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Analysis of Metabolic Pathway Using Hybrid Properties
Protein & Peptide Letters, 2012Given a compounds-forming system, i.e., a system consisting of some compounds and their relationship, can it form a biologically meaningful pathway? It is a fundamental problem in systems biology. Nowadays, a lot of information on different organisms, at both genetic and metabolic levels, has been collected and stored in some specific databases.
Lei, Chen +3 more
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2012
Elementary mode analysis is a useful metabolic pathway analysis tool to characterize cellular metabolism. It can identify all feasible metabolic pathways known as elementary modes that are inherent to a metabolic network. Each elementary mode contains a minimal and unique set of enzymatic reactions that can support cellular functions at steady state ...
Cong T, Trinh, R Adam, Thompson
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Elementary mode analysis is a useful metabolic pathway analysis tool to characterize cellular metabolism. It can identify all feasible metabolic pathways known as elementary modes that are inherent to a metabolic network. Each elementary mode contains a minimal and unique set of enzymatic reactions that can support cellular functions at steady state ...
Cong T, Trinh, R Adam, Thompson
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Two approaches for metabolic pathway analysis?
Trends in Biotechnology, 2003Metabolic pathway analysis is becoming increasingly important for assessing inherent network properties in (reconstructed) biochemical reaction networks. Of the two most promising concepts for pathway analysis, one relies on elementary flux modes and the other on extreme pathways. These concepts are closely related because extreme pathways are a subset
Klamt, S. ; https://orcid.org/0000-0003-2563-7561 +1 more
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Modelling and analysis of metabolic pathways
Current Opinion in Biotechnology, 1993Modelling and analysis of metabolic pathways has received an increasing amount of attention over the past few years. Progress has been made in many aspects such as the identification of rate-controlling steps, applications of optimization principles, and stoichiometric analyses. In addition, the scope of modelling has also expanded.
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Stable Isotope Tracers for Metabolic Pathway Analysis
2019Stable isotope tracing allows a metabolic substrate to be followed through downstream biochemical reactions, thereby providing unparalleled insights into the metabolic wiring of cells. This approach stops short of modeling absolute fluxes but is relatively straightforward and has become increasingly accessible due to the widespread adoption of high ...
Sara, Violante +3 more
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Green pathways: Metabolic network analysis of plant systems
Metabolic Engineering, 2016Metabolic engineering of plants with enhanced crop yield and value-added compositional traits is particularly challenging as they probably exhibit the highest metabolic network complexity of all living organisms. Therefore, approaches of plant metabolic network analysis, which can provide systems-level understanding of plant physiology, appear valuable
Lisa Maria Dersch +2 more
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Metabolic pathway analysis using a nash equilibrium approach
Journal of Global Optimization, 2018zbMATH Open Web Interface contents unavailable due to conflicting licenses.
Lucia, Angelo +2 more
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Analysis of the pathway structure of metabolic networks
Journal of Biotechnology, 1999Metabolic networks comprise a multitude of enzymatic reactions carrying out various functions related to cell growth and product formation. Although such reactions are occasionally organized into biochemical pathways, a formal procedure is desired to identify the independent pathways in a bioreaction network and the degree of engagement of each ...
T W, Simpson +2 more
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Treatment of multifunctional enzymes in metabolic pathway analysis
Biophysical Chemistry, 2002In metabolic pathway analysis, it should be considered that many enzymes operate with low specificity (e.g. nucleoside diphosphokinase, uridine kinase, transketolase, aldolase), so that various substrates and products can be converted. Here, we analyze the effect of enzymes with low substrate specificity on the elementary flux modes (pathways). We also
Stefan, Schuster, Ionela, Zevedei-Oancea
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