Metabolic networks
(Im) Perfect robustness and adaptation of metabolic networks subject to metabolic and gene-expression regulation: marrying control engineering with metabolic control analysis
... termed metabolic (or enzymatic) ...genome-scale metabolic networks in micro- organisms integrating metabolic and gene-expression regulation ...representative metabolic regulatory ...
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A statistical mechanics description of environmental variability in metabolic networks
... biochemical metabolic reactions within a living cell form a network of chemical transformations known as a metabolic network ...[1,2]. Metabolic networks share many interesting features with ...
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Thermodynamic analysis of regulation in metabolic networks using constraint based modeling
... genome-scale metabolic model for a rigorous study of the entire metabolic network of ...to metabolic reactions to be transcription- ally ...in metabolic networks, as a key step for ...
7
Evolution under fluctuating environments explains observed robustness in metabolic networks
... in metabolic networks ...of metabolic networks under selection for converting environmentally available metabolites into ...initial networks composed of unspecific enzymes, which ...
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Metabolic networks in a porcine model of trauma and hemorrhagic shock demonstrate different control mechanism with carbohydrate pre-feed
... common metabolic output that results from trauma, hemorrhagic shock, and resuscitation was observed in regulatory metabolic ...the metabolic response to trauma depending upon feeding ...
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Enumeration of minimal stoichiometric precursor sets in metabolic networks
... the metabolic graph from the target compounds to the seeds while Handorf et ...in metabolic networks ...small networks due to a high memory requirement; subsequently, Acuña et ...of ...
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Transient exposure to low levels of insecticide affects metabolic networks of honeybee larvae
... The survival of a species depends on its capacity to adjust to changing environmental conditions, and new stressors. Such new, anthropogenic stressors include the neonicotinoid class of crop-protecting agents, which have ...
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Identification of conserved moieties in metabolic networks by graph theoretical analysis of atom transition networks
... of metabolic networks and facilitates metabolic ...in metabolic networks by graph theoretical analysis of their underlying atom transition ...a metabolic network with more than ...
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Visualizing regulatory interactions in metabolic networks
... All of these methods are well established and imple- mented in various software tools for network-based visu- alization [5-11]. However, there is still one important type of information missing that is very helpful for ...
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Diet shifts provoke complex and variable changes in the metabolic networks of the ruminal microbiome
... microbial metabolic networks of the animals that experienced ...had networks that were simpler and closer to the host network, these eight animals were quite distinct from one another in their node ...
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Metabolic networks of microbial systems
... Scale-free networks also demonstrate unexpected robustness against random ...of metabolic networks, as opposed to non-biological scale-free networks, is the ap- parent conservation of the ...
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Microbial Metabolic Networks at the Mucus Layer Lead to Diet Independent Butyrate and Vitamin B12 Production by Intestinal Symbionts
... Dietary intervention studies (13), in vitro mucosal model studies (20), and microbiota comparisons of gut lumen and epithelial biopsy specimens (11) have revealed strong cooccurrence of specific mucolytic bacteria (A. ...
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Common metabolic networks contribute to carbon sink strength of sorghum internodes: implications for bioenergy improvement
... primary metabolic pathways, and (2) the sucrose signal, trehalose-6-phos- phate (T6P), may be involved in stem sugar accumula- ...sucrose-related metabolic pathways and also characterized the sugar ...
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Bringing metabolic networks to life: convenience rate law and thermodynamic constraints
... x*. The vector can contain multiple values for a parame- ter, it can contain thermodynamically dependent parame- ters, and of course, many parameters from the model will be missing. We try to determine a vector θ of ...
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<p>Commensal Microbiota Regulation of Metabolic Networks During Olfactory Dysfunction in Mice</p>
... metabolites, which were identi fi ed in at least 80% of all samples in each group, were characterized. From the PCA score plots (R2X = 0.685, Figure 2A), the SPF samples were clustered tightly, suggesting the detection of ...
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Microrna regulation of bovine monocyte inflammatory and metabolic networks in an in Vivo infection model
... This metabolic switch has recently been investigated using a combined metabolomics and microarray approach (Tannahill et ...Another metabolic pathway that is signif- icantly transcriptionally repressed in ...
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The self inhibitory nature of metabolic networks and its alleviation through compartmentalization
... Metabolite–enzyme inhibition is required to regulate enzyme function. Our data indicate however that it is not necessarily evolved for this purpose, and that only a fraction of metabolite– enzyme interactions are indeed ...
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Genetic dissection of the polyoxin building block-carbamoylpolyoxamic acid biosynthesis revealing the “pathway redundancy” in metabolic networks
... As proposed in previous studies, CPOAA is formed by first transfer of an N-acetyl group to L-glutamate by PolN to form N-acetyl-L-glutamate, followed by phos- phorylation to form N-acetyl-L-glutamate phosphate by PolP ...
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Bringing metabolic networks to life: integration of kinetic, metabolic, and proteomic data
... thermodynamic, metabolic, and proteomic data. The structure of the metabolic system ...integrating metabolic fluxes, concentrations, and enzyme concentrations for one or more steady ...of ...
11
Biomass from microalgae: the potential of domestication towards sustainable biofactories
... Interest in bulk biomass from microalgae, for the extraction of high-value nutraceuticals, bio-products, animal feed and as a source of renewable fuels, is high. Advantages of microalgal vs. plant biomass production ...
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