Bridging the layers: towards integration of signal transduction, regulation and metabolism into mathematical models


Mathematical modelling is increasingly becoming an indispensable tool for the study of cellular processes, allowing their analysis in a systematic and comprehensive manner. In the vast majority of the cases, models focus on specific subsystems, and in particular describe either metabolism, gene expression or signal transduction. Integrated models that are able to span and interconnect these layers are, by contrast, rare as their construction and analysis face multiple challenges. Such methods, however, would represent extremely useful tools to understand cell behaviour, with application in distinct fields of biological and medical research. In particular, they could be useful tools to study genotype-phenotype mappings, and the way they are affected by specific conditions or perturbations. Here, we review existing computational approaches that integrate signalling, gene regulation and/or metabolism. We describe existing challenges, available methods and point at potentially useful strategies.


PubMed ID: 23525368

Projects: SysMO DB

Publication type: Not specified

Journal: Mol Biosyst


Date Published: 4th Jun 2013

Registered Mode: Not specified

Authors: Emanuel Gonçalves, Joachim Bucher, Anke Ryll, Jens Niklas, Klaus Mauch, Steffen Klamt, Miguel Rocha, Julio Saez-Rodriguez

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Views: 1806

Created: 18th Jun 2013 at 12:01

Last updated: 24th Mar 2022 at 10:39

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