Background: Constraint-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.
Results: We 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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| http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4302510 | PMC |
| http://dx.doi.org/10.1186/s13015-014-0028-y | DOI Listing |
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