Power-law models of signal transduction pathways.
The mathematical modelling of signal transduction pathways has become a valuable aid to understanding the complex interactions involved in intracellular signalling mechanisms. An important aspect of the mathematical modelling process is the selection of the model type and structure. Until recently, the convention has been to use a standard kinetic model, often with the Michaelis-Menten steady state assumption. However this model form, although valuable, is only one of a number of choices, and the aim of this article is to consider the mathematical structure and essential features of an alternative model form--the power-law model. Specifically, we analyse how power-law models can be applied to increase our understanding of signal transduction pathways when there may be limited prior information. We distinguish between two kinds of power law models: a) Detailed power-law models, as a tool for investigating pathways when the structure of protein-protein interactions is completely known, and; b) Simplified power-law models, for the analysis of systems with incomplete structural information or insufficient quantitative data for generating detailed models. If sufficient data of high quality are available, the advantage of detailed power-law models is that they are more realistic representations of non-homogenous or crowded cellular environments. The advantages of the simplified power-law model formulation are illustrated using some case studies in cell signalling. In particular, the investigation on the effects of signal inhibition and feedback loops and the validation of structural hypotheses are discussed.
Vera
Julio
J
Systems Biology and Bioinformatics Group, Department of Computer Sciences, University of Rostock, 18051 Rostock, Germany.
Balsa-Canto
Eva
E
Wellstead
Peter
P
Banga
Julio R
JR
Wolkenhauer
Olaf
O
D003198:Computer Simulation; D051550:I-kappa B Kinase / Q000378:metabolism; D053614:Janus Kinase 2 / Q000737:chemistry; D007700:Kinetics; D008954:Models, Biological; D010766:Phosphorylation; D011487:Protein Conformation; D050799:STAT5 Transcription Factor / Q000737:chemistry; D015398:Signal Transduction; D013997:Time Factors
D050799:STAT5 Transcription Factor; D053614:Janus Kinase 2; D051550:I-kappa B Kinase