Biomedical Engineering Reference
In-Depth Information
18
Chem2Bio2RDF: a semantic
resource for systems chemical
biology and drug discovery
David Wild
Abstract:
This chapter describes an integrated semantic resource of
drug discovery information called Chem2Bio2RDF. Heterogeneous
public data sets pertaining to compounds, targets, genes, diseases,
pathways and side effects were integrated into a single resource,
which is freely available at chem2bio2rdf.org. A number of tools
that use the data are described, along with the implementation
challenges that derived from the project including details of where
data is stored, how to organize it, and how to address data quality
and equivalence.
Key words:
semantic web; data integration; drug discovery; RDF.
18.1 The need for integrated, semantic
resources in drug discovery
'How do we fi nd the needles in the haystacks?' is a question that has been
in the minds of pharmaceutical researchers since the early 1990s when
high-throughput methods (screening, microarray analyses, and so on)
began producing huge volumes of data about compounds, targets, genes,
and pathways, and the interactions between them. The question is
predicated on the assumption that somewhere in these vast haystacks of
data can be found 'needles' - key pieces of knowledge or insight that could
help fi nd new drugs or new understandings of disease processes.
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