Network analysis of intermediary metabolism using linear optimization. I. Development of mathematical formalism.
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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
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BookDOI
Animal Cell Biotechnology
TL;DR: In this article, animal cell biotechnology, Animal Cell-Cell Biotechnology (ABCB), Animal Cell Biotechnology, and Animal Cell Biotargeting (ACB) were discussed.
Journal ArticleDOI
Uncovering metabolic objectives pursued by changes of enzyme levels.
TL;DR: The approach rests on the assumption that size and direction of fluxes (flux distribution) in the network are determined by an optimization principle in that the production of the physiologically relevant output metabolites is accomplished with minimal total flux.
Journal ArticleDOI
Power Failure of Mitochondria and Oxidative Stress in Neurodegeneration and Its Computational Models.
JunHyuk Woo,Hyesun Cho,YunHee Seol,Soon Ho Kim,Chanhyeok Park,Ali Yousefian-Jazi,Seung Jae Hyeon,Junghee Lee,Hoon Ryu,Hoon Ryu +9 more
TL;DR: In this article, a mini-review focuses on how mitochondrial dysfunction and oxidative stress are associated with the pathogenesis of neurodegenerative disorders including Alzheimer's disease, amyotrophic lateral sclerosis, Huntington's disease and Parkinson's disease.
Posted Content
Mass conserved elementary kinetics is sufficient for the existence of a non-equilibrium steady state concentration
Ronan M. T. Fleming,Ines Thiele +1 more
TL;DR: In this article, a general formulation to force an arbitrary large kinetic model in a manner that is still consistent with the existence of a non-equilibrium steady state was provided, assuming only two conditions; that every reaction is mass balanced and that continuous kinetic reaction rate laws never lead to a negative molecule concentration.
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Systematic evaluation of parameters for genome-scale metabolic models of cultured mammalian cells.
TL;DR: This work enumerated model parameters that describe key features of cultured mammalian cells - including cellular composition, bioprocess performance metrics, mammalian-specific pathways, and biological assumptions behind model formulation approaches, and found the following considerations to be most critical for accurate parameterization.
References
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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.
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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.