DOI: 10.1101/499251Dec 17, 2018Paper

Metabolic network reductions

BioRxiv : the Preprint Server for Biology
Mojtaba Tefagh, Stephen P Boyd

Abstract

Genome-scale metabolic networks are exceptionally huge and even efficient algorithms can take a while to run because of the sheer size of the problem instances. To address this problem, metabolic network reductions can substantially reduce the overwhelming size of the problem instances at hand. We begin by formulating some reasonable axioms defining what it means for a metabolic network reduction to be “canonical” which conceptually enforces reversibility without loss of any information on the feasible flux distributions. Then, we start to search for an efficient way to deduce some of the attributes of the original network from the reduced one in order to improve the performance. As the next step, we will demonstrate how to reduce a metabolic network repeatedly until no more reductions are possible. In the end, we sum up by pointing out some of the biological implications of this study apart from the computational aspects discussed earlier. Author summary Metabolic networks appear at first sight to be nothing more than an enormous body of reactions. The dynamics of each reaction obey the same fundamental laws and a metabolic network as a whole is the melange of its reactions. The oversight in this kind of reductionist thinking...Continue Reading

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