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Author Demongeot, J.; Goles, E.; Morvan, M.; Noual, M.; Sene, S.
Title Attraction Basins as Gauges of Robustness against Boundary Conditions in Biological Complex Systems Type
Year 2010 Publication Plos One Abbreviated Journal PLoS One
Volume 5 Issue 8 Pages 18 pp
Keywords
Abstract One fundamental concept in the context of biological systems on which researches have flourished in the past decade is that of the apparent robustness of these systems, i.e., their ability to resist to perturbations or constraints induced by external or boundary elements such as electromagnetic fields acting on neural networks, micro-RNAs acting on genetic networks and even hormone flows acting both on neural and genetic networks. Recent studies have shown the importance of addressing the question of the environmental robustness of biological networks such as neural and genetic networks. In some cases, external regulatory elements can be given a relevant formal representation by assimilating them to or modeling them by boundary conditions. This article presents a generic mathematical approach to understand the influence of boundary elements on the dynamics of regulation networks, considering their attraction basins as gauges of their robustness. The application of this method on a real genetic regulation network will point out a mathematical explanation of a biological phenomenon which has only been observed experimentally until now, namely the necessity of the presence of gibberellin for the flower of the plant Arabidopsis thaliana to develop normally.
Address [Demongeot, Jacques] Univ Grenoble 1, TIMC IMAG, CNRS, UMR 5525, La Tronche, France, Email: Sylvain.Sene@ibisc.univ-evry.fr
Corporate Author Thesis
Publisher Public Library Science Place of Publication Editor
Language English Summary Language Original Title
Series Editor Series Title Abbreviated Series Title
Series Volume Series Issue Edition
ISSN 1932-6203 ISBN Medium
Area Expedition Conference
Notes WOS:000280605400002 Approved
Call Number UAI @ eduardo.moreno @ Serial 92
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Author Goles, E.; Lobos, F.; Ruz, G.A.; Sene, S.
Title Attractor landscapes in Boolean networks with firing memory: a theoretical study applied to genetic networks Type
Year 2020 Publication Natural Computing Abbreviated Journal Nat. Comput.
Volume 19 Issue 2 Pages 295-319
Keywords Discrete dynamical systems; Boolean networks; Biological network modeling
Abstract In this paper we study the dynamical behavior of Boolean networks with firing memory, namely Boolean networks whose vertices are updated synchronously depending on their proper Boolean local transition functions so that each vertex remains at its firing state a finite number of steps. We prove in particular that these networks have the same computational power than the classical ones, i.e. any Boolean network with firing memory composed of m vertices can be simulated by a Boolean network by adding vertices. We also prove general results on specific classes of networks. For instance, we show that the existence of at least one delay greater than 1 in disjunctive networks makes such networks have only fixed points as attractors. Moreover, for arbitrary networks composed of two vertices, we characterize the delay phase space, i.e. the delay values such that networks admits limit cycles or fixed points. Finally, we analyze two classical biological models by introducing delays: the model of the immune control of the lambda\documentclass[12pt]{minimal} \usepackage{amsmath} \usepackage{wasysym} \usepackage{amsfonts} \usepackage{amssymb} \usepackage{amsbsy} \usepackage{mathrsfs} \usepackage{upgreek} \setlength{\oddsidemargin}{-69pt} \begin{document}$$\lambda $$\end{document}-phage and that of the genetic control of the floral morphogenesis of the plant Arabidopsis thaliana.
Address [Goles, Eric; Lobos, Fabiola; Ruz, Gonzalo A.] Univ Adolfo Ibanez, Fac Ingn & Ciencias, Santiago, Chile, Email: eric.chacc@uai.cl;
Corporate Author Thesis
Publisher Springer Place of Publication Editor
Language English Summary Language Original Title
Series Editor Series Title Abbreviated Series Title
Series Volume Series Issue Edition
ISSN 1567-7818 ISBN Medium
Area Expedition Conference
Notes WOS:000531210800001 Approved
Call Number UAI @ eduardo.moreno @ Serial 1139
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Author Ruz, G.A.; Goles, E.; Sene, S.
Title Reconstruction of Boolean Regulatory Models of Flower Development Exploiting an Evolution Strategy Type
Year 2018 Publication 2018 IEEE Congress on Evolutionary Computation (CEC) Abbreviated Journal 2018 IEEE CEC
Volume Issue Pages 1-8
Keywords
Abstract
Address
Corporate Author Thesis
Publisher Place of Publication Editor
Language Summary Language Original Title
Series Editor Series Title Abbreviated Series Title
Series Volume Series Issue Edition
ISSN ISBN Medium
Area Expedition Conference
Notes Approved
Call Number UAI @ eduardo.moreno @ Serial 1294
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