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UniPathway: a resource for the exploration and annotation of metabolic pathways

Morgat, Anne ; Coissac, Eric ; Coudert, Elisabeth ; Axelsen, Kristian B. ; Keller, Guillaume ; Bairoch, Amos ; Bridge, Alan ; Bougueleret, Lydie ; Xenarios, Ioannis ; Viari, Alain

In: Nucleic Acids Research, 2012, vol. 40, no. D1, p. D761-D769

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    Titre
    • UniPathway: a resource for the exploration and annotation of metabolic pathways
    Auteur
    • Morgat, Anne. Swiss-Prot Group, SIB Swiss Institute of Bioinformatics, CMU, 1 rue Michel-Servet, CH-1211 Geneva 4, Switzerland, Equipe BAMBOO, INRIA Grenoble Rhône-Alpes, 655 avenue de l'Europe, F-38330 Montbonnot Saint-Martin, Laboratoire d'Ecologie Alpine, UMR UJF-CNRS 5553, Université Joseph Fourier, Grenoble, France, CALIPHO Group, SIB Swiss Institute of Bioinformatics, CMU, 1 rue Michel-Servet, CH-1211 Geneva 4 and Vital-IT, SIB Swiss Institute of Bioinformatics, Quartier Sorge, Bâtiment Génopode, 1015 Lausanne, Switzerland
    • Coissac, Eric. Swiss-Prot Group, SIB Swiss Institute of Bioinformatics, CMU, 1 rue Michel-Servet, CH-1211 Geneva 4, Switzerland, Equipe BAMBOO, INRIA Grenoble Rhône-Alpes, 655 avenue de l'Europe, F-38330 Montbonnot Saint-Martin, Laboratoire d'Ecologie Alpine, UMR UJF-CNRS 5553, Université Joseph Fourier, Grenoble, France, CALIPHO Group, SIB Swiss Institute of Bioinformatics, CMU, 1 rue Michel-Servet, CH-1211 Geneva 4 and Vital-IT, SIB Swiss Institute of Bioinformatics, Quartier Sorge, Bâtiment Génopode, 1015 Lausanne, Switzerland
    • Coudert, Elisabeth. Swiss-Prot Group, SIB Swiss Institute of Bioinformatics, CMU, 1 rue Michel-Servet, CH-1211 Geneva 4, Switzerland, Equipe BAMBOO, INRIA Grenoble Rhône-Alpes, 655 avenue de l'Europe, F-38330 Montbonnot Saint-Martin, Laboratoire d'Ecologie Alpine, UMR UJF-CNRS 5553, Université Joseph Fourier, Grenoble, France, CALIPHO Group, SIB Swiss Institute of Bioinformatics, CMU, 1 rue Michel-Servet, CH-1211 Geneva 4 and Vital-IT, SIB Swiss Institute of Bioinformatics, Quartier Sorge, Bâtiment Génopode, 1015 Lausanne, Switzerland
    • Axelsen, Kristian B.. Swiss-Prot Group, SIB Swiss Institute of Bioinformatics, CMU, 1 rue Michel-Servet, CH-1211 Geneva 4, Switzerland, Equipe BAMBOO, INRIA Grenoble Rhône-Alpes, 655 avenue de l'Europe, F-38330 Montbonnot Saint-Martin, Laboratoire d'Ecologie Alpine, UMR UJF-CNRS 5553, Université Joseph Fourier, Grenoble, France, CALIPHO Group, SIB Swiss Institute of Bioinformatics, CMU, 1 rue Michel-Servet, CH-1211 Geneva 4 and Vital-IT, SIB Swiss Institute of Bioinformatics, Quartier Sorge, Bâtiment Génopode, 1015 Lausanne, Switzerland
    • Keller, Guillaume. Swiss-Prot Group, SIB Swiss Institute of Bioinformatics, CMU, 1 rue Michel-Servet, CH-1211 Geneva 4, Switzerland, Equipe BAMBOO, INRIA Grenoble Rhône-Alpes, 655 avenue de l'Europe, F-38330 Montbonnot Saint-Martin, Laboratoire d'Ecologie Alpine, UMR UJF-CNRS 5553, Université Joseph Fourier, Grenoble, France, CALIPHO Group, SIB Swiss Institute of Bioinformatics, CMU, 1 rue Michel-Servet, CH-1211 Geneva 4 and Vital-IT, SIB Swiss Institute of Bioinformatics, Quartier Sorge, Bâtiment Génopode, 1015 Lausanne, Switzerland
    • Bairoch, Amos. Swiss-Prot Group, SIB Swiss Institute of Bioinformatics, CMU, 1 rue Michel-Servet, CH-1211 Geneva 4, Switzerland, Equipe BAMBOO, INRIA Grenoble Rhône-Alpes, 655 avenue de l'Europe, F-38330 Montbonnot Saint-Martin, Laboratoire d'Ecologie Alpine, UMR UJF-CNRS 5553, Université Joseph Fourier, Grenoble, France, CALIPHO Group, SIB Swiss Institute of Bioinformatics, CMU, 1 rue Michel-Servet, CH-1211 Geneva 4 and Vital-IT, SIB Swiss Institute of Bioinformatics, Quartier Sorge, Bâtiment Génopode, 1015 Lausanne, Switzerland
