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dc.contributor.author Ding, Ying
dc.contributor.author Zhu, Qian
dc.contributor.author Wang, Huijun
dc.contributor.author Jiao, Dazhi
dc.contributor.author Dong, Xiao
dc.contributor.author Chen, Bin
dc.contributor.author Wild, David J.
dc.date.accessioned 2011-12-12T03:59:43Z
dc.date.available 2011-12-12T03:59:43Z
dc.date.issued 2010
dc.identifier.citation Chen, B., Dong. X., Jiao, D., Wang, H., Zhu, Q., Ding, Y., Wild, D.J. "Chem2Bio2RDF: a semantic framework for linking and data mining chemogenomic and systems chemical biology data." BMC Bioinformatics 2010, 11: 255. en
dc.identifier.uri http://www.biomedcentral.com/1471-2105/11/255 en
dc.identifier.uri http://hdl.handle.net/2022/13964
dc.description.abstract Background: Recently there has been an explosion of new data sources about genes, proteins, genetic variations, chemical compounds, diseases and drugs. Integration of these data sources and the identification of patterns that go across them is of critical interest. Initiatives such as Bio2RDF and LODD have tackled the problem of linking biological data and drug data respectively using RDF. Thus far, the inclusion of chemogenomic and systems chemical biology information that crosses the domains of chemistry and biology has been very limited Results: We have created a single repository called Chem2Bio2RDF by aggregating data from multiple chemogenomics repositories that is cross-linked into Bio2RDF and LODD. We have also created a linked-path generation tool to facilitate SPARQL query generation, and have created extended SPARQL functions to address specific chemical/biological search needs. We demonstrate the utility of Chem2Bio2RDF in investigating polypharmacology, identification of potential multiple pathway inhibitors, and the association of pathways with adverse drug reactions. Conclusions: We have created a new semantic systems chemical biology resource, and have demonstrated its potential usefulness in specific examples of polypharmacology, multiple pathway inhibition and adverse drug reaction - pathway mapping. We have also demonstrated the usefulness of extending SPARQL with cheminformatics and bioinformatics functionality. en
dc.language.iso en_US en
dc.publisher BioMed Central en
dc.rights © 2010 Chen et al; licensee BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. en
dc.title Chem2Bio2RDF: a semantic framework for linking and data mining chemogenomic and systems chemical biology data en
dc.type Article en


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