2BAMBOO - An algorithmic view on genomes, cells, and environments (Laboratoire de Biométrie et Biologie Évolutive. UMR CNRS 5558 Campus de La Doua - Université Claude Bernard - Lyon 1 Bâtiment Grégoire Mendel - 16 rue Raphael Dubois 69 100 Villeurbanne -- INRIA Grenoble - Rhône-Alpes Inovallée 655 avenue de l'Europe -Montbonnot 38 334 Saint Ismier Cedex France - France)
3Department of Clinical Biochemistry (SAS Laboratory Department of Clinical Biochemistry Royal Victoria Infirmary Newcastle upon Tyne NE1 4LP - United Kingdom)
Abstract : Rhea (http://www.ebi.ac.uk/rhea) is a comprehensive resource of expert-curated biochemical reactions. Rhea provides a non-redundant set of chemical transformations for use in a broad spectrum of applications, including metabolic network reconstruction and pathway inference. Rhea includes enzyme-catalyzed reactions (covering the IUBMB Enzyme Nomenclature list), transport reactions and spontaneously occurring reactions. Rhea reactions are described using chemical species from the Chemical Entities of Biological Interest ontology (ChEBI) and are stoichiometrically balanced for mass and charge. They are extensively manually curated with links to source literature and other public resources on metabolism including enzyme and pathway databases. This cross-referencing facilitates the mapping and reconciliation of common reactions and compounds between distinct resources, which is a common first step in the reconstruction of genome scale metabolic networks and models.
Rafael Alcântara, Kristian B Axelsen, Anne Morgat, Eugeni Belda, Elisabeth Coudert, et al.. Rhea--a manually curated resource of biochemical reactions.. Nucleic Acids Research, Oxford University Press, 2012, 40 (Database issue), pp.D754-60. ⟨10.1093/nar/gkr1126⟩. ⟨hal-00746861⟩
