On a systematic procedure for the predetermination of macroscopic reaction schemes

Abstract

Macroscopic modeling of biological cell cultures involves two major steps: (a) the selection of a reaction scheme and (b) the determination of the reaction kinetics. The first step is usually accomplished based on prior knowledge, experimental investigation and trials and errors. This procedure can be time consuming, and more importantly, can lead to the selection of a reaction scheme omitting some important reaction pathways, or at the opposite, incorporating too many details (at least considering the data at hand and the modeling objectives). This paper addresses this modeling problem, and aims at the development of a method for systematically evaluating (i.e. setting up and comparing) all potential reaction schemes, based on a set of measured components, and satisfying structural identifiability properties. One of the main features of the method is that the yield (or pseudo-stoichiometric) coefficients can be estimated independently of the kinetics. The method is illustrated with simulation results and an experimental case study.

A Fast and Systematic Procedure to Develop Dynamic Models of Bioprocesses - Application to Microalgae Cultures

“…A systematic, data-driven approach was suggested by Hulhoven et al (2005) to identify those reaction schemes that satisfy a mathematical property known as C-identifiability. This procedure relies on a state transformation operated via the following partition of the pseudo-stoichiometric matrix:…”

“…The identification approach recommended by Hulhoven et al (2005) ensures model Cidentifiability by systematically screening those matrices a K that have the following specific form:…”

Dynamic Metabolic Modeling for a MAB Bioprocess

“…Significant progress has been achieved toward systematic selection of the reaction scheme. Hulhoven et al (2005) addressed this modeling problem and aimed at the development of a method for systematically evaluating all potential reaction schemes that contain identifiable parameters. Nernard and Bastin (2005) have also summarized the approach of identifying a reaction network, and the authors have applied the approach to a few case studies (Nernard and Bastin, 2005; Provost and Bastin, 2004).…”

Systematic methodology for bioprocess model identification based on generalized kinetic functions

“…Some methods for the objective determination of macroscopic reaction scheme and stoichiometric identification have been developed [2][3][4][5][6][7][8] while the determination of the kinetic structure seems to remain based on arbitrary choices. Indeed, there exists in the literature a profusion of apparently equivalent laws allowing the description of specific kinetic phenomena (e.g.…”