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Advances and challenges in logical modeling of cell cycle regulation: Perspective for multi-scale, integrative yeast cell models

Barberis, Matteo, Todd, R.G. and van der Zee, L. (2017) Advances and challenges in logical modeling of cell cycle regulation: Perspective for multi-scale, integrative yeast cell models FEMS Yeast Research, 17 (1), fow103.

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Abstract

The eukaryotic cell cycle is robustly designed, with interacting molecules organized within a definite topology that ensures temporal precision of its phase transitions. Its underlying dynamics are regulated by molecular switches, for which remarkable insights have been provided by genetic and molecular biology efforts. In a number of cases, this information has been made predictive, through computational models. These models have allowed for the identification of novel molecular mechanisms, later validated experimentally. Logical modeling represents one of the youngest approaches to address cell cycle regulation. We summarize the advances that this type of modeling has achieved to reproduce and predict cell cycle dynamics. Furthermore, we present the challenge that this type of modeling is now ready to tackle: its integration with intracellular networks, and its formalisms, to understand crosstalks underlying systems level properties, ultimate aim of multi-scale models. Specifically, we discuss and illustrate how such an integration may be realized, by integrating a minimal logical model of the cell cycle with a metabolic network. © FEMS 2017. All rights reserved.

Item Type: Article
Divisions : Faculty of Health and Medical Sciences > School of Biosciences and Medicine
Authors :
NameEmailORCID
Barberis, Matteom.barberis@surrey.ac.uk
Todd, R.G.
van der Zee, L.
Date : January 2017
DOI : 10.1093/femsyr/fow103
Copyright Disclaimer : © FEMS 2016. This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com
Uncontrolled Keywords : Cell cycle; Constraint-based modeling; Logical modeling; Metabolism; Multi-scale modeling; Network integration
Depositing User : Clive Harris
Date Deposited : 12 Apr 2019 12:54
Last Modified : 12 Apr 2019 12:54
URI: http://epubs.surrey.ac.uk/id/eprint/851009

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