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Modular model of TNFalpha cytotoxicity

Chignola, Roberto and Vyshemirsky, Vladislav and Farina, Marcello and Del Fabbro, Alessio and Milotti, Edoardo (2011) Modular model of TNFalpha cytotoxicity. Bioinformatics, 27 (13). pp. 1754-1757. ISSN 1367-4803

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Abstract

Tumour Necrosis Factor alpha (TNF) initiates a complex series of biochemical events in the cell upon binding to its type R1 receptor (TNF-R1). Recent experimental work has unravelled the molecular regulation of the signalling complexes that lead either to cell survival or death. Survival signals are activated by direct binding of TNF to TNF-R1 at the cell membrane whereas apoptotic signals by endocytosed TNF/TNF-R1 complexes. Here we describe a reduced, effective model with few free parameters, where we group some intricate mechanisms into effective modules, that successfully describes this complex set of actions. We study the parameter space to show that the model is structurally stable and robust over a broad range of parameter values. We use state-of-the-art Bayesian methods (a Sequential Monte Carlo sampler) to perform inference of plausible values of the model parameters from experimental data. As a result, we obtain a robust model that can provide a solid basis for further modelling of TNF signalling. The model is also suitable for inclusion in multi-scale simulation programs that are presently under development to study the behaviour of large tumour cell populations. We provide supplementary material that includes all mathematical details and all algorithms (Matlab code) and models (SBML descriptions).

Item type: Article
ID code: 34443
Keywords: bayesian methods, tumour cell populations, TNF signalling, Probabilities. Mathematical statistics, Biochemistry, Computational Theory and Mathematics, Computational Mathematics, Molecular Biology, Statistics and Probability, Computer Science Applications
Subjects: Science > Mathematics > Probabilities. Mathematical statistics
Department: Faculty of Science > Mathematics and Statistics
Related URLs:
Depositing user: Pure Administrator
Date Deposited: 12 Oct 2011 14:35
Last modified: 27 Mar 2014 09:41
URI: http://strathprints.strath.ac.uk/id/eprint/34443

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