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Autocatalytic chemical networks play a predominant role in a large number of natural systems such as in metabolic pathways and in ecological networks. Despite recent efforts, the precise impact of thermodynamic constraints on these networks…

化学物理 · 物理学 2024-06-14 Armand Despons , Yannick de Decker , David Lacoste

Deciding whether and where a system of parametrized ordinary differential equations displays bistability, that is, has at least two asymptotically stable steady states for some choice of parameters, is a hard problem. For systems modeling…

分子网络 · 定量生物学 2020-08-31 Angélica Torres , Elisenda Feliu

In order to describe excitable reaction-diffusion systems, we derive a two-dimensional model with a Hopf and a semilocal saddle-node homoclinic bifurcation. This model gives the theoretical framework for the analysis of the saddle-node…

数学物理 · 物理学 2007-05-23 Rui Dilao , Andras Volford

Multistationary chemical reaction networks are of interest to scientists and mathematicians alike. While some criteria for multistationarity exist, obtaining explicit reaction rates and steady states that exhibit multistationarity for a…

动力系统 · 数学 2016-04-22 Bryan Félix , Anne Shiu , Zev Woodstock

Chemical, physical and ecological systems passing through a saddle-node bifurcation will, momentarily, find themselves balanced at a semi-stable steady state. If perturbed by noise, such systems will escape from the zero-steady state, with…

统计力学 · 物理学 2020-01-08 Alastair Jamieson-Lane , Eric N. Cytrynbaum

We investigate the occurrence of bifurcations in the dynamical trajectories depicting central nuclear collisions at Fermi energies. The quantitative description of the reaction dynamics is obtained within a new transport model, based on the…

核理论 · 物理学 2013-09-30 P. Napolitani , M. Colonna

The major biochemical networks of the living cell, the network of interacting genes and the network of biochemical reactions, are highly interdependent, however, they have been studied mostly as separate systems so far. In the last years an…

分子网络 · 定量生物学 2017-11-01 David F. Klosik , Anne Grimbs , Stefan Bornholdt , Marc-Thorsten Hütt

Network models are widely used as structural summaries of biochemical systems. Statistical estimation of networks is usually based on linear or discrete models. However, the dynamics of these systems are generally nonlinear, suggesting that…

应用统计 · 统计学 2014-06-03 C. J. Oates , F. Dondelinger , N. Bayani , J. Korola , J. W. Gray , S. Mukherjee

The rate of a chemical reaction can often be determined by the properties of a rank-1 saddle and the associated transition state separating reactants and products. We have found evidence that such rates can be controlled and even enhanced…

All biological processes are controlled by complex systems of enzymatic chemical reactions. Although the majority of enzymatic networks have very elaborate structures, there are many experimental observations indicating that some turnover…

统计力学 · 物理学 2015-05-27 Anatoly B. Kolomeisky

Under suitable assumptions, the dynamic behaviour of a chemical reaction network is governed by an autonomous set of polynomial ordinary differential equations over continuous variables representing the concentrations of the reactant…

动力系统 · 数学 2014-07-15 Matthew D. Johnston , David Siegel

Autocatalysis is an important feature of metabolic networks, contributing crucially to the self-maintenance of organisms. Autocatalytic subsystems of chemical reaction networks (CRNs) are characterized in terms of algebraic conditions on…

分子网络 · 定量生物学 2026-05-06 Richard Golnik , Thomas Gatter , Peter F. Stadler , Nicola Vassena

Under mass-action kinetics, biochemical reaction networks give rise to polynomial autonomous dynamical systems whose parameters are often difficult to estimate. We deal in this paper with the problem of identifying the kinetic parameters of…

分子网络 · 定量生物学 2019-04-26 Gabriela Jeronimo , Mercedes Pérez Millán , Pablo Solernó

Motivated by recent progress on the interplay between graph theory, dynamics, and systems theory, we revisit the analysis of chemical reaction networks described by mass action kinetics. For reaction networks possessing a thermodynamic…

最优化与控制 · 数学 2012-06-19 Arjan van der Schaft , Shodhan Rao , Bayu Jayawardhana

Motivated by biochemical reaction networks, a generalization of the classical secant condition for the stability analysis of cyclic interconnected commensurate fractional-order systems is provided. The main result presents a sufficient…

动力系统 · 数学 2020-11-10 Milad Siami

The objective of this paper is to study the dynamical behaviour systematically of an ecological system with Beddington-DeAngelis functional response which avoids the criticism occurred in the case of ratio-dependent functional response at…

动力系统 · 数学 2015-01-21 Sahabuddin Sarwardi , Md. Reduanur Mandal , Nurul Huda Gazi

To what extent do the characteristic features of a chemical reaction network reflect its purpose and function? In general, one argues that correlations between specific features and specific functions are key to understanding a complex…

统计力学 · 物理学 2012-03-22 Sang Hoon Lee , Sebastian Bernhardsson , Petter Holme , Beom Jun Kim , Petter Minnhagen

We consider the scalar delay differential equation $$ \dot{x}(t)=-x(t)+f_{K}(x(t-1)) $$ with a nondecreasing feedback function $f_{K}$ depending on a parameter $K$, and we verify that a saddle-node bifurcation of periodic orbits takes place…

动力系统 · 数学 2019-03-22 Szandra Guzsvány , Gabriella Vas

We consider reaction networks that admit a singular perturbation reduction in a certain parameter range. The focus of this paper is on deriving "small parameters" (briefly for small perturbation parameters), to gauge the accuracy of the…

动力系统 · 数学 2023-03-21 Justin Eilertsen , Santiago Schnell , Sebastian Walcher

Chemical reaction systems are dynamical systems that arise in chemical engineering and systems biology. In this work, we consider the question of whether the minimal (in a precise sense) multistationary chemical reaction networks, which we…

动力系统 · 数学 2012-07-10 Badal Joshi , Anne Shiu