Modeling transcriptional control in gene networks -- methods, recent results, and future directions
From MaRDI portal
Publication:886768
DOI10.1006/bulm.1999.0155zbMath1323.92088OpenAlexW2142631293WikidataQ33925975 ScholiaQ33925975MaRDI QIDQ886768
Paul Smolen, John H. Byrne, Douglas A. Baxter
Publication date: 27 October 2015
Published in: Bulletin of Mathematical Biology (Search for Journal in Brave)
Full work available at URL: https://doi.org/10.1006/bulm.1999.0155
Biochemistry, molecular biology (92C40) Genetics and epigenetics (92D10) Systems biology, networks (92C42)
Related Items
Stochastic kinetics description of a simple transcription model ⋮ Oscillations in biochemical reaction networks arising from pairs of subnetworks ⋮ Dynamics of the interlocked positive feedback loops explaining the robust epigenetic switching in \textit{Candida albicans} ⋮ Scale invariance analysis for genetic networks applying homogeneity ⋮ Comparing different ODE modelling approaches for gene regulatory networks ⋮ Time-delayed models of gene regulatory networks ⋮ Modelling cell lineage using a meta-Boolean tree model with a relation to gene regulatory networks ⋮ Stability of genetic regulatory networks based on switched systems and mixed time-delays ⋮ Bounded noise induced first-order phase transitions in a baseline non-spatial model of gene transcription ⋮ Global attractivity in a model of genetic regulatory system with delay ⋮ Effect of time delay on pattern formation: Competition between homogenisation and patterning ⋮ Noise dissipation in gene regulatory networks via second order statistics of networks of infinite server queues ⋮ Augmented variational superposed Gaussian approximation for Fokker-Planck equations with rational polynomial functions ⋮ Multistage homotopy perturbation method for nonlinear reaction networks ⋮ Modeling gene regulatory networks with piecewise linear differential equations ⋮ The dual role of autoimmune regulator in maintaining normal expression level of tissue-restricted autoantigen in the thymus: a modeling investigation ⋮ Bifurcations and chaos of a discrete-time model in genetic regulatory networks ⋮ Parametric sensitivity analysis of oscillatory delay systems with an application to gene regulation ⋮ Dynamic responses of protein homeostatic regulatory mechanisms to perturbations from steady state ⋮ Set-values filtering for discrete time-delay genetic regulatory networks with time-varying para\-meters ⋮ Modeling genetic regulatory networks: a delay discrete dynamical model approach ⋮ Vertex results for the robust analysis of uncertain biochemical systems ⋮ A two variable delay model for the circadian rhythm of \textit{Neurospora crassa} ⋮ A quasistationary analysis of a stochastic chemical reaction: Keizer's paradox ⋮ Modeling synthetic gene oscillators ⋮ Inferring gene networks from steady-state response to single-gene perturbations ⋮ Parameter estimation for gene regulatory networks from microarray data: cold shock response in \textit{Saccharomyces cerevisiae} ⋮ On Approximate Solutions to One Class of Nonlinear Differential Equations ⋮ Distinguishing possible mechanisms for auxin-mediated developmental control in arabidopsis: models with two aux/IAA and ARF proteins, and two target gene-sets ⋮ Approximate Bayesian inference in semi-mechanistic models ⋮ Robust stability of Markovian jumping genetic regulatory networks with mode-dependent delays ⋮ Robustness and evolvability in genetic regulatory networks ⋮ Control of \textit{Streptococcus pyogenes} virulence: modeling of the CovR/S signal transduction system ⋮ Turing-Hopf instability in biochemical reaction networks arising from pairs of subnetworks ⋮ A model of regulatory dynamics with threshold-type state-dependent delay ⋮ Robustness and state-space structure of Boolean gene regulatory models ⋮ Inferring gene regulatory networks from temporal expression profiles under time-delay and noise ⋮ Mean field analysis of a spatial stochastic model of a gene regulatory network ⋮ Periodic oscillation in delayed gene networks with SUM regulatory logic and small perturba\-tions ⋮ Analysis and generic properties of gene regulatory networks with graded response functions ⋮ Oscillations in non-mass action kinetics models of biochemical reaction networks arising from pairs of subnetworks ⋮ Algorithms and complexity in biological pattern formation problems ⋮ Modelling Circadian Rhythms in Drosophila and Investigation of VRI and PDP1 Feedback Loops Using a New Mathematical Model ⋮ Stability analysis of equilibrium for microorganisms in continuous culture ⋮ A COMPARISON INVESTIGATION OF THE SIMPLEST MODELS OF CIRCADIAN RHYTHMS ⋮ Mutual interaction in network motifs robustly sharpens gene expression in developmental processes ⋮ Positive periodic solutions for a model of gene regulatory system with time-varying coefficients and delays ⋮ A simple model of genetic oscillations through regulated degradation ⋮ An advanced delay-dependent approach of impulsive genetic regulatory networks besides the distributed delays, parameter uncertainties and time-varying delays ⋮ Noise control and utility: from regulatory network to spatial patterning ⋮ Hopf bifurcation analysis for a model of genetic regulatory system with delay ⋮ Instability, complexity, and evolution ⋮ Generalizations of the `linear chain trick': incorporating more flexible dwell time distributions into mean field ODE models
