Complexity of Model Checking for Reaction Systems

Sepinoud Azimi Rashti, Cristian Gratie, Sergiu Ivanov, Luca Manzoni, Ion Petre, Antonio E. Porreca

Research output: Book/ReportCommissioned reportProfessional

Abstract

Reaction systems are a new mathematical formalism inspired by the living cell and driven by only two basic mechanisms: facilitation and inhibition. As a modeling framework, they differ from the traditional approaches based on ODEs and CTMCs in two fundamental aspects: their qualitative character and the non-permanency of resources. In this article we introduce to reaction systems several notions of central interest in biomodeling: mass conservation, invariants, steady states, stationary processes, elementary fluxes, and periodicity. We prove that the decision problems related to these properties span a number of complexity classes from P to NP- and coNP-complete to PSPACE-complete.
Original languageUndefined/Unknown
PublisherTurku Centre for Computer Science (TUCS)
ISBN (Print)978-952-12-3122-3
Publication statusPublished - 2014
MoE publication typeD4 Published development or research report or study

Keywords

  • reaction system
  • model checking
  • biomodeling
  • conserved set
  • invariants
  • steady state
  • stationary process
  • elementary flux
  • periodicity
  • complexity classes

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