Conservation of high-flux backbone in alternate optimal and near-optimal flux distributions of metabolic networks
نویسندگان
چکیده
منابع مشابه
Optimal flux patterns in cellular metabolic networks.
The availability of whole-cell-level metabolic networks of high quality has made it possible to develop a predictive understanding of bacterial metabolism. Using the optimization framework of flux balance analysis, I investigate the metabolic response and activity patterns to variations in the availability of nutrient and chemical factors such as oxygen and ammonia by simulating 30,000 random c...
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In simple organisms like E.coli, the metabolic response to an external perturbation passes through a transient phase in which the activation of a number of latent pathways can guarantee survival at the expenses of growth. Growth is gradually recovered as the organism adapts to the new condition. This adaptation can be modeled as a process of repeated metabolic adjustments obtained through the r...
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We study a statistical model describing the steady-state distribution of the fluxes in a metabolic network. The resulting model defined on continuous variables can be solved by the cavity method. In particular, analytical tractability is possible, solving the cavity equation over an ensemble of networks with the same degree distribution as a real metabolic network. The flux distribution that op...
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Metabolic networks are among the most widely studied biological systems. The topology and interconnections of metabolic reactions have been well described for many species. This is, however, not sufficient to understand how their activity is regulated in living organisms. These descriptions depict a static set of possible chains of reactions, with no information about the dynamic activity of re...
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MOTIVATION The analysis of structure, pathways and flux distributions in metabolic networks has become an important approach for understanding the functionality of metabolic systems. The need of a user-friendly platform for stoichiometric modeling of metabolic networks in silico is evident. RESULTS The FluxAnalyzer is a package for MATLAB and facilitates integrated pathway and flux analysis f...
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ژورنال
عنوان ژورنال: Systems and Synthetic Biology
سال: 2008
ISSN: 1872-5325,1872-5333
DOI: 10.1007/s11693-009-9025-8