The interplay of mathematical modelling with experiments is one of the central elements in
systems biology. The aim of reverse engineering is to infer, analyse and understand …

Analysing the properties of a biological system through in silico experimentation requires a
satisfactory mathematical representation of the system including accurate values of the …

Highlights•Mechanistic models describe cellular metabolism and behavior in response to
cell culture.•Stoichiometric and kinetic models are widely used in mechanistic …

Motivation: Many problems of interest in dynamic modeling and control of biological systems
can be posed as non-linear optimization problems subject to algebraic and dynamic …

In contrast to stoichiometric-based models, the development of large-scale kinetic models of
metabolism has been hindered by the challenge of identifying kinetic parameter values and …

Ordinary differential equation models are nowadays widely used for the mechanistic
description of biological processes and their temporal evolution. These models typically …

Background Dynamic modelling provides a systematic framework to understand function in
biological systems. Parameter estimation in nonlinear dynamic models remains a very …

Background Optimization is the key to solving many problems in computational biology.
Global optimization methods, which provide a robust methodology, and metaheuristics in …

Motivation The theoretical possibility of determining the state and parameters of a dynamic
model by measuring its outputs is given by its structural identifiability and its observability …

We propose a synergistic approach to meta-heuristic search optimization algorithm. The fine
balance between intensification (exploitation) and diversification (exploration) is very …