Reddy, V.N., Liebman, M.N., and Mavrovouniotis, M.L.. "Qualitative analysis of biochemical reaction systems." Comput Biol Med. 26
(1).
1996.
pp. 9-24.
[ PubMed ]
The qualitative analysis of biochemical reaction systems is presented. A discrete event systems approach is used to represent and analyze bioreaction pathways. The approach is based on Petri nets, which are particularly suited to modeling stoichiometric transformations, i.e. the inter-conversion of metabolites in fixed proportions. The properties and methods for the analysis of Petri nets, along with their interpretation for biochemical systems, are presented. As an example, the combined glycolytic and pentose phosphate pathway of the erythrocyte cell is presented to illustrate the concepts of the methodology.
Keywords: Biochemistry ; *Computer Simulation ; Erythrocytes_*physiology ; Glycolysis_*physiology ; Human ; Models Theoretical ; Pentosephosphate Pathway_*physiology
Reddy, V.N., Mavrovouniotis, M.L., and Liebman, M.N.. "Petri net representations in metabolic pathways." Proc Int Conf Intell Syst Mol Biol.
vol. 1.
1993.
pp. 328-36.
[ PubMed ]
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 Petri nets is introduced as a tool for computer-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.
Keywords: *Computer Simulation ; Fructose_metabolism ; Liver_metabolism ; *Metabolism ; *Models Biological