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Origins of Stochasticity and Burstiness in High-Dimensional Biochemical Networks

Two major approaches are known in the field of stochastic dynamics of intracellular biochemical networks. The first one places the focus of attention on the fact that many biochemical constituents vitally important for the network functionality may be present only in small quantities within the cell...

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Autor principal: Rosenfeld, Simon
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Springer 2008
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3171425/
https://www.ncbi.nlm.nih.gov/pubmed/18946549
http://dx.doi.org/10.1155/2009/362309
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author Rosenfeld, Simon
author_facet Rosenfeld, Simon
author_sort Rosenfeld, Simon
collection PubMed
description Two major approaches are known in the field of stochastic dynamics of intracellular biochemical networks. The first one places the focus of attention on the fact that many biochemical constituents vitally important for the network functionality may be present only in small quantities within the cell, and therefore the regulatory process is essentially discrete and prone to relatively big fluctuations. The second approach treats the regulatory process as essentially continuous. Complex pseudostochastic behavior in such processes may occur due to multistability and oscillatory motions within limit cycles. In this paper we outline the third scenario of stochasticity in the regulatory process. This scenario is only conceivable in high-dimensional highly nonlinear systems. In particular, we show that burstiness, a well-known phenomenon in the biology of gene expression, is a natural consequence of high dimensionality coupled with high nonlinearity. In mathematical terms, burstiness is associated with heavy-tailed probability distributions of stochastic processes describing the dynamics of the system. We demonstrate how the "shot" noise originates from purely deterministic behavior of the underlying dynamical system. We conclude that the limiting stochastic process may be accurately approximated by the "heavy-tailed" generalized Pareto process which is a direct mathematical expression of burstiness.
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spelling pubmed-31714252011-09-13 Origins of Stochasticity and Burstiness in High-Dimensional Biochemical Networks Rosenfeld, Simon EURASIP J Bioinform Syst Biol Research Article Two major approaches are known in the field of stochastic dynamics of intracellular biochemical networks. The first one places the focus of attention on the fact that many biochemical constituents vitally important for the network functionality may be present only in small quantities within the cell, and therefore the regulatory process is essentially discrete and prone to relatively big fluctuations. The second approach treats the regulatory process as essentially continuous. Complex pseudostochastic behavior in such processes may occur due to multistability and oscillatory motions within limit cycles. In this paper we outline the third scenario of stochasticity in the regulatory process. This scenario is only conceivable in high-dimensional highly nonlinear systems. In particular, we show that burstiness, a well-known phenomenon in the biology of gene expression, is a natural consequence of high dimensionality coupled with high nonlinearity. In mathematical terms, burstiness is associated with heavy-tailed probability distributions of stochastic processes describing the dynamics of the system. We demonstrate how the "shot" noise originates from purely deterministic behavior of the underlying dynamical system. We conclude that the limiting stochastic process may be accurately approximated by the "heavy-tailed" generalized Pareto process which is a direct mathematical expression of burstiness. Springer 2008-05-14 /pmc/articles/PMC3171425/ /pubmed/18946549 http://dx.doi.org/10.1155/2009/362309 Text en Copyright © 2009 Simon Rosenfeld. https://creativecommons.org/licenses/by/4.0/This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Research Article
Rosenfeld, Simon
Origins of Stochasticity and Burstiness in High-Dimensional Biochemical Networks
title Origins of Stochasticity and Burstiness in High-Dimensional Biochemical Networks
title_full Origins of Stochasticity and Burstiness in High-Dimensional Biochemical Networks
title_fullStr Origins of Stochasticity and Burstiness in High-Dimensional Biochemical Networks
title_full_unstemmed Origins of Stochasticity and Burstiness in High-Dimensional Biochemical Networks
title_short Origins of Stochasticity and Burstiness in High-Dimensional Biochemical Networks
title_sort origins of stochasticity and burstiness in high-dimensional biochemical networks
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3171425/
https://www.ncbi.nlm.nih.gov/pubmed/18946549
http://dx.doi.org/10.1155/2009/362309
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