Polynomial representations of piecewise-linear differential equations arising from gene regulatory networks
The paper investigates a system of ODEs of the form \[ dx_i/dt=F_i(z_1,z_2,\dotsc ,z_n)-G_i(z_1,z_2,\dotsc ,z_n)x_i,\;i=1,2,\dotsc ,n, \] modelling the dynamics of gene product concentrations \(x_i(t)\) in a gene regulatory network. Here \(z_k=z_k(x_k)\) are the response functions which are assumed to be step functions representing whether the corresponding gene \(k\) is activated or deactivated provided that the product concentration \(x_k\) is below or above a certain threshold, say \(\theta_k\). Finally, \(F_i\) and \(G_i\) are the so called regulatory functions which depend on the response functions \(z_k\). The study is based on singular perturbation analysis where the step functions are approximated by (smooth) Hill functions: \(z_k=H(x_k,\theta_k,q_k)=x_k^{1/q_k}/\left(x_k^{1/q_k}+\theta_k^{1/q_k}\right)\). It is shown that, inside any regular domain, i.e., a domain of the phase space such that no threshold is crossed, the limit dynamics as \(q_k\downarrow0\) could be completely described by a uniquely defined equivalent system with multilinear regulatory functions replacing the original. On the other hand, the limit dynamics in the singular domains is sensitive to the particular form of the functions \(F_i\) and \(G_i\), and their replacement with multilinear functions may not be accurate. Nevertheless, the authors propose a solution of that problem substituting the regulatory functions with higher-order polynomial representations. Finally, for that purpose, the minimal polynomial degree is determined in the generic cases.
- Modeling gene regulatory networks with piecewise linear differential equations
- Differential inclusions and Filippov solutions in the analysis of piecewise linear models describing gene regulatory networks
- Piecewise-linear models of genetic regulatory networks: equilibria and their stability
- Filippov solutions in the analysis of piecewise linear models describing gene regulatory networks
- Piecewise linear dynamical system modeling gene network with variable feedback
- Polynomial relaxation-based conditions for global asymptotic stability of equilibrium points of genetic regulatory networks
- Discrete time piecewise affine models of genetic regulatory networks
- Comparing different ODE modelling approaches for gene regulatory networks
- Smooth dynamics becomes hybrid in the limit
- Piecewise synergetic systems and applications in biochemical systems theory
- Nonlinear perturbations of piecewise-linear systems with delay and applications to gene regulatory networks
- Families of polynomials in the study of biochemical reaction networks
- Modeling gene regulatory networks with piecewise linear differential equations
This page was built for publication: Polynomial representations of piecewise-linear differential equations arising from gene regulatory networks
Report a bug (only for logged in users!)Click here to report a bug for this page (MaRDI item Q1940179)
