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TitleA software tool for the simulation and optimization of dynamic metabolic models
Author(s)Evangelista, Pedro
Rocha, I.
Ferreira, E. C.
Rocha, Miguel
Issue date2009
PublisherSpringer Verlag
JournalLecture Notes in Computer Science
Abstract(s)In Systems Biology, there is a growing need for simulation and optimization tools for the prediction of the phenotypical behavior of microorganisms. In this paper, an open-source software platform is proposed to provide support for research in Metabolic Engineering, by implementing tools that enable the simulation and optimization of dynamic metabolic models using ordinary differential equations. Its main functionalities are related with (i) phenotype simulation of both wild type and mutant strains under given environmental conditions and (ii) strain optimization tackling tasks such as gene knockout selection or the definition of the optimal level of enzyme expression, given appropriate objective functions. The central carbon metabolism of E. coli was used as a case study, to illustrate the main features of the software.
TypeConference paper
AccessOpen access
Appears in Collections:CEB - Publicações em Revistas/Séries Internacionais / Publications in International Journals/Series

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