Symbolic versus numerical computation and visualization of parameter regions for multistationarity of biological networks
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Publication:1701474
DOI10.1007/978-3-319-66320-3_8zbMATH Open1455.92058arXiv1706.08794OpenAlexW2724130349WikidataQ62015409 ScholiaQ62015409MaRDI QIDQ1701474FDOQ1701474
Authors: Matthew England, Hassan Errami, Ovidiu Radulescu, Thomas Sturm, Andreas Weber, Dima Grigoriev 
Publication date: 23 February 2018
Abstract: We investigate models of the mitogenactivated protein kinases (MAPK) network, with the aim of determining where in parameter space there exist multiple positive steady states. We build on recent progress which combines various symbolic computation methods for mixed systems of equalities and inequalities. We demonstrate that those techniques benefit tremendously from a newly implemented graph theoretical symbolic preprocessing method. We compare computation times and quality of results of numerical continuation methods with our symbolic approach before and after the application of our preprocessing.
Full work available at URL: https://arxiv.org/abs/1706.08794
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- Parametric toricity of steady state varieties of reaction networks
- Symbolic analysis of multiple steady states in a MAPK chemical reaction network
- Using machine learning to improve cylindrical algebraic decomposition
- Multistationarity in the activation of a MAPK: parametrizing the relevant region in parameter space
- Cylindrical algebraic decomposition with equational constraints
- Testing binomiality of chemical reaction networks using comprehensive Gröbner systems
- Symbolic computations of the equilibrium orientations of a system of two connected bodies moving on a circular orbit around the Earth
- A case study on the parametric occurrence of multiple steady states
- Algorithmic reduction of biological networks with multiple time scales
- Identifying the parametric occurrence of multiple steady states for some biological networks
- Computer algebra methods for searching the stationary motions of the connected bodies system moving in gravitational field
- MAPK's networks and their capacity for multistationarity due to toric steady states
- Exotic bifurcations in three connected populations with Allee effect
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