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JUCS
2010
215views more  JUCS 2010»
13 years 5 days ago
A Multidisciplinary Survey of Computational Techniques for the Modelling, Simulation and Analysis of Biochemical Networks
: All processes of life are controlled by networks of interacting biochemical components. The purpose of modelling these networks is manifold. From a theoretical point of view it a...
James Decraene, Thomas Hinze
SAC
2008
ACM
13 years 4 months ago
Bayesian inference for a discretely observed stochastic kinetic model
The ability to infer parameters of gene regulatory networks is emerging as a key problem in systems biology. The biochemical data are intrinsically stochastic and tend to be observ...
Richard J. Boys, Darren J. Wilkinson, Thomas B. L....
BMCBI
2004
323views more  BMCBI 2004»
13 years 5 months ago
Biochemical Network Stochastic Simulator (BioNetS): software for stochastic modeling of biochemical networks
Background: Intrinsic fluctuations due to the stochastic nature of biochemical reactions can have large effects on the response of biochemical networks. This is particularly true ...
David Adalsteinsson, David McMillen, Timothy C. El...
BMCBI
2010
232views more  BMCBI 2010»
13 years 5 months ago
LucidDraw: Efficiently visualizing complex biochemical networks within MATLAB
Background: Biochemical networks play an essential role in systems biology. Rapidly growing network data and e research activities call for convenient visualization tools to aid i...
Sheng He, Juan Mei, Guiyang Shi, Zhengxiang Wang, ...
APN
2006
Springer
13 years 7 months ago
From Petri Nets to Differential Equations - An Integrative Approach for Biochemical Network Analysis
Abstract. We report on the results of an investigation into the integration of Petri nets and ordinary differential equations (ODEs) for the modelling and analysis of biochemical n...
David Gilbert, Monika Heiner
MOZ
2004
Springer
13 years 10 months ago
A Mozart Implementation of CP(BioNet)
The analysis of biochemical networks consists in studying the interactions between biological entities cooperating in complex cellular processes. To facilitate the expression of an...
Grégoire Dooms, Yves Deville, Pierre Dupont
EUROGP
2007
Springer
13 years 11 months ago
The Holland Broadcast Language and the Modeling of Biochemical Networks
Abstract. The Broadcast Language is a programming formalism devised by Holland in 1975, which aims at improving the efficiency of Genetic Algorithms (GAs) during long-term evolutio...
James Decraene, George G. Mitchell, Barry McMullin...
CEC
2007
IEEE
13 years 11 months ago
Evolving genetic regulatory networks for systems biology
— Recently there has been significant interest in evolving genetic regulatory networks with a user-determined behaviour. It is unclear whether or not artificial evolution of bi...
Dominique Chu
CEC
2009
IEEE
14 years 4 days ago
Crosstalk and the cooperation of collectively autocatalytic reaction networks
— We examine a potential role of signalling crosstalk in Artificial Cell Signalling Networks (ACSNs). In this research, we regard these ACSNs or Artificial Biochemical Networks...
James Decraene, George G. Mitchell, Barry McMullin