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Modeling of self-organized avascular tumor growth with a hybrid cellular automaton.

Pattern formation in multicellular spheroids is addressed with a hybrid lattice-gas cellular automaton model that explicitly takes into account mitosis, apoptosis and necrosis as well as nutrient consumption and a diffusible signal that is emitted by cells becoming necrotic.
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Morpheus: a user-friendly modeling environment for multiscale and multicellular systems biology

Summary: Morpheus is a modeling environment for the simulation and integration of cell-based models with ordinary differential equations and reaction-diffusion systems. It allows rapid development of…
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Design patterns from biology for distributed computing

This article proposes a conceptual framework that captures several basic biological processes in the form of a family of design patterns that inherit desirable properties of biological systems including adaptivity and robustness and shows how to implement important functions for distributed computing based on these patterns.
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Cellular automaton modeling of biological pattern formation

This work analyzes spatio‐temporal pattern formation in cellular automaton models of interacting discrete cells and introduces lattice‐gas cellular automata, which are promising tools for studying transport and interaction processes in biological systems.
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Stem cell-associated heterogeneity in Glioblastoma results from intrinsic tumor plasticity shaped by the microenvironment

It is reported that cells expressing CSC-associated cell membrane markers in Glioblastoma do not represent a clonal entity defined by distinct functional properties and transcriptomic profiles, but rather a plastic state that most cancer cells can adopt.
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'Go or grow': the key to the emergence of invasion in tumour progression?

It is proposed that the transition to invasive tumour phenotypes can be explained on the basis of the microscopic 'Go or Grow' mechanism (migration/proliferation dichotomy) and the oxygen shortage, i.e. hypoxia, in the environment of a growing tumour.
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Membrane identity and GTPase cascades regulated by toggle and cut-out switches

It is proposed that, by reconciling module performance with progression of activity, the cut‐out switch design could underlie the integration of modules in regulatory cascades from a broad range of biological processes.
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Cellular Automaton Modeling of Biological Pattern Formation - Characterization, Applications, and Analysis

  • A. DeutschS. Dormann
  • Computer Science, Biology
    Modeling and Simulation in Science, Engineering…
  • 28 October 2004
This book presents a meta-modelling framework for modeling biological pattern formation using Turing Patterns and Excitable Media, and discusses its applications in tissue and Tumor development and in the rapidly changing environment.
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Nonequilibrium clustering of self-propelled rods.

In simulations with individual particles, it is found that particle clustering is facilitated by a sufficiently large packing fraction eta or length-to-width ratio kappa, which is well captured by a mean-field model for the cluster size distribution.
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Cellular Automaton Models of Tumor Development: a Critical Review

This article reviews CA models of tumor development, focusing on avascular and vascular growth, tumor invasion and angiogenesis, and introduces the general concept of CA systems.
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