Abstract Systems biology has experienced dramatic growth in the number, size, and
complexity of computational models. To reproduce simulation results and reuse models …

Background The increasing use of computational simulation experiments to inform modern
biological research creates new challenges to annotate, archive, share and reproduce such …

Kinetic models of cellular metabolism are important tools for the rational design of metabolic
engineering strategies and to explain properties of complex biological systems. The recent …

Background Systems biology projects and omics technologies have led to a growing
number of biochemical pathway models and reconstructions. However, the majority of these …

We present an experimental and computational pipeline for the generation of kinetic models
of metabolism, and demonstrate its application to glycolysis in Saccharomyces cerevisiae …

The quantitative effects of environmental and genetic perturbations on metabolism can be
studied in silico using kinetic models. We present a strategy for large-scale model …

STRENDA DB, freely available at http://www. strenda-db. org, is an online validation and
storage system for functional enzyme data that aims at being integrated into the publication …

The enzymes in the Embden–Meyerhof–Parnas pathway of Plasmodium falciparum
trophozoites were kinetically characterized and their integrated activities analyzed in a …

Ordinary differential equations (ODEs) are a system of equations used to describe changes
of quantity or concentration of different species with respect to time. The mathematical …

Background Mathematical modelling has become a standard technique to improve our
understanding of complex biological systems. As models become larger and more complex …