ArticleAlgorithms for molecular biology : AMB2015
Double and multiple knockout simulations for genome-scale metabolic network reconstructions.
Article in Algorithms for molecular biology : AMB, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.
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4 citing papers in PubMed.
- From Genome to Function: Metabolism-Wide Models of Lifecycle Stages of Parasites.Methods in molecular biology (Clifton, N.J.) · 2026Article
- Strategy for Optimizing Vitamin B12 Production inMetabolites · 2024Article
- Systems approaches in osteoarthritis: Identifying routes to novel diagnostic and therapeutic strategies.Journal of orthopaedic research : official publication of the Orthopaedic Research Society · 2017Article
- A mixed-integer linear programming approach to the reduction of genome-scale metabolic networks.BMC bioinformatics · 2017Article
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2 authors.
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Abstract
backgroundConstraint-based modeling of genome-scale metabolic network reconstructions has become a widely used approach in computational biology. Flux coupling analysis is a constraint-based method that analyses the impact of single reaction knockouts on other reactions in the network.
resultsWe present an extension of flux coupling analysis for double and multiple gene or reaction knockouts, and develop corresponding algorithms for an in silico simulation. To evaluate our method, we perform a full single and double knockout analysis on a selection of genome-scale metabolic network reconstructions and compare the results. SOFTWARE: A prototype implementation of double knockout simulation is available at http://hoverboard.io/L4FC.
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