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BMCBI
2010
149views more  BMCBI 2010»
13 years 7 months ago
RuleMonkey: software for stochastic simulation of rule-based models
Background: The system-level dynamics of many molecular interactions, particularly protein-protein interactions, can be conveniently represented using reaction rules, which can be...
Joshua Colvin, Michael I. Monine, Ryan N. Gutenkun...
BIOCOMP
2010
13 years 5 months ago
A Model Reduction Technique for Stochastic Biochemical Kinetics
Abstract-- Modeling the intermolecular reactions in a single cell is a critical problem in computational biology. Biochemical reaction systems often involve species in both low and...
Silvana Ilie, Ekaterina Kudashkina
SC
1995
ACM
13 years 11 months ago
Distributing a Chemical Process Optimization Application Over a Gigabit Network
We evaluate the impact of a gigabit network on the implementation of a distributed chemical process optimization application. The optimization problem is formulated as a stochasti...
Robert L. Clay, Peter Steenkiste
HYBRID
2005
Springer
14 years 29 days ago
Polynomial Stochastic Hybrid Systems
This paper deals with polynomial stochastic hybrid systems (pSHSs), which generally correspond to stochastic hybrid systems with polynomial continuous vector fields, reset maps, a...
João P. Hespanha
CDC
2008
IEEE
122views Control Systems» more  CDC 2008»
14 years 1 months ago
Metabolic networks analysis using convex optimization
— Metabolic networks map the biochemical reactions in a living cell to the flow of various chemical substances in the cell, which are called metabolites. A standard model of a m...
A. Agung Julius, Marcin Imielinski, George J. Papp...