The specification and building of multi-cellular system models in Infobiotics is modular allowing parsimonious and incremental design. In this chapter, the Infobiotics modelling language is introduced using a running example consisting of the synthetic bacterial colony designed by Ron Weiss’ group in [Basu2005]. This model implements the propagation of a wave of gene expression in a bacterial colony.
The Infobiotics modelling language provides a multi-compartmental, stochastic and rule-based specification framework. A model of a multi-cellular system in Infobiotics is developed as a Lattice Population P-system (LPP-system) which consists of the specification of three main components that can be defined in a modular manner:
The specification of the different parts of a multicelluar system using the Infobiotics modelling language is specified in the following sections:
The Infobiotics modelling language was developed by Francisco J. Romero-Campero with contributions from Jamie Twycross, Jonathan Blakes and Hongqing Cao. It is being used on Systems and Synthetic Biology research projects in the University of Nottingham, U.K.