Theoretical Analysis of Time-to-Peak Responses in Biological Reaction Networks

2010 ◽  
Vol 73 (5) ◽  
pp. 978-1003 ◽  
Author(s):  
Fabian J. Theis ◽  
Sebastian Bohl ◽  
Ursula Klingmüller
Keyword(s):  
Theoretical Analysis ◽  
Reaction Networks ◽  
Time To Peak ◽  
Biological Reaction

A unified biological modeling and simulation system for analyzing biological reaction networks

2013 ◽  
Vol 63 (11) ◽  
pp. 2247-2254 ◽  
Author(s):  
Seok Jong Yu ◽  
Thai Quang Tung ◽  
Junho Park ◽  
Jongtae Lim ◽  
Jaesoo Yoo
Keyword(s):  
Modeling And Simulation ◽  
Simulation System ◽  
Reaction Networks ◽  
Biological Modeling ◽  
Biological Reaction

scholarly journals Stationary distributions of systems with discreteness-induced transitions

2020 ◽  
Vol 17 (168) ◽  
pp. 20200243
Author(s):  
Enrico Bibbona ◽  
Jinsu Kim ◽  
Carsten Wiuf
Keyword(s):  
Theoretical Analysis ◽  
Stationary Distribution ◽  
Critical Value ◽  
Reaction Networks ◽  
Geometric Ergodicity ◽  
Positive Recurrence ◽  
The Family ◽  
Analytic Expression ◽  
Parameter Values ◽  
Stationary Behaviour

We provide a theoretical analysis of some autocatalytic reaction networks exhibiting the phenomenon of discreteness-induced transitions. The family of networks that we address includes the celebrated Togashi and Kaneko model. We prove positive recurrence, finiteness of all moments and geometric ergodicity of the models in the family. For some parameter values, we find the analytic expression for the stationary distribution and discuss the effect of volume scaling on the stationary behaviour of the chain. We find the exact critical value of the volume for which discreteness-induced transitions disappear.

ezBioNet: A modeling and simulation system for analyzing biological reaction networks

2012 ◽  
Vol 61 (8) ◽  
pp. 1267-1273 ◽  
Author(s):  
Seok Jong Yu ◽  
Thai Quang Tung ◽  
Junho Park ◽  
Jongtae Lim ◽  
Jaesoo Yoo
Keyword(s):  
Modeling And Simulation ◽  
Simulation System ◽  
Reaction Networks ◽  
Biological Reaction

Detecting Structural Invariants in Biological Reaction Networks

2011 ◽  
pp. 377-407 ◽  
Author(s):  
Jörn Behre ◽  
Luís Filipe de Figueiredo ◽  
Stefan Schuster ◽  
Christoph Kaleta
Keyword(s):  
Reaction Networks ◽  
Biological Reaction ◽  
Structural Invariants

scholarly journals Metannogen: annotation of biological reaction networks

2011 ◽  
Vol 27 (19) ◽  
pp. 2763-2764 ◽  
Author(s):  
Christoph Gille ◽  
Katrin Hübner ◽  
Andreas Hoppe ◽  
Hermann−Georg Holzhütter
Keyword(s):  
Reaction Networks ◽  
Biological Reaction

An Approach for Dividing Models of Biological Reaction Networks into Functional Units

SIMULATION ◽  
2003 ◽  
Vol 79 (12) ◽  
pp. 703-716 ◽  
Author(s):  
Michael Ederer ◽  
Thomas Sauter ◽  
Eric Bullinger ◽  
Ernst-Dieter Gilles ◽  
Frank Allgöwer
Keyword(s):  
Reaction Networks ◽  
Biological Reaction ◽  
Functional Units
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