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Bringing metabolic networks to life: convenience rate law and thermodynamic constraints.

Liebermeister W, Klipp E.

Theor Biol Med Model. 2006 Dec 15;3:41.PMID: 17173669 [PubMed - indexed for MEDLINE]Related articlesFree article

Bringing metabolic networks to life: integration of kinetic, metabolic, and proteomic data.

Liebermeister W, Klipp E.

Theor Biol Med Model. 2006 Dec 15;3:42.PMID: 17173670 [PubMed - indexed for MEDLINE]Related articlesFree article

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

Dräger A, Kronfeld M, Ziller MJ, Supper J, Planatscher H, Magnus JB, Oldiges M, Kohlbacher O, Zell A.

BMC Syst Biol. 2009 Jan 14;3:5.PMID: 19144170 [PubMed - indexed for MEDLINE]Related articlesFree article

Enzymatic reaction rate limits with constraints on equilibrium constants and experimental parameters.

Bish DR, Mavrovouniotis ML.

Biosystems. 1998 Jun-Jul;47(1-2):37-60.PMID: 9715750 [PubMed - indexed for MEDLINE]Related articles

Biochemical thermodynamics: applications of Mathematica.

Alberty RA.

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An investigation of the relationships between rate and driving force in simple uncatalysed and enzyme-catalysed reactions with applications of the findings to chemiosmotic reactions.

Stoner CD.

Biochem J. 1992 Apr 15;283 ( Pt 2):541-52.PMID: 1533514 [PubMed - indexed for MEDLINE]Related articlesFree article

Extraction of elementary rate constants from global network analysis of E. coli central metabolism.

Zhao J, Ridgway D, Broderick G, Kovalenko A, Ellison M.

BMC Syst Biol. 2008 May 7;2:41.PMID: 18462493 [PubMed - indexed for MEDLINE]Related articlesFree article

Thermodynamics of stoichiometric biochemical networks in living systems far from equilibrium.

Qian H, Beard DA.

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Hybrid dynamic modeling of E. coli central metabolic network combining Michaelis-Menten and approximate kinetic equations.

Costa RS, Machado D, Rocha I, Ferreira EC.

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Calculation of standard transformed Gibbs energies and standard transformed enthalpies of biochemical reactants.

Alberty RA.

Arch Biochem Biophys. 1998 May 1;353(1):116-30.PMID: 9578607 [PubMed - indexed for MEDLINE]Related articles

Integration of enzyme kinetic data from various sources.

Borger S, Uhlendorf J, Helbig A, Liebermeister W.

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Prediction of enzyme kinetic parameters based on statistical learning.

Borger S, Liebermeister W, Klipp E.

Genome Inform. 2006;17(1):80-7.PMID: 17503358 [PubMed - indexed for MEDLINE]Related articles

Systematic assignment of thermodynamic constraints in metabolic network models.

Kümmel A, Panke S, Heinemann M.

BMC Bioinformatics. 2006 Nov 23;7:512.PMID: 17123434 [PubMed - indexed for MEDLINE]Related articlesFree article

Evolutionary optimization of enzyme kinetic parameters; effect of constraints.

Klipp E, Heinrich R.

J Theor Biol. 1994 Dec 7;171(3):309-23.PMID: 7869733 [PubMed - indexed for MEDLINE]Related articles

Mathematical modelling of dynamics and control in metabolic networks. I. On Michaelis-Menten kinetics.

Palsson BO, Lightfoot EN.

J Theor Biol. 1984 Nov 21;111(2):273-302.PMID: 6513572 [PubMed - indexed for MEDLINE]Related articles

SBMLsqueezer: a CellDesigner plug-in to generate kinetic rate equations for biochemical networks.

Dräger A, Hassis N, Supper J, Schröder A, Zell A.

BMC Syst Biol. 2008 Apr 30;2:39.PMID: 18447902 [PubMed - indexed for MEDLINE]Related articlesFree article

Kinetic constraints for formation of steady states in biochemical networks.

Liu J.

Biophys J. 2005 May;88(5):3212-23. Epub 2005 Feb 24.PMID: 15731381 [PubMed - indexed for MEDLINE]Related articlesFree article

Kinetic parameters of enzymatic reactions in states of maximal activity; an evolutionary approach.

Heinrich R, Hoffmann E.

J Theor Biol. 1991 Jul 21;151(2):249-83.PMID: 1943142 [PubMed - indexed for MEDLINE]Related articles

Thermodynamically feasible kinetic models of reaction networks.

Ederer M, Gilles ED.

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qPIPSA: relating enzymatic kinetic parameters and interaction fields.

Gabdoulline RR, Stein M, Wade RC.

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