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Frontiers in Microbiology, 2017 In this study we have applied an integrated system biology approach to characterize the metabolic landscape of Streptomyces ambofaciens and to identify a list of potential metabolic engineering targets for the overproduction of the secondary metabolites ...
Marco Fondi +12 more
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Metabolic network modeling with model organisms [PDF]
Current Opinion in Chemical Biology, 2017 Flux balance analysis (FBA) with genome-scale metabolic network models (GSMNM) allows systems level predictions of metabolism in a variety of organisms. Different types of predictions with different accuracy levels can be made depending on the applied experimental constraints ranging from measurement of exchange fluxes to the integration of gene ...
Yilmaz, L. Safak, Walhout, Albertha J M
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Analysis of metabolic flux using dynamic labeling and metabolic modeling [PDF]
, 2013 Metabolic fluxes and the capacity to modulate them are a crucial component of the ability of the plant cell to react to environmental perturbations. Our ability to quantify them and to attain information concerning the regulatory mechanisms which control
Fernie, A., Morgan, J.
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Metabolic Modeling of
mSystems, 2019 Streptococcus mutans is a Gram-positive bacterium that thrives under acidic conditions and is a primary cause of tooth decay (dental caries). To better understand the metabolism of S.
Kenan Jijakli, Paul A. Jensen
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Cancer Metabolism: A Modeling Perspective [PDF]
Frontiers in Physiology, 2015 Tumor cells alter their metabolism to maintain unregulated cellular proliferation and survival, but this transformation leaves them reliant on constant supply of nutrients and energy. In addition to the widely studied dysregulated glucose metabolism to fuel tumor cell growth, accumulating evidences suggest that utilization of amino acids and lipids ...
Pouyan eGhaffari Nouran +5 more
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Frontiers in Bioengineering and Biotechnology, 2015 Cyanobacteria are a promising biological chassis for the synthesis of renewable fuels and chemical bulk commodities.Significant efforts have been devoted to improve the yields of cyanobacterial products.
Henning eKnoop, Ralf eSteuer
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, 2019 Metabolic networks are generally better known than other types of cellular networks, and they are therefore well suited for the development of computational models. A range of different techniques can be used to model systems of metabolic reactions, from kinetic methods which seek to represent the exact dynamics of fluxes over time, to constraint-based
Schwartz, Jean Marc, Soons, Zita
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Frontiers in Microbiology, 2018 The abundance of methane in shale gas and of other gases such as carbon monoxide, hydrogen, and carbon dioxide as chemical process byproducts has motivated the use of gas fermentation for bioproduction.
Hadi Nazem-Bokaee, Costas D. Maranas
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Hypergraph Models Of Metabolism [PDF]
, 2014 {"references": ["M. Buchanan, G. Caldarelli, P. De Los Rios, F. Rao, M. Vendruscolo\n(Eds), Networks in Cell Biology, Cambridge University Press, 2010.", "S. Klamt, U. Haus, F. Theis, Hypergraphs and cellular networks, PLoS\nComputational Biology, 5(5) e1000385 (2009).", "P.
Pearcy, N, Crofts, JJ, Chuzhanova, N
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mSystems, 2016 Multiple molecular assays now enable high-throughput profiling of the ecology, metabolic capacity, and activity of the human microbiome. However, to date, analyses of such multi-omic data typically focus on statistical associations, often ignoring ...
Cecilia Noecker +7 more
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