Related papers: In distributive phosphorylation catalytic constant…
Delay is an inherent feature of genetic regulatory networks. It represents the time required for the assembly of functional regulator proteins. The protein production process is complex, as it includes transcription, translocation,…
In this paper, we study the existence and the property of the Hopf bifurcation in the two-strategy replicator dynamics with distributed delays. In evolutionary games, we assume that a strategy would take an uncertain time delay to have a…
This work addresses whether a reaction network, taken with mass-action kinetics, is multistationary, that is, admits more than one positive steady state in some stoichiometric compatibility class. We build on previous work on the effect…
The logistic two-gene negative-feedback oscillator is locally asymptotically stable for all biological parameter values, since the trace of the Jacobian is uniformly negative. Real biological oscillators (circadian rhythms, the segmentation…
Distributed delays modeled by 'weak generic kernels' are introduced in the well-known coupled Landau-Stuart system, as well as a chaotic van der Pol-Rayleigh system with parametric forcing. The systems are close via the 'linear chain…
Background: Using a statistical physics approach, we study the stochastic switching behavior of a model circuit of multisite phosphorylation and dephosphorylation with feedback. The circuit consists of a kinase and phosphatase acting on…
Multistationarity, underlies biochemical switching and cellular decision-making. We study how multistationarity in the sequential n-site phosphorylation-dephosphorylation cycle is affected when only some species are open, meaning allowed to…
Double phosphorylation of protein kinases is a common feature of signalling cascades. This motif may reduce cross-talk between signalling pathways, as the second phosphorylation site allows for proofreading, especially when phosphorylation…
The multiple futile cycle is an important building block in networks of chemical reactions arising in molecular biology. A typical process which it describes is the addition of n phosphate groups to a protein. It can be modelled by a system…
We study scattering of a periodic wave in a string on two lumped oscillators attached to it. The equations can be represented as a driven (by the incident wave) dissipative (due to radiation losses) system of delay differential equations of…
Bifunctional enzymes, which catalyze both the forward and reverse steps of a substrate modification reaction, arise naturally in bacterial two-component signaling systems and metabolic regulation. Beyond their well-known role in conferring…
Oscillatory dynamics are ubiquitous in biological networks. Possible sources of oscillations are well understood in low-dimensional systems, but have not been fully explored in high-dimensional networks. Here we study large networks…
The functions of many networked systems in physics, biology or engineering rely on a coordinated or synchronized dynamics of its constituents. In power grids for example, all generators must synchronize and run at the same frequency and…
Hopf bifurcation in networks of coupled ODEs creates periodic states in which the relative phases of nodes are well defined near bifurcation. When the network is a fully inhomogeneous nearest-neighbour coupled unidirectional ring, and node…
The logistic equation has many applications and is used frequently in different fields, such as biology, medicine, and economics. In this paper, we study the stability of a single-species logistic model with a general distribution delay…
Signal transduction within biological cells is governed by networks of interacting proteins. Communication between these proteins is mediated by signaling molecules which bind to receptors and induce stochastic transitions between different…
We present a bifurcation analysis of a normal form for travelling waves in one-dimensional excitable media. The normal form which has been recently proposed on phenomenological grounds is given in form of a differential delay equation. The…
A ubiquitous building block of signaling pathways is a cycle of covalent modification (e.g., phosphorylation and dephosphorylation in MAPK cascades). Our paper explores the kind of information processing and filtering that can be…
Oscillations play a major role in a number of biological systems, from predator-prey models of ecology to circadian clocks. In this paper we focus on the question of whether oscillations exist within dual-site phosphorylation systems.…
This study investigates the existence and stability of limit cycles resulting from self-excited oscillations in linear multi-degree-of-freedom systems subjected to discontinuous, state-dependent forcing. Using the method of averaging and…