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Event Driven Approach for Simulating Gene Regulation Networks

  • Marco Berardi
  • Nicoletta Del Buono
Part of the Lecture Notes in Computer Science book series (LNCS, volume 8584)

Abstract

Gene regulatory networks can be described by continuous models in which genes are acting directly on each other. Genes are activated or inhibited by transcription factors which are direct gene products. The action of a transcription factor on a gene is modeled as a binary on-off response function around a certain threshold concentration. Different thresholds can regulate the behaviors of genes, so that the combined effect on a gene is generally assumed to obey Boolean-like composition rules. Analyzing the behavior of such network model is a challenging task in mathematical simulation, particularly when at least one variable is close to one of its thresholds, called switching domains. In this paper, we briefly review a particular class model for gene regulation networks, namely, the piece-wise linear model and we present an event-driven method to analyze the motion in switching domains.

Keywords

Gene regulatory networks piecewise-linear differential equation event-driven method 

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Copyright information

© Springer International Publishing Switzerland 2014

Authors and Affiliations

  • Marco Berardi
    • 1
    • 2
  • Nicoletta Del Buono
    • 2
  1. 1.IRSA-CNRBariItaly
  2. 2.Dipartimento di MatematicaUniversità degli Studi di Bari Aldo MoroBariItaly

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