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In S system models, all the input rates producing an increasing in the concentration of a reactant are aggregated and expanded as a unique power law term. In a similar ...
Advantages and disadvantages of aggregating fluxes into synthetic and degradative fluxes when modelling metabolic pathways (1999) P. De Atauri, R. Curto, J. Puigjaner ...
Power Law Models of Signal Transduction Pathways. J. Vera, E. Balsa Canto, P. Wellstead, J.R. Banga, O. Wolkenhauer (2007) doi: 10.1016/j.cellsig.2007.01.029 The ...
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Development of fractal kinetic theory for enzyme catalysed reactions and implications for the design of biochemical pathways . Savageau MA. 1998 Recent evidence has ...
Design principles for elementary gene circuits: Elements, methods, and examples Savageau MA. 2001 The control of gene expression involves complex circuits that ...
Development of genetic circuitry exhibiting toggle switch or oscillatory behavior in Escherichia coli. Atkinson MR, Savageau MA, Myers JT, Ninfa AJ. 2003 Analysis ...
To see an interesting case in which some log gains have high values, and this relates to structural properties of the system, see: Integrated nonlinear optimization ...
Dynamic modeling of genetic networks using genetic algorithm and S system . S.Kikuchi, D. Tominaga, M. Arita, K. Takahashi and M. Tomita (2003) Bioinformatics 19 ...
Extending the method of mathematically controlled comparison to include numerical comparisons Alves R, Savageau MA. 2000 The method of mathematically controlled ...
Models of data and models of processes in the post genomic era . Voit, E.O. 2002. As we are entering the post genomic era, models of data, such as mining and filtering ...
Multicriteria Optimization Of Biochemical Systems By Linear Programming. Application To The Ethanol Production By Saccharomyces Cerevisiae Vera, J., De Atauri, P ...
Use of physiological constraints to identify quantitative design principles for gene expression in yeast adaptation to heat shock Vilaprinyo E, Alves R, Sorribas ...
Basic analytical tools for power law models Logarithmic Gains The logarithmic gains (log gains) predict and measure the influence that changes in the value of independent ...
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What are power law models? Power law models are a special kind of mathematical models in ordinary differential equations used mainly for biochemical systems. In this ...
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Ten misundertandings about power law models 1. The power law models were formulated for a metabolic systems and they are not valid for other biochemical systems. ...
A Map about power law models in biochemical systems The following figure shows how the different power law models can be derived from the very general equation that ...
Sorry. Section under construction! JulioVera 09 May 2007
Parameter estimation Parameter estimation based on preexisting mathematical models In metabolic systems in which a previous Michaelis Menten type model is available ...
A five steps plan to obtain a power law model In the next lines we illustrate the main steps necessary to obtain a power law model of a biochemical system. We will ...
Basic Properties of Power Law models The simplicity of the structure of power law models provokes some very interesting properties. The most interesting of them are ...
Pros and Cons of different ODE modelling frameworks In Systems Biology, there is no a perfect mathematical modelling framework perfectly fulfilling all the desirable ...
Some books about power law models Biochemical systems analysis: a study of function and design in molecular biology (Savageau, M. A., 1976. Reading, MA, Addison ...
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Homogeneity of equations: an essential key property of power law models The power law equations have an invariant structure that does not depend on the nature of ...
Software for power law models PLMaddon (2006) BSTlab (2003) MetMAP (2003) PLAS (1996 2000)
Model selection and inference: a practical information theoretic approach (1998) Burnham, K.P., and Anderson, D.R. Springer Verlag, New York Book Description: This ...
Power law modeling based on least squares criteria: consequences for system analysis and simulation . Hernandez Bermejo, B., Fairen, V. and Sorribas, A. (2000) Math ...
Critique of the Enzymologist's test tube (1992) M. Savageau. In E.E. Bittar (ed.) . Fundamentals of Medical Cell Biology Vol 3.A:45 108. JAI Press, Greenwich.
Reaction kinetics in intracellular environments with macromolecular crowding: simulations and rate laws (2004) S. Schnell and T. Turner. Prog. Biophys. Mol. Biol ...
Parameter estimation using Simulated Annealing for S system models of biochemical networks (Orland R. Gonzalez, Christoph Küper, Kirsten Jung, Prospero C. Naval Jr ...
Simulation and validation of modelled sphingolipid metabolism in Saccharomyces cerevisiae . Alvarez Vasquez F, Sims KJ, Cowart LA, Okamoto Y, Voit EO, Hannun YA. ...
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Very basic topics on power law models What are power law models? Homogeneity of equations: an essential key property of power law models A Map about ...
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