Computing knock out strategies in metabolic networks

Details Computing knock out strategies in metabolic networks Computing knock out strategies in metabolic networks

2007-12-29

arxiv.org/abs/0801.0082v1

Journal of Computational Biology. April 1, 2008, 15(3): 259-268

Biology

Quantitative Biology

Quantitative Methods

12 pages

Scientific paper

10.1089/cmb.2007.0229

Given a metabolic network in terms of its metabolites and reactions, our goal is to efficiently compute the minimal knock out sets of reactions required to block a given behaviour. We describe an algorithm which improves the computation of these knock out sets when the elementary modes (minimal functional subsystems) of the network are given. We also describe an algorithm which computes both the knock out sets and the elementary modes containing the blocked reactions directly from the description of the network and whose worst-case computational complexity is better than the algorithms currently in use for these problems. Computational results are included.

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