title: An algorithm for rapid computational construction of metabolic networks: a cholesterol biosynthesis example.
abstract: Alternative pathways of metabolic networks represent the escape routes that can reduce drug efficacy and can cause severe adverse effects. In this paper we introduce a mathematical algorithm and a coding system for rapid computational construction of metabolic networks. The initial data for the algorithm are the source substrate code and the enzyme/metabolite interaction tables. The major strength of the algorithm is the adaptive coding system of the enzyme-substrate interactions. A reverse application of the algorithm is also possible, when optimisation algorithm is used to compute the enzyme/metabolite rules from the reference network structure. The coding system is user-defined and must be adapted to the studied problem. The algorithm is most effective for computation of networks that consist of metabolites with similar molecular structures. The computation of the cholesterol biosynthesis metabolic network suggests that 89 intermediates can theoretically be formed between lanosterol and cholesterol, only 20 are presently considered as cholesterol intermediates. Alternative metabolites may represent links with other metabolic networks both as precursors and metabolites of cholesterol. A possible cholesterol-by-pass pathway to bile acids metabolism through cholestanol is suggested.
authors.affiliation: University of Ljubljana, SI-1000 Ljubljana, Slovenia. ales.belic@fe.uni-lj.si
authors.forename: Aleš
authors.initials: A
authors.lastname: Belič
authors.forename: Denis
authors.initials: D
authors.lastname: Pompon
authors.forename: Katalin
authors.initials: K
authors.lastname: Monostory
authors.forename: Diane
authors.initials: D
authors.lastname: Kelly
authors.forename: Steven
authors.initials: S
authors.lastname: Kelly
authors.forename: Damjana
authors.initials: D
authors.lastname: Rozman
mesh_terms: D000465:Algorithms; D002784:Cholesterol / Q000096:biosynthesis* / Q000737:chemistry; D019295:Computational Biology / Q000379:methods*; D003198:Computer Simulation; D007810:Lanosterol / Q000737:chemistry / Q000378:metabolism; D053858:Metabolic Networks and Pathways; D008954:Models, Biological; D008958:Models, Molecular
chemical_list: D007810:Lanosterol; D002784:Cholesterol