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A biochemically inspired coordination-based model for simulating intracellular signalling pathways

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  • P P González Pérez
  • A Omicini
  • M Sbaraglia

Abstract

Modelling the interaction among system components is a fundamental issue in complex system simulation. Simulation frameworks based on coordination models—that is, explicitly handling interaction—suit well the complex system simulation: and those based on nature-inspired coordination models, in particular, are well-suited for the simulation of complex natural systems. In this paper, we adopt an approach to self-organising coordination based on biochemical tuple spaces for self-organising coordination, and show how it can be applied to the simulation of complex interaction patterns of intracellular signalling pathways. We first present the model and a general high-level architecture, then we develop and discuss a simple case study—a single signalling pathway from the complex network of the Ras signalling pathways.

Suggested Citation

  • P P González Pérez & A Omicini & M Sbaraglia, 2013. "A biochemically inspired coordination-based model for simulating intracellular signalling pathways," Journal of Simulation, Taylor & Francis Journals, vol. 7(3), pages 216-226, August.
    • Handle: RePEc:taf:tjsmxx:v:7:y:2013:i:3:p:216-226
    DOI: 10.1057/jos.2012.28
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