We give a description of a Petri net-based framework for modelling and analysing
biochemical pathways, which unifies the qualitative, stochastic and continuous paradigms …

Translational medicine describes a bench‐to‐bedside approach that eventually converts
findings from basic scientific studies into real‐world clinical research. It encompasses new …

Charlie is an extensible thread-based Java tool for analysing Petri nets. Its built-in
functionalities apply standard analysis techniques of Petri net theory (eg invariants …

What is the background of this tutorial? During the last decade the integrative research area
of systems biology has been constantly gaining more importance. Experimental and …

Petri Nets in Snoopy: A Unifying Framework for the Graphical Display, Computational
Modelling, and Simulation of Bacterial Regulatory Networks | SpringerLink Skip to main content …

Abstract Tissue Engineering (TE) and Regenerative Medicine (RM) aim to replicate and
replace tissues for curing disease. However, full tissue integration and homeostasis are still …

Many models in Systems Biology are described as a system of Ordinary Differential
Equations, which allows for transient, steady-state or bifurcation analysis when kinetic …

This paper introduces extended stochastic Petri nets to model wetlab experiments. The
extentions include read and inhibitor arcs, stochastic transitions with freestyle rate functions …

We present a unifying Petri net framework comprising the qualitative, stochastic, continuous,
and hybrid paradigm for modeling and analyzing biological reaction networks. By means of …

Motivation: The functioning of many biological processes depends on the appearance of
only a small number of a single molecular species. Additionally, the observation of …