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EVOW
2008
Springer
13 years 7 months ago
Enhancing Parameter Estimation of Biochemical Networks by Exponentially Scaled Search Steps
A fundamental problem of modelling in Systems Biology is to precisely characterise quantitative parameters, which are hard to measure experimentally. For this reason, it is common ...
Hendrik Rohn, Bashar Ibrahim, Thorsten Lenser, Tho...
BMCBI
2006
194views more  BMCBI 2006»
13 years 5 months ago
Novel metaheuristic for parameter estimation in nonlinear dynamic biological systems
Background: We consider the problem of parameter estimation (model calibration) in nonlinear dynamic models of biological systems. Due to the frequent ill-conditioning and multi-m...
Maria Rodriguez-Fernandez, Jose A. Egea, Julio R. ...
CDC
2008
IEEE
140views Control Systems» more  CDC 2008»
13 years 11 months ago
Model discrimination of polynomial systems via stochastic inputs
— Systems biologists are often faced with competing models for a given experimental system. Unfortunately, performing experiments can be time-consuming and expensive. Therefore, ...
Daniel Georgiev, Eric Klavins
RECOMB
2007
Springer
14 years 5 months ago
Production-Passage-Time Approximation: A New Approximation Method to Accelerate the Simulation Process of Enzymatic Reactions
Abstract. Given the substantial computational requirements of stochastic simulation, approximation is essential for efficient analysis of any realistic biochemical system. This pap...
Hiroyuki Kuwahara, Chris J. Myers
BMCBI
2010
149views more  BMCBI 2010»
13 years 5 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...