Updates in Rhea - an expert curated resource of biochemical reactions

Anne Morgat; Thierry Lombardot; Kristian B Axelsen; Lucila Aimo; Anne Niknejad; Nevila Hyka-Nouspikel; Elisabeth Coudert; Monica Pozzato; Marco Pagni; Sébastien Moretti; Steven Rosanoff; Joseph Onwubiko; Lydie Bougueleret; Ioannis Xenarios; Nicole Redaschi; Alan Bridge

doi:10.1093/nar/gkw990

Updates in Rhea - an expert curated resource of biochemical reactions

Nucleic Acids Res. 2017 Jan 4;45(D1):D415-D418. doi: 10.1093/nar/gkw990. Epub 2016 Oct 26.

Authors

Anne Morgat^{1

2}, Thierry Lombardot³, Kristian B Axelsen³, Lucila Aimo³, Anne Niknejad⁴, Nevila Hyka-Nouspikel³, Elisabeth Coudert³, Monica Pozzato³, Marco Pagni⁴, Sébastien Moretti^{4

5}, Steven Rosanoff⁶, Joseph Onwubiko⁶, Lydie Bougueleret³, Ioannis Xenarios^{3

4

7}, Nicole Redaschi³, Alan Bridge³

Affiliations

¹ Swiss-Prot Group, SIB Swiss Institute of Bioinformatics, CMU, 1 rue Michel-Servet, CH-1211 Geneva 4, Switzerland Anne.Morgat@sib.swiss.
² ERABLE team, INRIA Grenoble Rhône-Alpes, 655 avenue de l'Europe, F-38330 Montbonnot Saint-Martin, France.
³ Swiss-Prot Group, SIB Swiss Institute of Bioinformatics, CMU, 1 rue Michel-Servet, CH-1211 Geneva 4, Switzerland.
⁴ Vital-IT, SIB Swiss Institute of Bioinformatics, Quartier Sorge, Bâtiment Génopode, CH-1015 Lausanne, Switzerland.
⁵ Department of Ecology and Evolution, Biophore, Evolutionary Bioinformatics group, University of Lausanne, CH-1015 Lausanne, Switzerland.
⁶ European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK.
⁷ University of Geneva, Department of Biochemistry, CH-1211 Geneva, Switzerland.

Abstract

Rhea (http://www.rhea-db.org) is a comprehensive and non-redundant resource of expert-curated biochemical reactions designed for the functional annotation of enzymes and the description of metabolic networks. Rhea describes enzyme-catalyzed reactions covering the IUBMB Enzyme Nomenclature list as well as additional reactions, including spontaneously occurring reactions, using entities from the ChEBI (Chemical Entities of Biological Interest) ontology of small molecules. Here we describe developments in Rhea since our last report in the database issue of Nucleic Acids Research. These include the first implementation of a simple hierarchical classification of reactions, improved coverage of the IUBMB Enzyme Nomenclature list and additional reactions through continuing expert curation, and the development of a new website to serve this improved dataset.

Publication types

Research Support, Non-U.S. Gov't