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Briefings in Bioinformatics 2005 6(3):252-262; doi:10.1093/bib/6.3.252
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© Henry Stewart Publications

Information retrieval and knowledge discovery utilising a biomedical Semantic Web

Sougata Mukherjea
Research Staff Member in IBM India Research Lab. Before joining IBM, he held research and software architect positions in companies in Silicon Valley (California) including NEC USA, BEA Systems and Verity. His research interests include information visualisation and retrieval and applications of text mining in areas such as web search and bioinformatics.


Sougata Mukherjea, IBM India Research Laboratory, Block I, Indian Institue of Technology, Hauz Khas, New Delhi – 110016, India Tel: +91 11 5129 2138 Fax: +91 11 2686 1555 E-mail: smukherj{at}in.ibm.com

Although various ontologies and knowledge sources have been developed in recent years to facilitate biomedical research, it is difficult to assimilate information from multiple knowledge sources. To enable researchers to easily gain understanding of a biomedical concept, a biomedical Semantic Web that seamlessly integrates knowledge from biomedical ontologies, publications and patents would be very helpful. In this paper, current research efforts in representing biomedical knowledge in Semantic Web languages are surveyed. Techniques are presented for information retrieval and knowledge discovery from the Semantic Web that extend traditional keyword search and database querying techniques. Finally, some of the challenges that have to be addressed to make the vision of a biomedical Semantic Web a reality are discussed.

Keywords: Semantic Web, ontologies, RDF, OWL, semantic search, semantic association


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