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J R Soc Interface. 2005 Jun 22;2(3):237-53.

On multiscale approaches to three-dimensional modelling of morphogenesis.

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  • 1Department of Mathematics, Department of Physics and Center for the Study of Biocomplexity, University of Notre Dame, Notre Dame, IN 46556-5670, USA.


In this paper we present the foundation of a unified, object-oriented, three-dimensional biomodelling environment, which allows us to integrate multiple submodels at scales from subcellular to those of tissues and organs. Our current implementation combines a modified discrete model from statistical mechanics, the Cellular Potts Model, with a continuum reaction-diffusion model and a state automaton with well-defined conditions for cell differentiation transitions to model genetic regulation. This environment allows us to rapidly and compactly create computational models of a class of complex-developmental phenomena. To illustrate model development, we simulate a simplified version of the formation of the skeletal pattern in a growing embryonic vertebrate limb.

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