的过滤标准提取功能相关的词,最后根据词的发生频率对基因进行功能聚类。结果 基因表达谱的112个差异表达基因聚成16组功能类别:4组暗示EBV感染、6组显示鼻咽癌变过程、2组参与能量代谢、1组提示蛋白的异常磷酸化、2组与其它疾病相关、1组与肌肉组织活性相关。肿瘤发生发展过程中常见的P53和Rb信号通路的异常在本研究中则未发现。结论 鼻咽癌的发生发展可能由特殊的信号通路引起。

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.