Please use this identifier to cite or link to this item: http://hdl.handle.net/1822/25950

TitleMetaheuristics for strain optimization using transcriptional information enriched metabolic models
Author(s)Vilaça, Paulo
Maia, Paulo
Rocha, I.
Rocha, Miguel
KeywordsMetabolic Engineering
Strain Optimization
Flux-Balance Analysis
Transcriptional Models
Set based representations
Issue date2010
PublisherSpringer Verlag
JournalLecture notes in computer science
Abstract(s)The identification of a set of genetic manipulations that result in a microbial strain with improved production capabilities of a metabolite with industrial interest is a big challenge in Metabolic Engineering. Evolutionary Algorithms and Simulated Annealing have been used in this task to identify sets of reaction deletions, towards the maximization of a desired objective function. To simulate the cell phenotype for each mutant strain, the Flux Balance Analysis approach is used, assuming organisms have maximized their growth along evolution. In this work, transcriptional information is added to the models using gene-reaction rules. The aim is to find the (near-)optimal set of gene knockouts necessary to reach a given productivity goal. The results obtained are compared with the ones reached using the deletion of reactions, showing that we obtain solutions with similar quality levels and number of knockouts, but biologically more feasible. Indeed, we show that several of the previous solutions are not viable using the provided rules.
TypeConference paper
DescriptionPublicado em "Evolutionary computation, machine learning and data mining in bioinformatics : 8th European Conference, EvoBIO 2010...", ISBN 978-3-642-12210-1
URIhttp://hdl.handle.net/1822/25950
ISBN9783642122101
DOI10.1007/978-3-642-12211-8-18
ISSN0302-9743
Peer-Reviewedyes
AccessOpen access
Appears in Collections:CEB - Publicações em Revistas/Séries Internacionais / Publications in International Journals/Series

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