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Workflow4Metabolomics: A collaborative research infrastructure for computational metabolomics

hal.structure.identifierUnité de Nutrition Humaine [UNH]
dc.contributor.authorPÉTÉRA, Mélanie
hal.structure.identifierUniversité Pierre et Marie Curie - Paris 6 [UPMC]
hal.structure.identifierABiMS - Informatique et bioinformatique = Analysis and Bioinformatics for Marine Science [ABIMS]
dc.contributor.authorLE CORGUILLE, Gildas
hal.structure.identifierUnité de Nutrition Humaine [UNH]
dc.contributor.authorLANDI, Marion
hal.structure.identifierUniversité Pierre et Marie Curie - Paris 6 [UPMC]
hal.structure.identifierABiMS - Informatique et bioinformatique = Analysis and Bioinformatics for Marine Science [ABIMS]
dc.contributor.authorMONSOOR, Misharl
hal.structure.identifierMetaToul AXIOM [E20]
dc.contributor.authorTREMBLAY-FRANCO, Marie
hal.structure.identifierMetaToul AXIOM [E20]
dc.contributor.authorMARTIN, Jean-Francois
hal.structure.identifierUnité de Nutrition Humaine [UNH]
dc.contributor.authorDUPERIER, Christophe
hal.structure.identifierBiologie du fruit et pathologie [BFP]
hal.structure.identifierPlateforme Bordeaux Metabolome
dc.contributor.authorJACOB, Daniel
hal.structure.identifierDynamics, Logics and Inference for biological Systems and Sequences [Dyliss]
hal.structure.identifierLaboratoire d'Informatique de Nantes Atlantique [LINA]
dc.contributor.authorGUITTON, Yann
hal.structure.identifierBiologie du fruit et pathologie [BFP]
hal.structure.identifierPlateforme Bordeaux Metabolome
dc.contributor.authorLEFEBVRE, Marie
hal.structure.identifierUnité de Nutrition Humaine [UNH]
dc.contributor.authorPUJOS-GUILLOT, Estelle
hal.structure.identifierUnité de Nutrition Humaine [UNH]
dc.contributor.authorGIACOMONI, Franck
hal.structure.identifierLaboratoire Outils d'Analyse des Données (CEA, LIST) [LOAD (CEA, LIST)]
hal.structure.identifierPlateforme Exploration du Métabolisme [PFEM]
dc.contributor.authorTHÉVENOT, Etienne
hal.structure.identifierABiMS - Informatique et bioinformatique = Analysis and Bioinformatics for Marine Science [ABIMS]
hal.structure.identifierCentre National de la Recherche Scientifique [CNRS]
dc.contributor.authorCARON, Christophe
dc.date.issued2015
dc.date.conference2015-07-06
dc.description.abstractEnIn the context of an emergent and fast evolving science, the development of various tools dedicated to metabolomic data processing and data analysis increased. Because metabolomic analyses require a variety of steps involving various disciplines from analytical chemistry to statistics and bioinformatics, it requires many skills and expertise. However, despite this abundance of tools, standardization is lacking in these diversity of programs, as well as infrastructure to handle and link the different steps of metabolomic analyses. We recently implemented Workflow4Metabolomics (W4M), a collaborative online platform hosting and providing a full pipelinefor metabolomics from data preprocessing to annotation including statistical analysis. It is not designed to respond to only one specific type of metabolomic analysis, but to cover a maximum range of possible approaches - as metabolomics is a complex science that can be studied through various complementary analytical techniques. Thus, more than just gathering programs, W4M provides relevant combinations of generic and specific tools, a large part of which being developed and sustained by the partners providing this virtual research environment (VRE). Moreover, using Galaxy, a web-based platform technology, W4M provides modules from various sources and of various types. This platform allows hosted tools to be run and linked together via an instinctive and ergonomic interface, which is beneficial for both beginners and experts in metabolomics. W4M gets its strength from the collaboration of complementary teams from bioinformatics and metabolomics environment. Initiated by the collaboration between two platforms, it gathers today six research teams and platforms with a higher diversity in skills and expertise. It allows a continuous enrichment in the service provided, with addition of new modules and new possible workflows dedicated to cover a large scope of the increasing needs of the metabolomic community. Moreover,the ‘open-source’ aspect of this platform allows to open it to new collaborators bringing specific expertise that can be highlighted and disseminated in the metabolomic community
dc.description.sponsorshipBiotechnologies pour la valorisation des macroalgues - ANR-10-BTBR-0004
dc.description.sponsorshipInstitut français de bioinformatique - ANR-11-INBS-0013
dc.description.sponsorshipDéveloppement d'une infrastructure française distribuée pour la métabolomique dédiée à l'innovation - ANR-11-INBS-0010
dc.language.isoen
dc.subject.enannotation
dc.subject.encollaborative online platform
dc.subject.enbioinformatics
dc.subject.enstatistics
dc.subject.endata analysis
dc.subject.enmetabolomics
dc.subject.endata processing
dc.subject.enStatistical analysis
dc.subject.enSignal processing
dc.title.enWorkflow4Metabolomics: A collaborative research infrastructure for computational metabolomics
dc.typeAutre communication scientifique (congrès sans actes - poster - séminaire...)
dc.identifier.doi10.1093/bioinformatics/btu813
dc.subject.halInformatique [cs]/Traitement du signal et de l'image
dc.subject.halInformatique [cs]/Recherche d'information [cs.IR]
dc.subject.halSciences du Vivant [q-bio]/Alimentation et Nutrition
dc.subject.halSciences du Vivant [q-bio]/Biochimie, Biologie Moléculaire/Génomique, Transcriptomique et Protéomique [q-bio.GN]
bordeaux.conference.titleJOBIM 2015 (16e édition des Journées Ouvertes en Biologie, Informatique et Mathématiques )
bordeaux.countryFR
bordeaux.conference.cityClermont-Ferrand
bordeaux.peerReviewedoui
hal.identifierhal-01214152
hal.version1
hal.invitednon
hal.proceedingsoui
hal.conference.organizerUniversité d'Auvergne - Clermont-Ferrand I (UdA). Clermont-Ferrand, FRA.
hal.conference.end2015-07-09
hal.popularnon
hal.audienceNon spécifiée
hal.origin.linkhttps://hal.archives-ouvertes.fr//hal-01214152v1
bordeaux.COinSctx_ver=Z39.88-2004&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.date=2015&rft.au=P%C3%89T%C3%89RA,%20M%C3%A9lanie&LE%20CORGUILLE,%20Gildas&LANDI,%20Marion&MONSOOR,%20Misharl&TREMBLAY-FRANCO,%20Marie&rft.genre=conference


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