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Testing Binomiality of Chemical Reaction Networks Using Comprehensive Gröbner Systems

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Rahkooy,  Hamid
Automation of Logic, MPI for Informatics, Max Planck Society;

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Sturm,  Thomas       
Automation of Logic, MPI for Informatics, Max Planck Society;

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arXiv:2107.01706.pdf
(Preprint), 255KB

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Citation

Rahkooy, H., & Sturm, T. (2021). Testing Binomiality of Chemical Reaction Networks Using Comprehensive Gröbner Systems. Retrieved from https://arxiv.org/abs/2107.01706.


Cite as: https://hdl.handle.net/21.11116/0000-0009-4B14-D
Abstract
We consider the problem of binomiality of the steady state ideals of
biochemical reaction networks. We are interested in finding polynomial
conditions on the parameters such that the steady state ideal of a chemical
reaction network is binomial under every specialisation of the parameters if
the conditions on the parameters hold. We approach the binomiality problem
using Comprehensive Gr\"obner systems. Considering rate constants as
parameters, we compute comprehensive Gr\"obner systems for various reactions.
In particular, we make automatic computations on n-site phosphorylations and
biomodels from the Biomodels repository using the grobcov library of the
computer algebra system Singular.