An abstraction theory for qualitative models of biological systems (2012)

Author(s): Banks R, Steggles LJ

    Abstract: Multi-valued networks are an important qualitative modelling approach used widely by the biological community. In this paper we consider developing an abstraction theory for multi-valued networks that allows the state space of a model to be reduced while preserving key properties of the model. This is important as it aids the analysis and comparison of multi-valued networks and in particular, helps address the well-known problem of state space explosion associated with such analysis. We consider developing techniques for efficiently identifying abstractions and so provide a basis for the automation of the abstraction task. We illustrate the theoretical results and techniques developed by considering two detailed case studies based on existing biological models in the literature: (1) the regulation of tryptophan biosynthesis in Escherichia coli; and (2) the lysis–lysogeny switch in the bacteriophage λ.

      • Date: 24-12-2011
      • Journal: Theoretical Computer Science
      • Volume: 431
      • Pages: 207-218
      • Publisher: Elsevier BV
      • Publication type: Article
      • Bibliographic status: Published

      Keywords: Abstraction theory; Qualitative biological models; Multi-valued networks; Genetic regulatory networks

      Staff

      Dr Jason Steggles
      Senior Lecturer