Behaviours of complex biomolecular systems are often irreducible to the elementary
properties of their individual components. Explanatory and predictive mathematical models …

Understanding complex biological systems requires extensive support from software tools.
Such tools are needed at each step of a systems biology computational workflow, which …

© 2020, University of Surrey. All rights reserved. The Overview, Design concepts and Details
(ODD) protocol for describing Individual-and Agent-Based Models (ABMs) is now widely …

Chaste—C ancer, H eart A nd S oft T issue E nvironment—is an open source C++ library for
the computational simulation of mathematical models developed for physiology and biology …

This advanced textbook is tailored for an introductory course in Systems Biology and is well-
suited for biologists as well as engineers and computer scientists. It comes with student …

This study develops a standardised checklist approach to improve the reporting of discrete-
event simulation, system dynamics and agent-based simulation models within the field of …

Reproducibility of research is critical for the healthy growth and accumulation of reliable
knowledge, and simulation-based research is no exception. However, studies show many …

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

Background With the ever increasing use of computational models in the biosciences, the
need to share models and reproduce the results of published studies efficiently and easily is …

Background Qualitative frameworks, especially those based on the logical discrete
formalism, are increasingly used to model regulatory and signalling networks. A major …