XML representation of metabolic P systems

  • Authors:
  • Vincenzo Manca;Luca Marchetti

  • Affiliations:
  • University of Verona, Department of Computer Science, Verona, Italy;University of Verona, Department of Computer Science, Verona, Italy

  • Venue:
  • CEC'09 Proceedings of the Eleventh conference on Congress on Evolutionary Computation
  • Year:
  • 2009
  • From p to MP systems

    WMC'09 Proceedings of the 10th international conference on Membrane Computing

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Abstract

Metabolic P systems (MP systems) are a special class of P systems introduced for expressing biological metabolic phenomena. The graphical formalism of MP graphs represents, in a simple and intuitive way, the structure of these systems. However, there are some cases in which they would be better specified by semi-structured textual documents, especially for information exchanging between different computational tools elaborating on different biological aspects. The aim of this paper is to define such a way of exportation from MP graphs to XML documents. It turns out that all properties which guarantee the correctness of MP graphs can be formally described by means of logical formulae on trees, and completely expressed as XML constraints in XSD (XML Schema Definition), a W3C standard for XML validation.