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Theoretical approaches for the dynamics of complex biological systems from information of networks

Modern biology has provided many examples of large networks describing the interactions between multiple species of bio-molecules. It is believed that the dynamics of molecular activities based on such networks are the origin of biological functions. On the other hand, we have a limited understandin...

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Autor principal: MOCHIZUKI, Atsushi
Formato: Online Artículo Texto
Lenguaje:English
Publicado: The Japan Academy 2016
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5243945/
https://www.ncbi.nlm.nih.gov/pubmed/27725468
http://dx.doi.org/10.2183/pjab.92.255
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author MOCHIZUKI, Atsushi
author_facet MOCHIZUKI, Atsushi
author_sort MOCHIZUKI, Atsushi
collection PubMed
description Modern biology has provided many examples of large networks describing the interactions between multiple species of bio-molecules. It is believed that the dynamics of molecular activities based on such networks are the origin of biological functions. On the other hand, we have a limited understanding for dynamics of molecular activity based on networks. To overcome this problem, we have developed two structural theories, by which the important aspects of the dynamical properties of the system are determined only from information on the network structure, without assuming other quantitative details. The first theory, named Linkage Logic, determines a subset of molecules in regulatory networks, by which any long-term dynamical behavior of the whole system can be identified/controlled. The second theory, named Structural Sensitivity Analysis, determines the sensitivity responses of the steady state of chemical reaction networks to perturbations of the reaction rate. The first and second theories investigate the dynamical properties of regulatory and reaction networks, respectively. The first theory targets the attractors of the regulatory network systems, whereas the second theory applies only to the steady states of the reaction network systems, but predicts their detailed behavior. To demonstrate the utility of our methods several biological network systems, and show they are practically useful to analyze behaviors of biological systems.
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spelling pubmed-52439452017-02-21 Theoretical approaches for the dynamics of complex biological systems from information of networks MOCHIZUKI, Atsushi Proc Jpn Acad Ser B Phys Biol Sci Review Modern biology has provided many examples of large networks describing the interactions between multiple species of bio-molecules. It is believed that the dynamics of molecular activities based on such networks are the origin of biological functions. On the other hand, we have a limited understanding for dynamics of molecular activity based on networks. To overcome this problem, we have developed two structural theories, by which the important aspects of the dynamical properties of the system are determined only from information on the network structure, without assuming other quantitative details. The first theory, named Linkage Logic, determines a subset of molecules in regulatory networks, by which any long-term dynamical behavior of the whole system can be identified/controlled. The second theory, named Structural Sensitivity Analysis, determines the sensitivity responses of the steady state of chemical reaction networks to perturbations of the reaction rate. The first and second theories investigate the dynamical properties of regulatory and reaction networks, respectively. The first theory targets the attractors of the regulatory network systems, whereas the second theory applies only to the steady states of the reaction network systems, but predicts their detailed behavior. To demonstrate the utility of our methods several biological network systems, and show they are practically useful to analyze behaviors of biological systems. The Japan Academy 2016-10-11 /pmc/articles/PMC5243945/ /pubmed/27725468 http://dx.doi.org/10.2183/pjab.92.255 Text en © 2016 The Japan Academy This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Review
MOCHIZUKI, Atsushi
Theoretical approaches for the dynamics of complex biological systems from information of networks
title Theoretical approaches for the dynamics of complex biological systems from information of networks
title_full Theoretical approaches for the dynamics of complex biological systems from information of networks
title_fullStr Theoretical approaches for the dynamics of complex biological systems from information of networks
title_full_unstemmed Theoretical approaches for the dynamics of complex biological systems from information of networks
title_short Theoretical approaches for the dynamics of complex biological systems from information of networks
title_sort theoretical approaches for the dynamics of complex biological systems from information of networks
topic Review
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5243945/
https://www.ncbi.nlm.nih.gov/pubmed/27725468
http://dx.doi.org/10.2183/pjab.92.255
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