Inference of analytical thermodynamic models for biological networks

Eliodoro Chiavazzo, Matteo Fasano and Pietro Asinari

Physica A: Statistical Mechanics and its Applications, 2013, vol. 392, issue 5, 1122-1132

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 input, the method requires a number of steady states (i.e. an equilibria cloud in 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).

Keywords: Kinetic theory; Non-equilibrium thermodynamics; Dynamical systems (search for similar items in EconPapers)
Date: 2013
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Citations: View citations in EconPapers (3)

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Persistent link: https://EconPapers.repec.org/RePEc:eee:phsmap:v:392:y:2013:i:5:p:1122-1132

DOI: 10.1016/j.physa.2012.11.030

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