Object-Oriented Knowledge Bases for the Analysis of Prokaryotic and Eukaryotic Genomes

G. Perrière, F. Dorkeld, F. Rechenmann, and C. Gautier

The present methods for representing metabolic pathways are limited in their ability to handle complex systems, incorporate new information, and to provide for drawing qualitative conclusions from the structure of pathways. The theory of Pctri nets is introduced as a tool for cornputer-implementable representation of pathways. Petri nets have the potential to overcome the present limitations, and through a multitude of properties, enable the preliminary qualitative analysis of pathways.

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