Get 20M+ Full-Text Papers For Less Than $1.50/day. Start a 14-Day Trial for You or Your Team.

Learn More →

Applications of Membrane Computing in Systems and Synthetic BiologyMembrane Systems and Tools Combining Dynamical Structures with Reaction Kinetics for Applications in Chronobiology

Applications of Membrane Computing in Systems and Synthetic Biology: Membrane Systems and Tools... [This chapter addresses three coordinated chronobiological studies demonstrating the convergence of experimental observations, fine-grained spatio-temporal modelling, and predictive simulation. Due to the discrete manner of molecular assembly in cell signalling and gene regulation, we define a framework of membrane systems equipped with discretised forms of reaction kinetics in concert with variable intramolecular structures. Our first study is dedicated to circadian clocks inducing daily biological rhythms. As an inspiring example, the KaiABC core oscillator reaches its functionality by cyclically varying protein structures. Within our second study, we present a meta-model of an entire circadian clockwork able to adapt its oscillation to an external stimulus in terms of a frequency control system acting in a phase-locked loop. Substrate concentration courses resulting from gene expression reflect its oscillatory behaviour utilised in a periodical trigger for subsequent processes. In this context, our third study cytometrically quantifies the dynamical behaviour of a bistable toggle switch resulting from mutual gene regulation.] http://www.deepdyve.com/assets/images/DeepDyve-Logo-lg.png

Applications of Membrane Computing in Systems and Synthetic BiologyMembrane Systems and Tools Combining Dynamical Structures with Reaction Kinetics for Applications in Chronobiology

Download PDF
41 pages

Loading next page...
 
/lp/springer-journals/applications-of-membrane-computing-in-systems-and-synthetic-biology-i9V9vatZS6
Publisher
Springer International Publishing
Copyright
© Springer International Publishing Switzerland 2014
ISBN
978-3-319-03190-3
Pages
133 –173
DOI
10.1007/978-3-319-03191-0_5
Publisher site
See Chapter on Publisher Site

Abstract

[This chapter addresses three coordinated chronobiological studies demonstrating the convergence of experimental observations, fine-grained spatio-temporal modelling, and predictive simulation. Due to the discrete manner of molecular assembly in cell signalling and gene regulation, we define a framework of membrane systems equipped with discretised forms of reaction kinetics in concert with variable intramolecular structures. Our first study is dedicated to circadian clocks inducing daily biological rhythms. As an inspiring example, the KaiABC core oscillator reaches its functionality by cyclically varying protein structures. Within our second study, we present a meta-model of an entire circadian clockwork able to adapt its oscillation to an external stimulus in terms of a frequency control system acting in a phase-locked loop. Substrate concentration courses resulting from gene expression reflect its oscillatory behaviour utilised in a periodical trigger for subsequent processes. In this context, our third study cytometrically quantifies the dynamical behaviour of a bistable toggle switch resulting from mutual gene regulation.]

Published: Dec 18, 2013

Keywords: Circadian Clock; Gene Regulatory Network; Membrane System; Derivation Tree; Reaction Rule

There are no references for this article.