Classical mechanics approach applied to analysis of genetic oscillators

Anastasiia Vasylchenkova, Miha Mraz, Nikolaj Zimic, Miha Moskon

Research output: Contribution to journalArticle

Abstract

Biological oscillators present a fundamental part of several regulatory mechanisms that control the response of various biological systems. Several analytical approaches for their analysis have been reported recently. They are, however, limited to only specific oscillator topologies and/or to giving only qualitative answers, i.e., is the dynamics of an oscillator given the parameter space oscillatory or not. Here, we present a general analytical approach that can be applied to the analysis of biological oscillators. It relies on the projection of biological systems to classical mechanics systems. The approach is able to provide us with relatively accurate results in the meaning of type of behavior system reflects (i.e., oscillatory or not) and periods of potential oscillations without the necessity to conduct expensive numerical simulations. We demonstrate and verify the proposed approach on three different implementations of amplified negative feedback oscillator.

Original languageEnglish
Article number7447719
Pages (from-to)721-727
Number of pages7
JournalIEEE/ACM Transactions on Computational Biology and Bioinformatics
Volume14
Issue number3
Early online date5 Apr 2016
DOIs
Publication statusPublished - 1 May 2017

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Keywords

  • dynamical systems
  • genetic oscillators
  • ordinary differential equations
  • Oscillatory dynamics

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