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    MCell-R: A Particle-Resolution Network-Free Spatial Modeling Framework

    Spatial heterogeneity can have dramatic effects on the biochemical networks that drive cell regulation and decision-making. For this reason, a number of methods have been developed to model spatial heterogenei...

    Jose-Juan Tapia, Ali Sinan Saglam, Jacob Czech… in Modeling Biomolecular Site Dynamics (2019)

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    Rapid Creation, Monte Carlo Simulation, and Visualization of Realistic 3D Cell Models

    Spatially realistic diffusion-reaction simulations supplement traditional experiments and provide testable hypotheses for complex physiological systems. To date, however, the creation of realistic 3D cell mode...

    Jacob Czech, Markus Dittrich, Joel R. Stiles in Systems Biology (2009)