title: EvoMS: An evolutionary tool to find de novo metabolic pathways.
abstract: The evolutionary metabolic synthesizer (EvoMS) is an evolutionary tool capable of finding novel metabolic pathways linking several compounds through feasible reactions. It allows system biologists to explore different alternatives for relating specific metabolites, offering the possibility of indicating the initial compound or allowing the algorithm to automatically select it. Searching process can be followed graphically through several plots of the evolutionary process. Metabolic pathways found are displayed in a web browser as directed graphs. In all cases, solutions are networks of reactions that produce linear or branched metabolic pathways which are feasible from the specified set of available compounds. Source code of EvoMS is available at http://sourceforge.net/projects/sourcesinc/files/evoms/. Subsets of reactions are provided, as well as four examples for searching metabolic pathways among several compounds. Available as a web service at http://fich.unl.edu.ar/sinc/web-demo/evoms/.
authors.affiliation: Research Institute for Signals, Systems and Computational Intelligence (sinc(i)), FICH-UNL/CONICET, Argentina. Electronic address: mgerard@sinc.unl.edu.ar.
authors.forename: Matias F
authors.initials: MF
authors.lastname: Gerard
authors.affiliation: Research Institute for Signals, Systems and Computational Intelligence (sinc(i)), FICH-UNL/CONICET, Argentina. Electronic address: gstegmayer@sinc.unl.edu.ar.
authors.forename: Georgina
authors.initials: G
authors.lastname: Stegmayer
authors.affiliation: Research Institute for Signals, Systems and Computational Intelligence (sinc(i)), FICH-UNL/CONICET, Argentina. Electronic address: dmilone@sinc.unl.edu.ar.
authors.forename: Diego H
authors.initials: DH
authors.lastname: Milone
mesh_terms: D005075:Biological Evolution; D008660:Metabolism
keywords: Evolutionary algorithms; Metabolic network representation; Metabolic pathway searching; Pathway synthesis