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» Computational methods for diffusion-influenced biochemical r...
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CMSB
2006
Springer
15 years 1 months ago
Type Inference in Systems Biology
Type checking and type inference are important concepts and methods of programming languages and software engineering. Type checking is a way to ensure some level of consistency, d...
François Fages, Sylvain Soliman
BMCBI
2008
119views more  BMCBI 2008»
14 years 9 months ago
On deducing causality in metabolic networks
Background: Metabolic networks present a complex interconnected structure, whose understanding is in general a non-trivial task. Several formal approaches have been developed to s...
Chiara Bodei, Andrea Bracciali, Davide Chiarugi
BMCBI
2010
123views more  BMCBI 2010»
14 years 9 months ago
Computationally efficient flux variability analysis
Background: Flux variability analysis is often used to determine robustness of metabolic models in various simulation conditions. However, its use has been somehow limited by the ...
Steinn Gudmundsson, Ines Thiele
MMAS
2010
Springer
14 years 4 months ago
Incorporating Active Transport of Cellular Cargo in Stochastic Mesoscopic Models of Living Cells
We propose a new multiscale method to incorporate active transport of cargo particles in biological cells in stochastic, mesoscopic models of reaction-transport processes. Given a...
Andreas Hellander, Per Lötstedt
FM
2009
Springer
138views Formal Methods» more  FM 2009»
15 years 4 months ago
What Can Formal Methods Bring to Systems Biology?
This position paper argues that the operational modelling approaches from the formal methods community can be applied fruitfully within the systems biology domain. The results can ...
Nicola Bonzanni, K. Anton Feenstra, Wan Fokkink, E...