ManyCell: A Multiscale Simulator for Cellular Systems

  • Joseph O. Dada
  • Pedro Mendes
Conference paper

DOI: 10.1007/978-3-642-33636-2_22

Volume 7605 of the book series Lecture Notes in Computer Science (LNCS)
Cite this paper as:
Dada J.O., Mendes P. (2012) ManyCell: A Multiscale Simulator for Cellular Systems. In: Gilbert D., Heiner M. (eds) Computational Methods in Systems Biology. Lecture Notes in Computer Science, vol 7605. Springer, Berlin, Heidelberg

Abstract

The emergent properties of multiscale biological systems are driven by the complex interactions of their internal compositions usually organized in hierarchical scales. A common representation takes cells as the basic units which are organized in larger structures: cultures, tissues and organs. Within cells there is also a great deal of organization, both structural (organelles) and biochemical (pathways). A software environment capable of minimizing the computational cost of simulating large-scale multiscale models is required to help understand the functional behaviours of these systems. Here we present ManyCell, a multiscale simulation software environment for efficient simulation of such cellular systems. ManyCell does not only allow the integration and simulation of models from different biological scales, but also combines innovative multiscale methods with distributed computing approaches to accelerate the process of simulating large-scale multiscale agent-based models. Thereby opening up the possibilities of understanding the functional behaviour of cellular systems in an efficient way.

Keywords

multiscale simulation modelling agent-based ODE software 

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Copyright information

© Springer-Verlag Berlin Heidelberg 2012

Authors and Affiliations

  • Joseph O. Dada
    • 1
    • 2
  • Pedro Mendes
    • 1
    • 2
    • 3
  1. 1.Manchester Institute of BiotechnologyUK
  2. 2.School of Computer ScienceThe University of ManchesterUK
  3. 3.Virginia Bioinformatics InstituteBlacksburgUK