Homotopy methods for counting reaction network equilibria

DOI10.1016/J.MBS.2008.09.001zbMATH Open1153.92015arXiv0711.1552OpenAlexW2125149430WikidataQ51868093 ScholiaQ51868093MaRDI QIDQ1000192FDOQ1000192

Authors: Gheorghe Craciun, J. William Helton, R. J. Williams 

Publication date: 5 February 2009

Published in: Mathematical Biosciences (Search for Journal in Brave)

Abstract: Dynamical system models of complex biochemical reaction networks are usually high-dimensional, nonlinear, and contain many unknown parameters. In some cases the reaction network structure dictates that positive equilibria must be unique for all values of the parameters in the model. In other cases multiple equilibria exist if and only if special relationships between these parameters are satisfied. We describe methods based on homotopy invariance of degree which allow us to determine the number of equilibria for complex biochemical reaction networks and how this number depends on parameters in the model.

Full work available at URL: https://arxiv.org/abs/0711.1552

Recommendations

• Multiple Equilibria in Complex Chemical Reaction Networks: I. The Injectivity Property
• Global injectivity and multiple equilibria in uni- and bi-molecular reaction networks
• Injectivity, multiple zeros and multistationarity in reaction networks
• A deficiency-based approach to parametrizing positive equilibria of biochemical reaction systems
• Multiple Equilibria in Complex Chemical Reaction Networks: II. The Species-Reaction Graph

zbMATH Keywords

biochemical reaction networkshomotopymultiple equilibria

Mathematics Subject Classification ID

Biochemistry, molecular biology (92C40) Dynamical systems in biology (37N25) Kinetics in biochemical problems (pharmacokinetics, enzyme kinetics, etc.) (92C45)

Cites Work

• A Petri net approach to the study of persistence in chemical reaction networks
• Title not available (Why is that?)
• Multiple Equilibria in Complex Chemical Reaction Networks: I. The Injectivity Property
• Mathematical physiology
• Title not available (Why is that?)
• Understanding bistability in complex enzyme-driven reaction networks
• Multiple Equilibria in Complex Chemical Reaction Networks: II. The Species-Reaction Graph
• Title not available (Why is that?)
• The existence and uniqueness of steady states for a class of chemical reaction networks
• Structure and stability of certain chemical networks and applications to the kinetic proofreading model of T-cell receptor signal transduction
• The secant condition for instability in biochemical feedback control. I: The role of cooperativity and saturability
• Diagonal stability of a class of cyclic systems and its connection with the secant criterion
• PMatrix Properties, Injectivity, and Stability in Chemical Reaction Systems
• A passivity-based stability criterion for a class of biochemical reaction networks
• Determinant Expansions of Signed Matrices and of Certain Jacobians

Cited In (26)

• Enumeration approach to computing chemical equilibria
• Complex-linear invariants of biochemical networks
• On the existence of the positive steady states of weakly reversible deficiency-one mass action systems
• Symbolic analysis of multiple steady states in a MAPK chemical reaction network
• Atoms of multistationarity in chemical reaction networks
• Classification of infinitesimal homeostasis in four-node input-output networks
• Some results on injectivity and multistationarity in chemical reaction networks
• The inheritance of nondegenerate multistationarity in chemical reaction networks
• Graph-theoretic analysis of multistationarity using degree theory
• Sign patterns for chemical reaction networks
• Title not available (Why is that?)
• Analysis of reaction network systems using tropical geometry
• Graphical methods for analysing feedback in biological networks -- a survey
• Algebra and geometry in the study of enzymatic cascades
• The number of equilibrium points of perturbed nonlinear positive dynamical systems
• The kinetic space of multistationarity in dual phosphorylation
• Parameter Region for Multistationarity in \({\boldsymbol{n-}}\)Site Phosphorylation Networks
• Nonlinear algebra and applications
• A deficiency-based approach to parametrizing positive equilibria of biochemical reaction systems
• Sign conditions for injectivity of generalized polynomial maps with applications to chemical reaction networks and real algebraic geometry
• Notes on the deficiency-one theorem: multiple linkage classes
• Mixed volume of small reaction networks
• Multistationarity in structured reaction networks
• Equilibria and stability of a class of positive feedback loops. Mathematical analysis and its application to caspase-dependent apoptosis
• On the dependence of the existence of the positive steady states on the rate coefficients for deficiency-one mass action systems: single linkage class
• Vector-Space Methods and Kirchhoff Graphs for Reaction Networks

This page was built for publication: Homotopy methods for counting reaction network equilibria

Report a bug (only for logged in users!)Click here to report a bug for this page (MaRDI item Q1000192)