Reaction routes in biochemical reaction systems: Algebraic properties, validated calculation procedure and example from nucleotide metabolism

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Item Type:	Article
Title:	Reaction routes in biochemical reaction systems: Algebraic properties, validated calculation procedure and example from nucleotide metabolism
Creators Name:	Schuster, S., Hilgetag, C., Woods, J.H. and Fell, D.A.
Abstract:	Elementary flux modes (direct reaction routes) are minimal sets of enzymes that can operate at steady state, with all irreversible reactions used in the appropriate direction. They can be interpreted as component pathways of a (bio)chemical reaction network. Here, two different definitions of elementary modes are given and their equivalence is proved. Several algebraic properties of elementary modes are then presented and proved. This concerns, amongst other features, the minimal number of enzymes of the network not used in an elementary mode and the situations where irreversible reactions are replaced by reversible ones. Based on these properties, a refined algorithm is presented, and it is formally proved that this algorithm will exclusively generate all the elementary flux modes of an arbitrary network containing reversible or irreversible reactions or both. The algorithm is illustrated by a biochemical example relevant in nucleotide metabolism. The computer implementation in two different programming languages is discussed.
Keywords:	Convex Analysis, Elementary Flux Modes, Modelling of Biochemical Systems, Reaction Routes, Stoichiometric Analysis, Animals
Source:	Journal of Mathematical Biology
ISSN:	0303-6812
Publisher:	Springer
Volume:	45
Number:	2
Page Range:	153-181
Date:	August 2002
Official Publication:	https://doi.org/10.1007/s002850200143
PubMed:	View item in PubMed

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