2004
DOI: 10.1111/j.1432-1033.2004.04213.x
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The principle of flux minimization and its application to estimate stationary fluxes in metabolic networks

Abstract: Cellular functions are ultimately linked to metabolic fluxes brought about by thousands of chemical reactions and transport processes. The synthesis of the underlying enzymes and membrane transporters causes the cell a certain ÔeffortÕ of energy and external resources. Considering that those cells should have had a selection advantage during natural evolution that enabled them to fulfil vital functions (such as growth, defence against toxic compounds, repair of DNA alterations, etc.) with minimal effort, one m… Show more

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Cited by 272 publications
(299 citation statements)
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References 30 publications
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“…The silicon cell-JWS Online approach [30,38], inspired by the erythrocyte glycolysis model of the Berlin group (for a recent version see [22], which is available on JWS; JWS stands for JJava Web Simulation), accepts this complexity and integrates the differential equations numerically. In addition in some cases allosteric effectors may be active in vivo, or enzymes may be modified covalently, which may not have been taken into account in the in vitro assays, causing a difference between the situation in vitro and that in vivo.…”
Section: Integration Of the Precise Rate Equations; Silicon Cell And mentioning
confidence: 99%
“…The silicon cell-JWS Online approach [30,38], inspired by the erythrocyte glycolysis model of the Berlin group (for a recent version see [22], which is available on JWS; JWS stands for JJava Web Simulation), accepts this complexity and integrates the differential equations numerically. In addition in some cases allosteric effectors may be active in vivo, or enzymes may be modified covalently, which may not have been taken into account in the in vitro assays, causing a difference between the situation in vitro and that in vivo.…”
Section: Integration Of the Precise Rate Equations; Silicon Cell And mentioning
confidence: 99%
“…While as yet a large-scale detailed experimental quantification of the change in free energy is not available, a number of algorithms exists that allow for a reasonable computational approximation [38 -42]. In the case study presented here, the values assigned to the equilibrium constants are obtained from Holzhü tter [43]. 2 , the sampling is performed using a logarithmic distribution.…”
Section: Defining the Kinetic Parametersmentioning
confidence: 99%
“…As to the best of our knowledge no detailed characterization of a cancer metabolic phenotype (in terms of fluxes and metabolite concentrations) exists, we employ a modelling approach to obtain a set of fluxes and concentrations representative of a generic cancer phenotype. Our starting point consists of a fully defined metabolic map of human erythrocyte metabolism [43], modified for our purpose (figure 2). Two different sets of maximal activities (V max ) are used to reproduce the flux patterns characteristic of a normal cell and a paradigmatic cancer cell.…”
Section: Defining the Diseased Phenotypementioning
confidence: 99%
“…A steady inward flow of energy is the most stable state that an open system can achieve. Furthermore, the last ten years of 20 th century were marked by the application of thermodynamics to research of functional (such as erythrocytes) and reproducible (such as Methylobacterium extorquens) cell growth (Holzhütter, 2004). In higher plants, the functional and reproducible parts in seed are connected by the irreversible transfer of hydrolysed monomers from an endosperm (functional) to an embryo (reproducible).…”
Section: Introductionmentioning
confidence: 99%