Literature DB >> 18634077

Effects of spatiotemporal variations on metabolic control: approximate analysis using (log)linear kinetic models.

V Hatzimanikatis1, J E Bailey.   

Abstract

For many metabolic systems, available experimental data allow description of the system by elasticities and control coefficients. The availability of information of this kind motivated the development of a (log)linear kinetic model of metabolic systems that is completely and explicitly determined by this information. It is shown here that this model can accurately describe the dynamic responses of metabolic systems that exhibit strong nonlinearities. Based on the excellent approximation provided by the (log)linear model, a method is developed for the estimation of the performance of metabolic systems subject to spatiotemporal variations of the system parameters and the process operating conditions. The method suggests experiments that can quantify the effect of these variations. Study of a model glycolytic pathway illustrates the applicability and the usefulness of this framework. Time-average flux control coefficients are shown to vary strongly and not monotonically as the period of the external variations changes.

Year:  1997        PMID: 18634077     DOI: 10.1002/(SICI)1097-0290(19970420)54:2<91::AID-BIT1>3.0.CO;2-Q

Source DB:  PubMed          Journal:  Biotechnol Bioeng        ISSN: 0006-3592            Impact factor:   4.530


  14 in total

1.  Metabolic control analysis under uncertainty: framework development and case studies.

Authors:  Liqing Wang; Inanç Birol; Vassily Hatzimanikatis
Journal:  Biophys J       Date:  2004-10-01       Impact factor: 4.033

Review 2.  Subcellular metabolic organization in the context of dynamic energy budget and biochemical systems theories.

Authors:  S Vinga; A R Neves; H Santos; B W Brandt; S A L M Kooijman
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2010-11-12       Impact factor: 6.237

3.  Simplified modelling of metabolic pathways for flux prediction and optimization: lessons from an in vitro reconstruction of the upper part of glycolysis.

Authors:  Julie B Fiévet; Christine Dillmann; Gilles Curien; Dominique de Vienne
Journal:  Biochem J       Date:  2006-06-01       Impact factor: 3.857

4.  On the identifiability of metabolic network models.

Authors:  Sara Berthoumieux; Matteo Brilli; Daniel Kahn; Hidde de Jong; Eugenio Cinquemani
Journal:  J Math Biol       Date:  2012-11-15       Impact factor: 2.259

5.  KinMod database: a tool for investigating metabolic regulation.

Authors:  Kiandokht Haddadi; Rana Ahmed Barghout; Radhakrishnan Mahadevan
Journal:  Database (Oxford)       Date:  2022-10-12       Impact factor: 4.462

6.  Non-linearity of Metabolic Pathways Critically Influences the Choice of Machine Learning Model.

Authors:  Ophélie Lo-Thong-Viramoutou; Philippe Charton; Xavier F Cadet; Brigitte Grondin-Perez; Emma Saavedra; Cédric Damour; Frédéric Cadet
Journal:  Front Artif Intell       Date:  2022-06-10

7.  Identification of metabolic network models from incomplete high-throughput datasets.

Authors:  Sara Berthoumieux; Matteo Brilli; Hidde de Jong; Daniel Kahn; Eugenio Cinquemani
Journal:  Bioinformatics       Date:  2011-07-01       Impact factor: 6.937

8.  Optimizing metabolite production using periodic oscillations.

Authors:  Steven W Sowa; Michael Baldea; Lydia M Contreras
Journal:  PLoS Comput Biol       Date:  2014-06-05       Impact factor: 4.475

9.  Modeling metabolic networks in C. glutamicum: a comparison of rate laws in combination with various parameter optimization strategies.

Authors:  Andreas Dräger; Marcel Kronfeld; Michael J Ziller; Jochen Supper; Hannes Planatscher; Jørgen B Magnus; Marco Oldiges; Oliver Kohlbacher; Andreas Zell
Journal:  BMC Syst Biol       Date:  2009-01-14

10.  Integrating systemic and molecular levels to infer key drivers sustaining metabolic adaptations.

Authors:  Pedro de Atauri; Míriam Tarrado-Castellarnau; Josep Tarragó-Celada; Carles Foguet; Effrosyni Karakitsou; Josep Joan Centelles; Marta Cascante
Journal:  PLoS Comput Biol       Date:  2021-07-23       Impact factor: 4.475

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.