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Bioinformatics Vol. 19 no. 11 2003
Pages 1417-1422
© 2003 Oxford University Press

MeKE: discovering the functions of gene products from biomedical literature via sentence alignment

Jung-Hsien Chiang * and Hsu-Chun Yu

Department of Computer Science and Information Engineering, National Cheng Kung University, Tainan 701, Taiwan, ROC

Received on July 9, 2002 ; revised on December 24, 2002 ; accepted on February 6, 2003

Motivation: Research on roles of gene products in cells is accumulating and changing rapidly, but most of the results are still reported in text form and are not directly accessible by computers. To expedite the progress of functional bioinformatics, it is, therefore, important to efficiently process large amounts of biomedical literature and transform the knowledge extracted into a structured format usable by biologists and medical researchers. Our aim was to develop an intelligent text-mining system that will extract from biomedical documents knowledge about the functions of gene products and thus facilitate computing with function.

Results: We have developed an ontology-based text-mining system to efficiently extract from biomedical literature knowledge about the functions of gene products. We also propose methods of sentence alignment and sentence classification to discover the functions of gene products discussed in digital texts.

Availability: http://ismp.csie.ncku.edu.tw/~yuhc/meke/

Contact: jchiang{at}mail.ncku.edu.tw

* To whom correspondence should be addressed.


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