EvoMS: An evolutionary tool to find de novo metabolic pathways. (August 2015)

• Record Type: Journal Article
• Authors: Gerard, Matias F.; Stegmayer, Georgina; Milone, Diego H.
• Is Part Of: Bio systems. Volume 134(2015:Aug.)
• Page Start: 43
• Page End: 47
• Publication Date: 2015-08
• Subjects: Evolutionary algorithms -- Metabolic network representation -- Metabolic pathway searching -- Pathway synthesis; Biological systems -- Periodicals; Biology -- Periodicals; Biology -- Periodicals; Evolution -- Periodicals; Biologie -- Périodiques; Évolution -- Périodiques; 570
• DOI: 10.1016/j.biosystems.2015.04.006
• Languages: English
• ISSNs: 0303-2647

Abstract

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 athttp://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 athttp://fich.unl.edu.ar/sinc/web-demo/evoms/ .