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Geometry and symmetry in biochemical reaction systems

Geometry and symmetry in biochemical reaction systems
Geometry and symmetry in biochemical reaction systems
Complex systems of intracellular biochemical reactions have a central role in regulating cell identities and functions. Biochemical reaction systems are typically studied using the language and tools of graph theory. However, graph representations only describe pairwise interactions between molecular species and so are not well suited to modelling complex sets of reactions that may involve numerous reactants and/or products. Here, we make use of a recently developed hypergraph theory of chemical reactions that naturally allows for higher-order interactions to explore the geometry and quantify functional redundancy in biochemical reactions systems. Our results constitute a general theory of automorphisms for oriented hypergraphs and describe the effect of automorphism group structure on hypergraph Laplacian spectra.
Complex systems, Hypergraphs, Spectral properties, Symmetry
1431-7613
265-277
Mulas, Raffaella
1ceeaad9-da27-4bb3-bd5b-4f0c7ec422e5
Sanchez Garcia, Ruben
8246cea2-ae1c-44f2-94e9-bacc9371c3ed
MacArthur, Ben
4fa2fa9d-b8e5-48b3-b98d-930e1c7f7fff
Mulas, Raffaella
1ceeaad9-da27-4bb3-bd5b-4f0c7ec422e5
Sanchez Garcia, Ruben
8246cea2-ae1c-44f2-94e9-bacc9371c3ed
MacArthur, Ben
4fa2fa9d-b8e5-48b3-b98d-930e1c7f7fff

Mulas, Raffaella, Sanchez Garcia, Ruben and MacArthur, Ben (2021) Geometry and symmetry in biochemical reaction systems. Theory in Biosciences, 140 (3), 265-277. (doi:10.1007/s12064-021-00353-7).

Record type: Article

Abstract

Complex systems of intracellular biochemical reactions have a central role in regulating cell identities and functions. Biochemical reaction systems are typically studied using the language and tools of graph theory. However, graph representations only describe pairwise interactions between molecular species and so are not well suited to modelling complex sets of reactions that may involve numerous reactants and/or products. Here, we make use of a recently developed hypergraph theory of chemical reactions that naturally allows for higher-order interactions to explore the geometry and quantify functional redundancy in biochemical reactions systems. Our results constitute a general theory of automorphisms for oriented hypergraphs and describe the effect of automorphism group structure on hypergraph Laplacian spectra.

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2010.01049 - Accepted Manuscript
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More information

Accepted/In Press date: 6 July 2021
e-pub ahead of print date: 15 July 2021
Keywords: Complex systems, Hypergraphs, Spectral properties, Symmetry

Identifiers

Local EPrints ID: 450450
URI: http://eprints.soton.ac.uk/id/eprint/450450
ISSN: 1431-7613
PURE UUID: dfa0098e-750a-4a40-a758-7afcf6db6a00
ORCID for Ruben Sanchez Garcia: ORCID iD orcid.org/0000-0001-6479-3028

Catalogue record

Date deposited: 28 Jul 2021 16:31
Last modified: 26 Nov 2021 02:56

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Contributors

Author: Raffaella Mulas
Author: Ben MacArthur

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