The steady-state degree and mixed volume of a chemical reaction network

DOI10.1016/J.AAM.2021.102254zbMATH Open1471.92480arXiv1909.06652OpenAlexW3188887608MaRDI QIDQ820932FDOQ820932

Authors: Elizabeth Gross, Cvetelina Hill 

Publication date: 29 September 2021

Published in: Advances in Applied Mathematics (Search for Journal in Brave)

Abstract: The steady-state degree of a chemical reaction network is the number of complex steady-states, which is a measure of the algebraic complexity of solving the steady-state system. In general, the steady-state degree may be difficult to compute. Here, we give an upper bound to the steady-state degree of a reaction network by utilizing the underlying polyhedral geometry associated with the corresponding polynomial system. We focus on three case studies of infinite families of networks, each generated by joining smaller networks to create larger ones. For each family, we give a formula for the steady-state degree and the mixed volume of the corresponding polynomial system.

Full work available at URL: https://arxiv.org/abs/1909.06652

Recommendations

• Mixed volume of small reaction networks
• Node balanced steady states: unifying and generalizing complex and detailed balanced steady states
• Translated chemical reaction networks
• Nondegenerate multistationarity in small reaction networks
• Chemical reaction systems with toric steady states

Mathematics Subject Classification ID

Classical flows, reactions, etc. in chemistry (92E20)

Cites Work

• HOM4PS-2.0: a software package for solving polynomial systems by the polyhedral homotopy continuation method
• Algorithm 795
• Solving polynomial systems via homotopy continuation and monodromy
• Lectures on Polytopes
• Triangulations. Structures for algorithms and applications
• Algebraic systems biology: a case study for the Wnt pathway
• Numerically solving polynomial systems with Bertini
• The Euclidean distance degree of an algebraic variety
• An algebraic approach to signaling cascades with \(n\) layers
• Sign conditions for injectivity of generalized polynomial maps with applications to chemical reaction networks and real algebraic geometry
• The maximum likelihood degree
• On the number of steady states in a multiple futile cycle
• Multistationarity and bistability for fewnomial chemical reaction networks
• Multistationarity in sequential distributed multisite phosphorylation networks
• \(n\)-site phosphorylation systems with \(2n-1\) steady states
• Lower bounds for positive roots and regions of multistationarity in chemical reaction networks
• Regions of multistationarity in cascades of Goldbeter-Koshland loops
• Multistationarity in the space of total concentrations for systems that admit a monomial parametrization
• Parameter regions that give rise to \(2\lfloor \frac{n}{2} \rfloor +1\) positive steady states in the \(n\)-site phosphorylation system
• Joining and decomposing reaction networks
• Oscillations and bistability in a model of ERK regulation
• Unmixing the mixed volume computation
• Biochemical reaction networks: An invitation for algebraic geometers
• A survey of methods for deciding whether a reaction network is multistationary

Cited In (4)

• Newton-Okounkov bodies of chemical reaction systems
• Mixed volumes of networks with binomial steady-states
• Mixed volume of small reaction networks
• Title not available (Why is that?)

Uses Software

• HOM4PS
• PHCpack
• Bertini
• MonodromySolver
• libtropicana

This page was built for publication: The steady-state degree and mixed volume of a chemical reaction network

Report a bug (only for logged in users!)Click here to report a bug for this page (MaRDI item Q820932)