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There is a growing community interest in applying Semantic Web and Web 2.0 technologies in health care and life sciences areas including the Health Care and Life Sciences Interest Group (HCLSIG ; http://www.w3.org/2001/sw/hcls/) and Medicine 2.0 (http://www.medicine20congress.com/). This has motivated us to explore how to intersect these two sets of technologies in the context of the HCLS Knowledge Base (KB).

The prototype we describe is a biomedical knowledge base, constructed for a demonstration at Banff WWW2007 , that integrates 15 distinct data sources using currently available Semantic Web technologies such as the W3C standard Web Ontology Language [OWL] and Resource Description Framework [RDF]. This report outlines which resources were integrated, how the knowledge base was constructed using free and open source triple store technology, how it can be queried using the W3C Recommended RDF query language SPARQL [SPARQL], and what resources and inferences are involved in answering complex queries. While the utility of the knowledge base is illustrated by identifying a set of genes involved in Alzheimer's Disease, the approach described here can be applied to any use case that integrates data from multiple domains.

Drug Ontology is developed by the nosology project at Stanford Center for Biomedical Informatics Research. This project seeks to discover new therapeutic uses and adverse effects of drugs by finding diseases that have gene expression profiles similar to those of the known indications and adverse effects of drugs. The objectives of the Drug Ontology are: * defines a core set of concepts and relationships that allow us to integrate information from multiple sources, * provides classification services along multiple axes, * provides links to external sources so that data not in the ontology can be queried from these sources.