Network analysis of intermediary metabolism using linear optimization. I. Development of mathematical formalism.
TLDR
Analysis of metabolic networks using linear optimization theory allows one to quantify and understand the limitations imposed on the cell by its metabolic stoichiometry, and to understand how the flux through each pathway influences the overall behavior of metabolism.About:
This article is published in Journal of Theoretical Biology.The article was published on 1992-02-21 and is currently open access. It has received 255 citations till now.read more
Citations
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A theory of optimal differential gene expression.
TL;DR: A model of optimal regulation, intended to describe large-scale differential gene expression, is investigated and the results justify the use of expression data for functional annotation and for pathway reconstruction and suggest theUse of linear factor models for the analysis of gene expression data.
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On-line prediction of products concentrations in glutamate fermentation using metabolic network model and linear programming
TL;DR: In this paper, a metabolic network model combined with linear programming optimization was developed to on-line predict glutamate production under different DO levels, with only OUR and CER being online measured.
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Metabolic-flux analysis of hybridoma cells under oxidative and reductive stress using mass balances.
TL;DR: It was found that fluxes of dehydrogenase reactions by which NAD(P)H isproduced decreased under hypoxic conditions, showing that metabolic-flux balancing can be used to determine how mammalian respond to oxidative and reduction stress.
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Modelling Cell Metabolism: A Review on Constraint-Based Steady-State and Kinetic Approaches
TL;DR: This article presents the metabolic modelling approaches that investigate cell metabolism at steady state, complying to the constraints imposed by mass conservation law and thermodynamics of reactions reversibility, and describes dynamic kinetic models that are based on the mathematical representation of the mechanistic description of nonlinear enzyme activities.
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Advanced stoichiometric analysis of metabolic networks of mammalian systems.
TL;DR: Advanced metabolic engineering tools developed for stoichiometric analysis including MFA, FBA, and MPA are described and applications in mammalian cells are discussed in detail, and the challenges and opportunities are highlighted.
References
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Book
Linear and nonlinear programming
David G. Luenberger,Yinyu Ye +1 more
TL;DR: Strodiot and Zentralblatt as discussed by the authors introduced the concept of unconstrained optimization, which is a generalization of linear programming, and showed that it is possible to obtain convergence properties for both standard and accelerated steepest descent methods.
Journal ArticleDOI
The pathways of glutamate and glutamine oxidation by tumor cell mitochondria. Role of mitochondrial NAD(P)+-dependent malic enzyme.
R W Moreadith,A L Lehninger +1 more
TL;DR: Analysis of oxidative pathways of glutamine and glutamate showed that extramitochondrial malate is oxidized almost quantitatively to pyruvate + CO2 by NAD(P)+-linked malic enzyme, present in the mitochondria of all tumors tested, but absent in heart, liver, and kidney mitochondria.