Application of stochastic automata networks for creation of continuous time Markov chain models of voltage gating of gap junction channels.

Journal: BioMed research international
PMID: 25705700

Abstract

The primary goal of this work was to study advantages of numerical methods used for the creation of continuous time Markov chain models (CTMC) of voltage gating of gap junction (GJ) channels composed of connexin protein. This task was accomplished by describing gating of GJs using the formalism of the stochastic automata networks (SANs), which allowed for very efficient building and storing of infinitesimal generator of the CTMC that allowed to produce matrices of the models containing a distinct block structure. All of that allowed us to develop efficient numerical methods for a steady-state solution of CTMC models. This allowed us to accelerate CPU time, which is necessary to solve CTMC models, ~20 times.

Authors

  • Mindaugas Snipas
    Department of Mathematical Modelling, Kaunas University of Technology, Studentų Street 50, 51368 Kaunas, Lithuania ; Laboratory of Systems Control and Automation, Lithuanian Energy Institute, Breslaujos Street 3, 44403 Kaunas, Lithuania.
  • Henrikas Pranevicius
    Department of Applied Informatics, Vytautas Magnus University, Vileikos Street 8-409, 44404 Kaunas, Lithuania ; Department of Business Informatics Research in Systems, Kaunas University of Technology, Studentų Street 56, 5142 Kaunas, Lithuania.
  • Mindaugas Pranevicius
    Department of Anesthesiology, Albert Einstein College of Medicine, 1300 Morris Park Avenue, Bronx, NY 10461, USA.
  • Osvaldas Pranevicius
    Department of Anesthesiology, New York Hospital Queens, 56-45 Main Street, Flushing, NY 11355, USA.
  • Nerijus Paulauskas
    Department of Business Informatics Research in Systems, Kaunas University of Technology, Studentų Street 56, 5142 Kaunas, Lithuania ; Institute of Cardiology, Lithuanian University of Health Sciences, Sukileliu Street 17, 50009 Kaunas, Lithuania.
  • Feliksas F Bukauskas
    Department of Neuroscience, Albert Einstein College of Medicine, 1300 Morris Park Avenue, Bronx, NY 10461, USA.

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