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On the impact of discreteness and abstractions on modelling noise in gene regulatory networks

Bodei, Chiara
•
BORTOLUSSI, LUCA
•
Chiarugi, Davide
altro
Romanel, Alessandro
2015
  • journal article

Periodico
COMPUTATIONAL BIOLOGY AND CHEMISTRY
Abstract
In this paper, we explore the impact of different forms of model abstraction and the role of discreteness on the dynamical behaviour of a simple model of gene regulation where a transcriptional repressor negatively regulates its own expression. We first investigate the relation between a minimal set of parameters and the system dynamics in a purely discrete stochastic framework, with the twofold purpose of providing an intuitive explanation of the different behavioural patterns exhibited and of identifying the main sources of noise. Then, we explore the effect of combining hybrid approaches and quasi-steady state approximations on model behaviour (and simulation time), to understand to what extent dynamics and quantitative features such as noise intensity can be preserved.
DOI
10.1016/j.compbiolchem.2015.04.004
WOS
WOS:000356111800013
Archivio
http://hdl.handle.net/11368/2858279
info:eu-repo/semantics/altIdentifier/scopus/2-s2.0-84928248476
http://www.sciencedirect.com/science/article/pii/S1476927115000547
Diritti
closed access
license:digital rights management non definito
FVG url
https://arts.units.it/request-item?handle=11368/2858279
Soggetti
  • Discrete modeling

  • Gene regulatory netwo...

  • Hybrid system

  • Quasi-steady state ap...

  • Stochastic noise

  • Biochemistry

  • Structural Biology

  • Organic Chemistry

  • Computational Mathema...

Web of Science© citazioni
4
Data di acquisizione
Jan 27, 2024
Visualizzazioni
1
Data di acquisizione
Apr 19, 2024
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