title: Tools-4-Metatool (T4M): online suite of web-tools to process stoichiometric network analysis data from Metatool.
abstract: Tools-4-Metatool (T4M) is a suite of web-tools, implemented in PERL, which analyses, parses, and manipulates files related to Metatool. Its main goal is to assist the work with Metatool. T4M has two major sets of tools: Analysis and Compare. Analysis visualizes the results of Metatool (convex basis, elementary flux modes, and enzyme subsets) and facilitates the study of metabolic networks. It is composed of five tools: MDigraph, MetaMatrix, CBGraph, EMGraph, and SortEM. Compare was developed to compare different Metatool results from different networks. This set consists of: Compara and ComparaSub which compare network subsets providing outputs in different formats and ComparaEM that seeks for identical elementary modes in two metabolic networks. The suite T4M also includes one script that generates Metatool input: CBasis2Metatool, based on a Metatool output file that is filtered by a list of convex basis' metabolites. Finally, the utility CheckMIn checks the consistency of the Metatool input file. T4M is available at http://solea.quim.ucm.es/t4m.
authors.affiliation: Departamento de Bioquímica y Biología Molecular I, Universidad Complutense Madrid, Avd. Complutense s/n, 28040 Madrid, Spain.
authors.forename: Daniela
authors.initials: D
authors.lastname: Xavier
authors.forename: Sara
authors.initials: S
authors.lastname: Vázquez
authors.forename: Clara
authors.initials: C
authors.lastname: Higuera
authors.forename: Federico
authors.initials: F
authors.lastname: Morán
authors.forename: Francisco
authors.initials: F
authors.lastname: Montero
mesh_terms: D000465:Algorithms; D020635:Buchnera / Q000378:metabolism*; D003198:Computer Simulation; D016678:Genome; D053858:Metabolic Networks and Pathways; D008954:Models, Biological; D012984:Software; D049490:Systems Biology / Q000379:methods*; D014633:Valine / Q000096:biosynthesis*
chemical_list: D014633:Valine