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Briefings in Bioinformatics Advance Access originally published online on October 13, 2006
Briefings in Bioinformatics 2006 7(4):318-330; doi:10.1093/bib/bbl036
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© The Author 2006. Published by Oxford University Press. For Permissions, please email: journals.permissions@oxfordjournals.org

Resources for integrative systems biology: from data through databases to networks and dynamic system models

Aylwin Ng, Borisas Bursteinas, Qiong Gao, Ewan Mollison and Marketa Zvelebil

Corresponding author. Marketa Zvelebil, Bioinformatics and Systems Biology Group, Ludwig Institute for Cancer Research, University College London Branch, 91 Riding House Street, London W1W 7BS, UK. Tel: +44-20-7878-4012; Fax: +44-20-7878-4040; E-mail: marketa{at}ludwig.ucl.ac.uk

In systems biology, biologically relevant quantitative modelling of physiological processes requires the integration of experimental data from diverse sources. Recent developments in high-throughput methodologies enable the analysis of the transcriptome, proteome, interactome, metabolome and phenome on a previously unprecedented scale, thus contributing to the deluge of experimental data held in numerous public databases. In this review, we describe some of the databases and simulation tools that are relevant to systems biology and discuss a number of key issues affecting data integration and the challenges these pose to systems-level research.

Keywords: bioinformatics, systems biology, database and knowledgebase, dynamic modelling, networks and modules, data integration


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