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Inference of analytical thermodynamic models for biological networks

Authors
Publisher
Elsevier BV:PO Box 211, 1000 AE Amsterdam Netherlands:011 31 20 4853757, 011 31 20 4853642, 011 31 20 4853641, EMAIL: [email protected], INTERNET: http://www.elsevier.nl, Fax: 011 31 20 4853598
Publication Date
Disciplines
  • Biology
  • Chemistry
  • Computer Science
  • Medicine
  • Physics

Abstract

We present an automated algorithm for inferring analytical models of closed reactive biochemical mixtures, on the basis of standard approaches borrowed from thermodynamics and kinetic theory of gases. As an input, the method requires a number of steady states (i.e. an equilibria cloud in the phase-space), and at least one time series of measurements for each species. Validations are discussed for both the Michaelis-Menten mechanism (four species, two conservation laws) and the mitogen-activated protein kinase - MAPK - mechanism (eleven species, three conservation laws)

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