References

Literatures

Oprea et. al, Systems chemical biology, Nature Chemical Biology, 2007
Chen et. al, PubChem Bioassays as a Source of Polypharmacology, JCIM, 2009
Scheiber et. al, A Comprehensive Systems Chemical Biology Analysis Gains Insight into Off-Target Mediated Effects of Drug Candidates, JCIM, 2009, 49 (2), 308–317
Slater et. al, Beyond data integration, Drug Discovery Today, 2008
Belleauu et. al, Bio2RDF: Towards a mashup to build bioinformatics knowledge systems, Journal of Biomedical Informatics, 2008
Sahoo et. al, An experiment in integrating large biomedical knowledge resouces with RDF: Application to associating genotype and phenotype information, WWW2007, 2007
Zhao et. al, Provenance and Linked Data in Biological Data Webs, 2008
Chen et. al Semantic Web for Integrated network analysis in biomedicine, Briefings in Bioinformatics, 2009
Cheung, K.H., Smith, A., Deknikker, R., Masiar, A., & Gerstein, M
(2005). YeastHub: A semantic web use case for integrating data in the life sciences domain. /Bioinformatics, 21/, 85-96
Neumann, E.K. (2006). BioDash: A semantic web dashboard for drug development. /Pacific Symposium on Biocomputing, 11/, 176-187
Sahoo, S., Bodenreider, O., Zeng, K., & Sheth, A. (2007). An experiment
in integrating large biomedical knowledge resources with RDF:
Application to associating genotype and phenotype information. In
w/orkshop on Health Care and Life Sciences Data Integration for the
Semantic Web at the 16th International World Wide Web Conference
(WWW2007)/, May 8-12, 2007, Banff, Alberta, Canada. Retrieved July 15,
2009 from http://www2007.org/workshops/paper_149.pdf


Presenations

2009 semantic web landscape
**LODD**

Related groups

bio2rdf
Linking open drug data.


Tools

Jena (java semantic web framework)
Protégé (ontology editor)
Pellet(OWL reasoner)
D2R Server (publish relational database on semantic web)
sesame (an open source framework for storage, inferencing and querying of RDF data)
Piggy Bank (semantic web browser plug in for firefox)
Welkin(RDF graph visualization)

Interesting links

(i.e, blog, materials)
NAR(Bioinformatics Links directory)
Linking Open Drug Data to Cheminformatics and Proteochemometrics
BindingDB introduction

Technical issues

How to use D2R Server in Windows XP?
SPARQL Tutorials