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Author Goles, E.; Lobos, F.; Ruz, G.A.; Sene, S. doi  openurl
  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 (down) 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 Demongeot, J.; Goles, E.; Morvan, M.; Noual, M.; Sene, S. pdf  doi
openurl 
  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 (down) 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 Ruz, G.A.; Goles, E.; Sene, S. doi  openurl
  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 (down) 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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