title: A proposed framework for the description of plant metabolomics experiments and their results.
abstract: The study of the metabolite complement of biological samples, known as metabolomics, is creating large amounts of data, and support for handling these data sets is required to facilitate meaningful analyses that will answer biological questions. We present a data model for plant metabolomics known as ArMet (architecture for metabolomics). It encompasses the entire experimental time line from experiment definition and description of biological source material, through sample growth and preparation to the results of chemical analysis. Such formal data descriptions, which specify the full experimental context, enable principled comparison of data sets, allow proper interpretation of experimental results, permit the repetition of experiments and provide a basis for the design of systems for data storage and transmission. The current design and example implementations are freely available (http://www.armet.org/). We seek to advance discussion and community adoption of a standard for metabolomics, which would promote principled collection, storage and transmission of experiment data.
authors.affiliation: Department of Computer Science, University of Wales, Penglais, Aberystwyth, Ceredigion, Wales, UK.
authors.forename: Helen
authors.initials: H
authors.lastname: Jenkins
authors.forename: Nigel
authors.initials: N
authors.lastname: Hardy
authors.forename: Manfred
authors.initials: M
authors.lastname: Beckmann
authors.forename: John
authors.initials: J
authors.lastname: Draper
authors.forename: Aileen R
authors.initials: AR
authors.lastname: Smith
authors.forename: Janet
authors.initials: J
authors.lastname: Taylor
authors.forename: Oliver
authors.initials: O
authors.lastname: Fiehn
authors.forename: Royston
authors.initials: R
authors.lastname: Goodacre
authors.forename: Raoul J
authors.initials: RJ
authors.lastname: Bino
authors.forename: Robert
authors.initials: R
authors.lastname: Hall
authors.forename: Joachim
authors.initials: J
authors.lastname: Kopka
authors.forename: Geoffrey A
authors.initials: GA
authors.lastname: Lane
authors.forename: B Markus
authors.initials: BM
authors.lastname: Lange
authors.forename: Jang R
authors.initials: JR
authors.lastname: Liu
authors.forename: Pedro
authors.initials: P
authors.lastname: Mendes
authors.forename: Basil J
authors.initials: BJ
authors.lastname: Nikolau
authors.forename: Stephen G
authors.initials: SG
authors.lastname: Oliver
authors.forename: Norman W
authors.initials: NW
authors.lastname: Paton
authors.forename: Sue
authors.initials: S
authors.lastname: Rhee
authors.forename: Ute
authors.initials: U
authors.lastname: Roessner-Tunali
authors.forename: Kazuki
authors.initials: K
authors.lastname: Saito
authors.forename: Jørn
authors.initials: J
authors.lastname: Smedsgaard
authors.forename: Lloyd W
authors.initials: LW
authors.lastname: Sumner
authors.forename: Trevor
authors.initials: T
authors.lastname: Wang
authors.forename: Sean
authors.initials: S
authors.lastname: Walsh
authors.forename: Eve Syrkin
authors.initials: ES
authors.lastname: Wurtele
authors.forename: Douglas B
authors.initials: DB
authors.lastname: Kell
mesh_terms: D003628:Database Management Systems; D016208:Databases, Factual / Q000592:standards*; D004282:Documentation / Q000379:methods* / Q000592:standards; D016247:Information Storage and Retrieval / Q000379:methods*; D020407:Internet; D010944:Plants / Q000378:metabolism*; D020543:Proteome / Q000378:metabolism*; D040901:Proteomics / Q000379:methods / Q000592:standards; D012106:Research / Q000592:standards; D012107:Research Design; D012984:Software; D014584:User-Computer Interface
chemical_list: D020543:Proteome