Modular modelling of signalling pathways and their crosstalk

Donaldson, R. and Calder, M. (2012) Modular modelling of signalling pathways and their crosstalk. Theoretical Computer Science, 456, pp. 30-50. (doi:10.1016/j.tcs.2012.07.003)

[img] Text
66754.pdf

594kB

Abstract

Signalling pathways are well-known abstractions that explain the mechanisms whereby cells respond to signals. Collections of pathways form networks, and interactions between pathways in a network, known as cross-talk, enables further complex signalling behaviours. While there are several formal modelling approaches for signalling pathways, none make cross-talk explicit; the aim of this paper is to define and categorise cross-talk in a rigorous way. We define a modular approach to pathway and network modelling, based on the module construct in the PRISM modelling language, and a set of generic signalling modules. Five different types of cross-talk are defined according to various biologically meaningful combinations of variable sharing, synchronisation labels and reaction renaming. The approach is illustrated with a case-study analysis of cross-talk between the TGF-β, WNT and MAPK pathways.

Item Type:Articles
Additional Information:NOTICE: this is the author’s version of a work that was accepted for publication in Theoretical Computer Science. Changes resulting from the publishing process, such as peer review, editing, corrections, structural formatting, and other quality control mechanisms may not be reflected in this document. Changes may have been made to this work since it was submitted for publication. A definitive version was subsequently published in Theoretical Computer Science 456 (2012). DOI: 10.1016/j.tcs.2012.07.003
Status:Published
Refereed:Yes
Glasgow Author(s) Enlighten ID:Calder, Professor Muffy
Authors: Donaldson, R., and Calder, M.
College/School:College of Science and Engineering > School of Computing Science
Journal Name:Theoretical Computer Science
Publisher:Elsevier
ISSN:0304-3975
ISSN (Online):1879-2294
Copyright Holders:Copyright © 2012 Elsevier
First Published:First published in Theoretical Computer Science 456:30-50
Publisher Policy:Reproduced in accordance with the copyright policy of the publisher

University Staff: Request a correction | Enlighten Editors: Update this record

Project CodeAward NoProject NamePrincipal InvestigatorFunder's NameFunder RefLead Dept
436881The molecular noseAndrew PittEngineering & Physical Sciences Research Council (EPSRC)EP/E032745/1RI MOLECULAR CELL & SYSTEMS BIOLOGY