Exposure to a variety of toxins and/or infectious agents leads to disease, degeneration and
death, often characterised by circumstances in which cells or tissues do not merely die and …

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 …

Motivation Kinetic models contain unknown parameters that are estimated by optimizing the
fit to experimental data. This task can be computationally challenging due to the presence of …

Background Kinetic models of biochemical systems usually consist of ordinary differential
equations that have many unknown parameters. Some of these parameters are often …

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

Background Mathematical models provide abstract representations of the information
gained from experimental observations on the structure and function of a particular …

The lactic acid bacteria (LAB) are a functionally related group of low-GC Gram-positive
bacteria known essentially for their roles in bioprocessing of foods and animal feeds. Due to …

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 …