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bioRxiv · 10.1101/035733

Agent-based simulation of large tumors in 3-D microenvironments

Ahmadreza Ghaffarizadeh·Samuel H Friedman·Paul Macklin
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Abstract

Multicellular simulations of tumor growth in complex 3-D tissues, where data come from high content in vitro and bioengineered experiments, have gained significant attention by the cancer modeling community in recent years. Agent-based models are often selected for these problems because they can directly model and track cells states and their interactions with the microenvironment. We describe PhysiCell, a specific agent-based model that includes cell motion, cell cycling, and cell volume changes. The model has been performance tested on systems of 105 cells on desktop computers, and is expected to scale to 106 or more cells on single super-computer compute nodes. We plan an open source release of the software in early 2016 at PhysiCell.MathCancer.org

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Ahmadreza Ghaffarizadeh, Samuel H Friedman, Paul Macklin. 2015-12-30. Agent-based simulation of large tumors in 3-D microenvironments. https://doi.org/10.1101/035733

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