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E-CELL: software environment for whole-cell simulation
M Tomita
Bioinformatics 15 (1), 72-84 (1999)
A framework for pathway simulation. Every step on a pathway is modeled with the actors, concentrations, preconditions and effects. This is analogous to situation modeling. E-CELL also provides a GUI for monitoring molecular concentrations over time
 
Agents in bioinformatics, computational and systems biology -- Merelli et al. 8 (1): 45 -- Briefings in Bioinformatics
bib.oxfordjournals.org

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