Modeling a system through interacting individual entities, such as cells, with rules for their states, behavior and environment.
PhysiCell is an open-source agent-based modeling framework for simulating interacting cells in a spatial microenvironment. Individual cell agents carry phenotypes and interact mechanically, while diffusing substrates are represented by continuum transport fields. Linking these descriptions permits cell behavior to depend on the local environment and to modify that environment in turn.
The original publication demonstrates multicellular tumor simulations and describes cell cycling, death, volume, mechanics and motility models. The scientific value is the coupling of scales; a simulated pattern remains conditional on the specified rules and parameters, rather than establishing biological causation by itself.[ref]
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