Gene regulatory networks have an important role in every process of life, including cell
differentiation, metabolism, the cell cycle and signal transduction. By understanding the …

Cross-feeding, the exchange of nutrients between organisms, is ubiquitous in microbial
communities. Despite its importance in natural and engineered microbial systems, our …

Stochastic modeling techniques have emerged as a powerful tool to study the time evolution
of processes in many research fields including (bio) chemical engineering and biology. One …

Monte Carlo methods are heuristic algorithms that use probabilities to select an outcome
among several possible events in a given process. Monte Carlo methods are useful in …

Computer simulations have become an invaluable tool to study the sometimes
counterintuitive temporal dynamics of (bio-) chemical systems. In particular, stochastic …

Many protein and mRNA species occur at low molecular counts within cells, and hence are
subject to large stochastic fluctuations in copy numbers over time. Development of …

Biochemical networks are used in computational biology, to model mechanistic details of
systems involved in cell signaling, metabolism, and regulation of gene expression …

A tumour grows when the total division (birth) rate of its cells exceeds their total mortality
(death) rate. The capability for uncontrolled growth within the host tissue is acquired via the …

Background Stochastic simulation of gene networks by Markov processes has important
applications in molecular biology. The complexity of exact simulation algorithms scales with …

The dynamics of molecular systems is an essential tool of systems biology. It helps figuring
out what is the effect of the perturbation of a system, or what is the best dose for a drug or …