Back to Search
Start Over
Enzyme annotation in UniProtKB using Rhea
- Source :
- Bioinformatics
- Publication Year :
- 2019
- Publisher :
- Oxford University Press (OUP), 2019.
-
Abstract
- MotivationTo provide high quality computationally tractable enzyme annotation in UniProtKB using Rhea, a comprehensive expert-curated knowledgebase of biochemical reactions which describes reaction participants using the ontology ChEBI (Chemical Entities of Biological Interest).ResultsWe replaced existing textual descriptions of biochemical reactions in UniProtKB with their equivalents from Rhea, which is now the standard for annotation of enzymatic reactions in UniProtKB. We developed improved search and query facilities for the UniProt website, REST API, and SPARQL endpoint that leverage the chemical structure data, nomenclature, and classification that Rhea and ChEBI provide.Availability and ImplementationUniProtKB at https://www.uniprot.org/; UniProt REST API at https://www.uniprot.org/help/api; UniProt SPARQL endpoint at https://sparql.uniprot.org/sparql; Rhea at https://www.rhea-db.org/.Contactanne.morgat@sib.swiss
- Subjects :
- Statistics and Probability
Computer science
Knowledge Bases
Chemical structure
Rheiformes
Databases and Ontologies
Ontology (information science)
Biochemistry
Enzyme catalysis
03 medical and health sciences
Annotation
0302 clinical medicine
Animals
Biochemical reactions
Databases, Protein
Molecular Biology
030304 developmental biology
chemistry.chemical_classification
0303 health sciences
Information retrieval
Extramural
030302 biochemistry & molecular biology
Original Papers
Computer Science Applications
Computational Mathematics
Enzyme
Computational Theory and Mathematics
chemistry
UniProt
030217 neurology & neurosurgery
Subjects
Details
- ISSN :
- 14602059 and 13674803
- Database :
- OpenAIRE
- Journal :
- Bioinformatics
- Accession number :
- edsair.doi.dedup.....094df19a76493513f1d0258b3b046420
- Full Text :
- https://doi.org/10.1093/bioinformatics/btz817