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» Discrete Simulations of Biochemical Dynamics
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DNA
2007
Springer
127views Bioinformatics» more  DNA 2007»
13 years 11 months ago
Discrete Simulations of Biochemical Dynamics
Abstract. Metabolic P systems, shortly MP systems, are a special class of P systems, introduced for expressing biological metabolism. Their dynamics are computed by metabolic algor...
Vincenzo Manca
BMCBI
2004
323views more  BMCBI 2004»
13 years 4 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...
WSC
2008
13 years 7 months ago
Simulation of stochastic hybrid systems with switching and reflecting boundaries
Modeling and simulation of biochemical systems are important tasks because they can provide insights into complicated systems where traditional experimentation is expensive or imp...
Derek Riley, Kasandra Riley
EUROGP
2006
Springer
140views Optimization» more  EUROGP 2006»
13 years 8 months ago
Evolving Noisy Oscillatory Dynamics in Genetic Regulatory Networks
We introduce a genetic programming (GP) approach for evolving genetic networks that demonstrate desired dynamics when simulated as a discrete stochastic process. Our representation...
André Leier, P. Dwight Kuo, Wolfgang Banzha...
CMSB
2006
Springer
13 years 8 months ago
Stronger Computational Modelling of Signalling Pathways Using Both Continuous and Discrete-State Methods
Abstract. Starting from a biochemical signalling pathway model expressed in a process algebra enriched with quantitative information we automatically derive both continuous-space a...
Muffy Calder, Adam Duguid, Stephen Gilmore, Jane H...