We describe our use of a modelling and development process to specify and implement biological simulations that involves the development of several different UML models to capture different perspectives on the system being modelled, in particular the investigation of various emergent properties. We use this process in the case of an auxin canalisation simulation, investigating the processes of auxin transport as guided by PIN proteins, in a developing plant. We discuss our preliminary results of investigating one hypothesis of PIN protein placement that fails to demonstrate canalisation in simulation.
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@inproceedings(SS-CoSMoS08,
author = "Philip Garnett and Susan Stepney and Ottoline Leyser",
title = "Towards an Executable Model of Auxin Transport Canalisation",
pages = "63-91",
crossref = "CoSMoS08"
)
@proceedings(CoSMoS08,
editor = "Susan Stepney and Fiona Polack and Peter Welch",
title = "Proceedings of the 2008 Workshop on
Complex Systems Modelling and Simulation",
booktitle = "Proceedings of the 2008 Workshop on
Complex Systems Modelling and Simulation",
publisher = "Luniver Press",
year = 2008
)