Von Bertalanffy 1.0: A COBRA toolbox extension to thermodynamically constrain metabolic models

Bioinformatics

Volumn 27, Issue 1, 2011, Pages 142-143

  Fleming, Ronan M T ^a   Thiele, Ines ^a  

^a UNIVERSITY OF ICELAND   (Iceland)

Author keywords

[No Author keywords available]

Indexed keywords

ALGORITHM; ARTICLE; BIOLOGICAL MODEL; COMPUTER PROGRAM; METABOLISM; THERMODYNAMICS;

ALGORITHMS; METABOLISM; MODELS, BIOLOGICAL; SOFTWARE; THERMODYNAMICS;

EID: 78650541419     PISSN: 13674803     EISSN: 14602059     Source Type: Journal    
DOI: 10.1093/bioinformatics/btq607     Document Type: Article

References (9)

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2. Alberty,R.A. (2006) Biochemical Thermodynamics: Applications of Mathematica. Wiley-Interscience, Hoboken, New Jersey.
3. Becker,S.A. et al. (2007) Quantitative prediction of cellular metabolism with constraintbased models: the COBRA Toolbox. Nat. Protoc., 2, 727-738.
4. Bornstein,B.J. et al. (2008) Libsbml: an api library for sbml. Bioinformatics, 24, 880-881.
5. Feist,A.M. et al. (2007) A genome-scale metabolic reconstruction for Escherichia coli K-12 MG1655 that accounts for 1260 ORFs and thermodynamic information. Mol. Syst. Biol., 3, e121.
6. Fleming,R.M.T. et al. (2009) Quantitative assignment of reaction directionality in constraint-based models of metabolism: application to Escherichia coli. Biophys. Chem., 145, 47-56.
7. Jankowski,M.D. et al. (2008) Group contribution method for thermodynamic analysis of complex metabolic networks. Biophys. J., 95, 1487-1499.
8. Thiele,I. and Palsson,B.Ø. (2010)Aprotocol for generating a high-quality genome-scale metabolic reconstruction. Nat. Protoc., 5, 93-121.
9. von Bertalanffy,L. (1973) General System Theory: Foundations, Development, Applications. G. Braziller, New York.