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Metabolic Network Expansion with Answer Set Programming

  • Torsten Schaub
  • Sven Thiele
Conference paper
Part of the Lecture Notes in Computer Science book series (LNCS, volume 5649)

Abstract

We propose a qualitative approach to elaborating the biosynthetic capacities of metabolic networks. In fact, large-scale metabolic networks as well as measured datasets suffer from substantial incompleteness. Moreover, traditional formal approaches to biosynthesis require kinetic information, which is rarely available. Our approach builds upon a formal method for analyzing large-scale metabolic networks. Mapping its principles into Answer Set Programming (ASP) allows us to address various biologically relevant problems. In particular, our approach benefits from the intrinsic incompleteness-tolerating capacities of ASP. Our approach is endorsed by recent complexity results, showing that the reconstruction of metabolic networks and related problems are NP-hard.

Keywords

Logic Program Metabolic Network Integrity Constraint Choice Rule Reference Network 
These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.

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Copyright information

© Springer-Verlag Berlin Heidelberg 2009

Authors and Affiliations

  • Torsten Schaub
    • 1
  • Sven Thiele
    • 1
  1. 1.Institut für InformatikUniversität PotsdamPotsdamGermany

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