Affiliations: Grupo de Tecnología Bioquímica, Departamento
de Bioquímica y Biología Molecular, Facultad de Biología,
Universidad de La Laguna, 38206 La Laguna, Tenerife, Islas Canarias,
España | Instituto Universitario de Bioorgánica Antonio
González, Avda. Astfco. Fco. Sánchez, s/n. 38206 La Laguna. Tenerife. Islas
Canarias, España
Abstract: In previous works we have presented and applied a method to predict
the parameter profile that optimizes biochemical systems regarding either a
single or a set of metabolic responses within physiological constraints [Vera
et al., 2003a]. This optimization technique requires a previous model
definition and a translation to S-system form and the use of widely available
linear programming packages. However, in dealing with these issues the
interested researcher has to confront additional difficulties because of a lack
of connectivity among available software packages or routines specifically
designed to perform different tasks. In addition to this difficulty is the
unavailability of any automated package which is capable of performing such
optimizations and the previous required analysis. This situation prompted us to
develop an integrated software package able to deal with these tasks in a
single program environment. In this paper we present a software package for the
model definition, analysis and optimization of a biochemical system. It starts
with a given model definition that is directly translated to its equivalent
S-system form. Once the model quality assessment is performed (stability and
sensitivity analysis) the program determines the parameter profile that yields
the optimized response compatible with a predefined set of constraints.
Moreover the package finds the set of solutions obtained when more than one
system's responses are to be optimized (multiobjective optimization).
Keywords: Integrated Matlab package, bioprocesses, optimisation, linear programming, power-law formalism
