Qualitative simulation of genetic regulatory networks using piecewise-linear models

From MaRDI portal
Revision as of 01:34, 30 January 2024 by Import240129110155 (talk | contribs) (Created automatically from import240129110155)
(diff) ← Older revision | Latest revision (diff) | Newer revision → (diff)

Publication:253520

DOI10.1016/J.BULM.2003.08.010zbMath1334.92282OpenAlexW1988383139WikidataQ31044114 ScholiaQ31044114MaRDI QIDQ253520

Michel Page, Céline Hernandez, Jean-Luc Gouzé, Johannes Geiselmann, Hidde de Jong, Tewfik Sari

Publication date: 8 March 2016

Published in: Bulletin of Mathematical Biology (Search for Journal in Brave)

Full work available at URL: https://doi.org/10.1016/j.bulm.2003.08.010




Related Items (79)

Importance of metabolic coupling for the dynamics of gene expression following a diauxic shift in \textit{Escherichia coli}Multistability and oscillations in genetic control of metabolismMathematical modeling of the lambda switch: a fuzzy logic approachDirect event location techniques based on Adams multistep methods for discontinuous ODEsPiecewise-linear models of genetic regulatory networks: equilibria and their stabilityComparing different ODE modelling approaches for gene regulatory networksA Lyapunov function for piecewise-independent differential equations: stability of the ideal free distribution in two patch environmentsModel Checking of Biological SystemsStability analysis of impulsive delayed switched systems and applicationsModeling and Analysis of Gene Regulatory NetworksModeling transport regulation in gene regulatory networksStability analysis of switched systems using variational principles: An introductionExplicit construction of chaotic attractors in Glass networksLinear analysis of an integro-differential delay equation modelFormal model of the interplay between TGF-\(\beta 1\) and MMP-9 and their dynamics in hepatocellular carcinomaEmbedding of biological regulatory networks and property preservationLogical modelling of regulatory networks, methods and applicationsTeixeira singularities in 3D switched feedback control systemsFilippov solutions in the analysis of piecewise linear models describing gene regulatory networksSmooth Dynamics Becomes Hybrid in the LimitOscillator death in coupled biochemical oscillatorsStructural stability for 2-dimensional piecewise smooth vector fields where the switching manifold is a double discontinuityComparison of stationary and oscillatory dynamics described by differential equations and Boolean maps in transcriptional regulatory circuitsQuantifying robustness of the gap gene networkContinuous-switch piecewise quadratic models of biological networks: application to bacterial growthRobustness and fragility of Boolean models for genetic regulatory networksA generic framework to coarse-grain stochastic reaction networks by abstract interpretationFundamental matrix solutions of piecewise smooth differential systemsSliding motion on discontinuity surfaces of high co-dimension. A construction for selecting a Filippov vector fieldDynamics of actively regulated gene networksState transition graph and stability of singular equilibria for piecewise linear biological modelsA survey of numerical methods for IVPs of ODEs with discontinuous right-hand sideRegularizing piecewise smooth differential systems: co-dimension 2 discontinuity surfaceSuper-transient scaling in time-delay autonomous Boolean network motifsMicrobial metabolism and growth under conditions of starvation modelled as the sliding mode of a differential inclusionQualitative Stability Patterns for Lotka-Volterra Systems on RectanglesModeling the onset of virulence in a pectinolytic bacteriumA model of flexible uptake of two essential resourcesSymbolic reachability analysis of genetic regulatory networks using discrete abstractionsMinimum time control of large‐scale boolean control networks with constraintsComparison of Combinatorial Signatures of Global Network Dynamics Generated by Two Classes of ODE ModelsNumerical simulation of piecewise-linear models of gene regulatory networks using complementarity systemsBiologically meaningful update rules increase the critical connectivity of generalized Kauffman networksComputation Tree Regular Logic for Genetic Regulatory NetworksPeriodicity and global exponential stability of generalized Cohen-Grossberg neural networks with discontinuous activations and mixed delaysLinks between topology of the transition graph and limit cycles in a two-dimensional piecewise affine biological modelDiscontinuity-induced bifurcations of piecewise smooth dynamical systemsNonlinear and temporal multiscale dynamics of gene regulatory networks: a qualitative simulatorExact control of genetic networks in a qualitative framework: the bistable switch exampleA model for the hepatic glucose metabolism based on Hill and step functionsNegative circuits and sustained oscillations in asynchronous automata networksCoarse-grained optimization-driven design and piecewise linear modeling of synthetic genetic circuitsPiecewise linear and Boolean models of chemical reaction networksLimit cycles in piecewise-affine gene network models with multiple interaction loopsAn improved method for inference of piecewise linear systems by detecting jumps using derivative estimationPositive circuits and maximal number of fixed points in discrete dynamical systemsFunctional differential inclusions generated by functional differential equations with discontinuitiesEffective parameters determining the information flow in hierarchical biological systemsSensitivity analysis of primary resonances and bifurcations of a controlled piecewise-smooth system with negative stiffnessCTRL: extension of CTL with regular expressions and fairness operators to verify genetic regulatory networksChaotic dynamics in an electronic model of a genetic networkOn algorithmic analysis of transcriptional regulation by LTL model checkingAnalysis and generic properties of gene regulatory networks with graded response functionsDiscrete time piecewise affine models of genetic regulatory networksAn Algorithm for Qualitative Simulation of Gene Regulatory Networks with Steep Sigmoidal Response FunctionsSensitive dependence on initial conditions in gene networksHierarchy of models: From qualitative to quantitative analysis of circadian rhythms in cyanobacteriaFuzzy qualitative trigonometryControl of switched linear systems with input saturationOn the Gause predator-prey model with a refuge: a fresh look at the historyDynamical Systems Coupled with Monotone Set-Valued Operators: Formalisms, Applications, Well-Posedness, and StabilityMechanistic simulations of inflammation: current state and future prospectsOn convergence for hybrid models of gene regulatory networks under polytopic uncertainties: a Lyapunov approachPeriodic solutions of gene networks with steep sigmoidal regulatory functionsOn inclusions arising in neural field modelingOn uniform controller design for linear switched systemsOn the existence of limit cycles and invariant surfaces for sewing piecewise linear differential systems on \(\mathbb{R}^3\)Parallel Model Checking Large-Scale Genetic Regulatory Networks with DiVinEThe Border Collision Normal Form with Stochastic Switching Surface







This page was built for publication: Qualitative simulation of genetic regulatory networks using piecewise-linear models