Coloured Petri nets for multilevel, multiscale and multidimensional modelling of biological systems
Owing to the availability of data of one biological phenomenon at different levels/scales,
modelling of biological systems is moving from single level/scale to multiple levels/scales …
modelling of biological systems is moving from single level/scale to multiple levels/scales …
Response to IL-6 trans-and IL-6 classic signalling is determined by the ratio of the IL-6 receptor α to gp130 expression: fusing experimental insights and dynamic …
H Reeh, N Rudolph, U Billing, H Christen… - Cell Communication and …, 2019 - Springer
Background Interleukin-6 is a pleiotropic cytokine with high clinical relevance and an
important mediator of cellular communication, orchestrating both pro-and anti-inflammatory …
important mediator of cellular communication, orchestrating both pro-and anti-inflammatory …
Systems biology of IL-6, IL-12 family cytokines
A Dittrich, W Hessenkemper, F Schaper - Cytokine & Growth Factor …, 2015 - Elsevier
Interleukin-6-type cytokines play important roles in the communication between cells of
multicellular organisms. They are involved in the regulation of complex cellular processes …
multicellular organisms. They are involved in the regulation of complex cellular processes …
Fuzzy stochastic petri nets for modeling biological systems with uncertain kinetic parameters
Stochastic Petri nets (SPNs) have been widely used to model randomness which is an
inherent feature of biological systems. However, for many biological systems, some kinetic …
inherent feature of biological systems. However, for many biological systems, some kinetic …
Charlie–an extensible Petri net analysis tool
M Heiner, M Schwarick, JT Wegener - Application and Theory of Petri Nets …, 2015 - Springer
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 …
functionalities apply standard analysis techniques of Petri net theory (eg invariants …
Robustness and information transfer within IL-6-induced JAK/STAT signalling
U Billing, T Jetka, L Nortmann, N Wundrack… - Communications …, 2019 - nature.com
Cellular communication via intracellular signalling pathways is crucial. Expression and
activation of signalling proteins is heterogenous between isogenic cells of the same cell …
activation of signalling proteins is heterogenous between isogenic cells of the same cell …
Colouring space-a coloured framework for spatial modelling in systems biology
In this paper we introduce a technique to encode spatial attributes of dynamic systems using
coloured Petri nets and show how it can be applied to biological systems within the spirit of …
coloured Petri nets and show how it can be applied to biological systems within the spirit of …
Biomodel engineering with Petri nets
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 …
and hybrid paradigm for modeling and analyzing biological reaction networks. By means of …
Integration of genome scale metabolic networks and gene regulation of metabolic enzymes with physiologically based pharmacokinetics
EM Maldonado, V Leoncikas, CP Fisher… - CPT …, 2017 - Wiley Online Library
The scope of physiologically based pharmacokinetic (PBPK) modeling can be expanded by
assimilation of the mechanistic models of intracellular processes from systems biology field …
assimilation of the mechanistic models of intracellular processes from systems biology field …
Petri nets for modeling and analyzing biochemical reaction networks
Petri nets have been widely used to model and analyze biochemical reaction networks. This
chapter gives an overview of different types of Petri nets within a unifying Petri net framework …
chapter gives an overview of different types of Petri nets within a unifying Petri net framework …