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CMSB
2008
Springer
13 years 6 months ago
A Language for Biochemical Systems
Abstract. CBS is a Calculus of Biochemical Systems intended to allow the modelling of metabolic, signalling and regulatory networks in a natural and modular manner. In this paper w...
Michael Pedersen, Gordon D. Plotkin
EUROGP
2007
Springer
13 years 10 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...
CMSB
2004
Springer
13 years 10 months ago
Developing SBML Beyond Level 2: Proposals for Development
Abstract. The Systems Biology Markup Language (SBML) is an XMLbased exchange format for computational models of biochemical networks. SBML Level 2, whose definition was establishe...
Andrew Finney
BMCBI
2011
12 years 11 months ago
Hierarchical graphs for rule-based modeling of biochemical systems
Background: In rule-based modeling, graphs are used to represent molecules: a colored vertex represents a component of a molecule, a vertex attribute represents the internal state...
Nathan W. Lemons, Bin Hu, William S. Hlavacek