    • Bridge, Alan. Swiss-Prot Group, SIB Swiss Institute of Bioinformatics, CMU, 1 rue Michel-Servet, CH-1211 Geneva 4, Switzerland, Equipe BAMBOO, INRIA Grenoble Rhône-Alpes, 655 avenue de l'Europe, F-38330 Montbonnot Saint-Martin, Laboratoire d'Ecologie Alpine, UMR UJF-CNRS 5553, Université Joseph Fourier, Grenoble, France, CALIPHO Group, SIB Swiss Institute of Bioinformatics, CMU, 1 rue Michel-Servet, CH-1211 Geneva 4 and Vital-IT, SIB Swiss Institute of Bioinformatics, Quartier Sorge, Bâtiment Génopode, 1015 Lausanne, Switzerland
    • Bougueleret, Lydie. Swiss-Prot Group, SIB Swiss Institute of Bioinformatics, CMU, 1 rue Michel-Servet, CH-1211 Geneva 4, Switzerland, Equipe BAMBOO, INRIA Grenoble Rhône-Alpes, 655 avenue de l'Europe, F-38330 Montbonnot Saint-Martin, Laboratoire d'Ecologie Alpine, UMR UJF-CNRS 5553, Université Joseph Fourier, Grenoble, France, CALIPHO Group, SIB Swiss Institute of Bioinformatics, CMU, 1 rue Michel-Servet, CH-1211 Geneva 4 and Vital-IT, SIB Swiss Institute of Bioinformatics, Quartier Sorge, Bâtiment Génopode, 1015 Lausanne, Switzerland
    • Xenarios, Ioannis. Swiss-Prot Group, SIB Swiss Institute of Bioinformatics, CMU, 1 rue Michel-Servet, CH-1211 Geneva 4, Switzerland, Equipe BAMBOO, INRIA Grenoble Rhône-Alpes, 655 avenue de l'Europe, F-38330 Montbonnot Saint-Martin, Laboratoire d'Ecologie Alpine, UMR UJF-CNRS 5553, Université Joseph Fourier, Grenoble, France, CALIPHO Group, SIB Swiss Institute of Bioinformatics, CMU, 1 rue Michel-Servet, CH-1211 Geneva 4 and Vital-IT, SIB Swiss Institute of Bioinformatics, Quartier Sorge, Bâtiment Génopode, 1015 Lausanne, Switzerland
    • Viari, Alain. Swiss-Prot Group, SIB Swiss Institute of Bioinformatics, CMU, 1 rue Michel-Servet, CH-1211 Geneva 4, Switzerland, Equipe BAMBOO, INRIA Grenoble Rhône-Alpes, 655 avenue de l'Europe, F-38330 Montbonnot Saint-Martin, Laboratoire d'Ecologie Alpine, UMR UJF-CNRS 5553, Université Joseph Fourier, Grenoble, France, CALIPHO Group, SIB Swiss Institute of Bioinformatics, CMU, 1 rue Michel-Servet, CH-1211 Geneva 4 and Vital-IT, SIB Swiss Institute of Bioinformatics, Quartier Sorge, Bâtiment Génopode, 1015 Lausanne, Switzerland
    Type de document
    • Postprint
    Langue
    • Anglais
    Publié dans
    • Nucleic Acids Research, 2012, vol. 40, no. D1, p. D761-D769. Oxford University Press
    Autre version électronique
    Classification
    • Santé
    Mots clés
    Identifiant OAI-PMH
    • oai:doc.rero.ch:302018
    Summary
    UniPathway (http://www.unipathway.org) is a fully manually curated resource for the representation and annotation of metabolic pathways. UniPathway provides explicit representations of enzyme-catalyzed and spontaneous chemical reactions, as well as a hierarchical representation of metabolic pathways. This hierarchy uses linear subpathways as the basic building block for the assembly of larger and more complex pathways, including species-specific pathway variants. All of the pathway data in UniPathway has been extensively cross-linked to existing pathway resources such as KEGG and MetaCyc, as well as sequence resources such as the UniProt KnowledgeBase (UniProtKB), for which UniPathway provides a controlled vocabulary for pathway annotation. We introduce here the basic concepts underlying the UniPathway resource, with the aim of allowing users to fully exploit the information provided by UniPathway