Orchard, Dominic, Gover, Jonathan, Herrington, Lee Lewis, Lohr, James, Stead, Duncan, Young, Cathy and Kalvala, Sara. (2009) µCell - interdisciplinary research in modelling and simulation of cell spatial behaviour. Reinvention: a journal of undergraduate research, Vol.2 (No.1). ISSN 1755-7429

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Abstract

A central aim of systems biology is the strengthening of quantitative and qualitative knowledge of biological systems by studying the interactions between components and processes that lead to emerging properties and behaviours. Systems biology proliferated over the latter half of the twentieth century with the aid of technological advances and subsequent interdisciplinary research between natural scientists, computer scientists, and mathematicians. In this paper we present μCell, an interdisciplinary research project undertaken by undergraduates at the University of Warwick, seeking to aid systems biology intuition. The project's main contribution is a modelling and simulation tool for multi-cellular environments aimed at simulating higher-level cellular behaviours based on the interoperation of biochemical signalling pathway models and procedural models of cell components and structures, such as flagella. Based on these interoperated models, μCell is able to simulate spatial properties and behaviours of cells, such as chemotaxis. This paper introduces μCell, gives a case study model and simulation of flagella-based chemotaxis in E. coli, and discusses the pedagogical outcomes of the project for the students.

Item Type:	Journal Article
Subjects:	Q Science > QA Mathematics > QA76 Electronic computers. Computer science. Computer software Q Science > QH Natural history > QH301 Biology Q Science > QR Microbiology
Divisions:	Faculty of Science > Computer Science
Library of Congress Subject Headings (LCSH):	Systems biology, Biological models, Computer simulation, Chemotaxis, Cells -- Computer simulation
Journal or Publication Title:	Reinvention: a journal of undergraduate research
Publisher:	University of Warwick, Institute of Advanced Teaching and Learning
ISSN:	1755-7429
Date:	April 2009
Volume:	Vol.2
Number:	No.1
Status:	Peer Reviewed
Publication Status:	Published
Access rights to Published version:	Restricted or Subscription Access
URI:	http://wrap.warwick.ac.uk/id/eprint/37068

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