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A unifying modelling formalism for the integration of stoichiometric and kinetic models

Accepted version
Peer-reviewed

Type

Article

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Authors

Oliver, Stephen George 
Julvez, Jorge 

Abstract

Current research on systems and synthetic biology relies heavily on mathematical models of the systems under study. The usefulness of such models depends on the quantity and quality of biological data, and on the availability of appropriate modelling formalisms that can gather and accommodate such data so that they can be exploited properly. Given our incomplete knowledge of biological systems and the fact that they consist of many subsystems, biological data are usually uncertain and heterogenous. These facts hinder the use of mathematical models and computational methods. In the scope of dynamic biological systems, e.g. metabolic networks, this difficulty can be overcome by the novel modelling formalism of Flexible Nets (FNs). We how that an FN can combine, in a natural way, a stoichiometric model and a kinetic model. Moreover, the resulting net admits nonlinear dynamics and can be analysed in both transient and steady states.

Description

Keywords

Journal Title

Journal of the Royal Society Interface

Conference Name

Journal ISSN

1742-5662

Volume Title

Publisher

The Royal Society

Rights

All rights reserved
Sponsorship
Biotechnology and Biological Sciences Research Council (BB/N02348X/1)
Spanish Ministry of Science, Innovation and Universities [ref. Medrese-RTI2018-098543-B-I00]