Pathway databases and tools for their exploitation: benefits, current limitations and challenges

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• dc.contributor.author Bauer-Mehren, Annaca
• dc.contributor.author Furlong, Laura I., 1971-ca
• dc.contributor.author Sanz, Ferranca
• dc.date.accessioned 2013-03-11T09:40:42Z
• dc.date.available 2013-03-11T09:40:42Z
• dc.date.issued 2009ca
• dc.description.abstract In past years, comprehensive representations of cell signalling pathways have been developed by manual curation from literature, which requires huge effort and would benefit from information stored in databases and from automatic retrieval and integration methods. Once a reconstruction of the network of interactions is achieved, analysis of its structural features and its dynamic behaviour can take place. Mathematical modelling techniques are used to simulate the complex behaviour of cell signalling networks, which ultimately sheds light on the mechanisms leading to complex diseases or helps in the identification of drug targets. A variety of databases containing information on cell signalling pathways have been developed in conjunction with methodologies to access and analyse the data. In principle, the scenario is prepared to make the most of this information for the analysis of the dynamics of signalling pathways. However, are the knowledge repositories of signalling pathways ready to realize the systems biology promise? In this article we aim to initiate this discussion and to provide some insights on this issue.
• dc.description.sponsorship This work was generated in the framework of the @neurIST and the/nEU-ADR projects co-financed by the European Commission through/nthe contracts no. IST-027703 and ICT-215847, respectively.
• dc.format.mimetype application/pdfca
• dc.identifier.citation Bauer-Mehren A, Furlong LI, Sanz F. Pathway databases and tools for their exploitation: benefits, current limitations and challenges. Mol Syst Biol. 2009;5:290. DOI: 10.1038/msb.2009.47ca
• dc.identifier.doi http://dx.doi.org/10.1038/msb.2009.47
• dc.identifier.issn 1744-4292ca
• dc.identifier.uri http://hdl.handle.net/10230/20473
• dc.language.iso engca
• dc.publisher Nature Publishing Groupca
• dc.relation.ispartof Molecular Systems Biology. 2009;5:290
• dc.relation.projectID info:eu-repo/grantAgreement/EC/FP7/215847
• dc.relation.projectID info:eu-repo/grantAgreement/EC/FP7/027703
• dc.rights © Nature Publishing Groupca
• dc.rights.accessRights info:eu-repo/semantics/openAccessca
• dc.rights.uri http://creativecommons.org/licenses/by/3.0/
• dc.subject.keyword Biological pathways
• dc.subject.keyword Cell signaling
• dc.subject.keyword Network models
• dc.subject.keyword Pathway databases
• dc.subject.keyword Systems biology
• dc.subject.other Bioinformàtica
• dc.subject.other Transducció de senyal cel·lular
• dc.title Pathway databases and tools for their exploitation: benefits, current limitations and challengesca
• dc.type info:eu-repo/semantics/articleca
• dc.type.version info:eu-repo/semantics/acceptedVersionca