| Identification of Catalytic or Metabolic Pathways: a Graph-Theoretic Approach | ||
| Shahram R. Shafie1, L. T. Fan2, Botond Bertok3, Ferenc Friedler4, Dong_Yup Lee5, Sunwon Park6 and S.Y. Lee5, (1)Kansas State University, Kansas State University, Chemical Engineering Department, 105 Durland Hall, Manhattan, KS 66506, (2)Kansas State University, 105 Durland Hall, Manhattan, KS 66506, (3)Department of Computer Science, University of Veszprém, Egyetem u. 10., Veszprém, H-8200, Hungary, (4)Department of Computer Science, University of Veszprém, Egyetem u. 10., Veszprem, H-8200, Hungary, (5)Chemical and Biomolecular Engineering, KAIST, Daejon, South Korea, (6)KAIST, 373-1 Guseongdong, Yuseonggu, Daejeon, 305-701, South Korea IDENTIFICATION OF CATALYTIC OR METABOLIC PATHWAYS: A GRAPH-THEORETIC APPROACH* L. T. Fan1, S. Shafie1**, B. Bertók2, F. Friedler2, D. -Y. Lee3, 4, H. Seo4, S. Park4, and S. Y. Lee3, 4 1Department of Chemical Engineering, Kansas State University Manhattan, KS 66506, U.S.A. 2Department of Computer Science, University of Veszprém Veszprém, Egyetem u. 10., H-8200 Hungary 3Metabolic and Biomolecular Engineering National Research Laboratory 4Department of Chemical and Biomolecular Engineering, and Bioinformatics Research Center Korea Advanced Institute of Science and Technology 373-1 Guseong-dong, Yuseong-gu, Daejeon 305-701, Korea ABSTRACT A mathematically exact algorithmic approach is presented for carrying out the synthesis of the networks of plausible elementary or metabolic reactions constituting stoichiometrically exact and potentially feasible catalytic or metabolic pathways; this synthesis is profoundly complex combinatorially. The approach is based on the unique graph-representation in terms of P-graphs (process graphs), a set of axioms, and a group of combinatorial algorithms. The inclusion or exclusion of a step of each elementary or metabolic reaction in the pathway of interest hinges on the general combinatorial properties of feasible reaction networks. The methodology, on which the approach is based, is outlined at the outset. The methodology is then illustrated by implementing it to three examples comprising two catalytic reactions, i.e., catalytic combustion of hydrogen and reduction of nitrogen oxide, and one metabolic reaction, involved in the production of ethanol by yeast. The efficacy of the approach is discussed in light of the results obtained from these examples. Key Words: pathway, catalytic reaction, metabolic reaction, algorithmic identification, graph-theoretic. ________________________________________________________________________ * For presentation at the AIChE Annual Meeting, Cincinnati, Ohio, Oct. 30– Nov. 4, 2005. ** To whom correspondence should be addressed.
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