Formulation, construction and analysis of kinetic models of metabolism: A review of modelling frameworks

Saa, Pedro A. and Nielsen, Lars K. (2017) Formulation, construction and analysis of kinetic models of metabolism: A review of modelling frameworks. Biotechnology Advances, 35 8: 981-1003. doi:10.1016/j.biotechadv.2017.09.005


Author Saa, Pedro A.
Nielsen, Lars K.
Title Formulation, construction and analysis of kinetic models of metabolism: A review of modelling frameworks
Journal name Biotechnology Advances   Check publisher's open access policy
ISSN 0734-9750
1873-1899
Publication date 2017-09-13
Year available 2017
Sub-type Critical review of research, literature review, critical commentary
DOI 10.1016/j.biotechadv.2017.09.005
Open Access Status Not yet assessed
Volume 35
Issue 8
Start page 981
End page 1003
Total pages 23
Place of publication New York, NY United States
Publisher Elsevier
Language eng
Subject 1305 Biotechnology
Abstract Kinetic models are critical to predict the dynamic behaviour of metabolic networks. Mechanistic kinetic models for large networks remain uncommon due to the difficulty of fitting their parameters. Recent modelling frameworks promise new ways to overcome this obstacle while retaining predictive capabilities. In this review, we present an overview of the relevant mathematical frameworks for kinetic formulation, construction and analysis. Starting with kinetic formalisms, we next review statistical methods for parameter inference, as well as recent computational frameworks applied to the construction and analysis of kinetic models. Finally, we discuss opportunities and limitations hindering the development of larger kinetic reconstructions.
Keyword Enzyme kinetics
Kinetic models
Metabolic control analysis
Metabolic modelling
Monte Carlo simulation
Parameter estimation
Q-Index Code C1
Q-Index Status Provisional Code
Institutional Status UQ

Document type: Journal Article
Sub-type: Critical review of research, literature review, critical commentary
Collections: HERDC Pre-Audit
Australian Institute for Bioengineering and Nanotechnology Publications
 
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Created: Sun, 24 Dec 2017, 01:20:17 EST