10.6084/m9.figshare.7346102.v1
Thierry Lombardot
Thierry
Lombardot
Anne Morgat
Anne
Morgat
Sebastien Gehant
Sebastien
Gehant
Nicole Redaschi
Nicole
Redaschi
Alan Bridge
Alan
Bridge
The Rhea SPARQL endpoint supports integrated analyses of genome, proteome and metabolome
Semantic Web Applications and Tools for Healthcare and Life Sciences
2018
Biochemical reactions
metabolites
RDF
Rhea
SPARQL
Organisation of Information and Knowledge Resources
Bioinformatics
Medical Biochemistry: Amino Acids and Metabolites
2018-12-01 20:39:20
Journal contribution
https://swat4hcls.figshare.com/articles/journal_contribution/The_Rhea_SPARQL_endpoint_supports_integrated_analyses_of_genome_proteome_and_metabolome/7346102
‘Omics technologies enable comprehensive analyses of how genetic variation (genomics), gene expression patterns (transcriptomics), proteins and complexes (proteomics), and small molecules (metabolomics) interact in complex biological systems. RDF and SPARQL can connect these ‘omics domains and help us realize the full potential of this valuable experimental data. Rhea is a comprehensive and non-redundant resource of expert-curated biochemical reactions based on the ChEBI ontology. Here we demonstrate how to link genome (Ensembl), proteome (UniProt), and metabolome (ChEBI) data using federated queries that leverage the SPARQL endpoint of Rhea (https://sparql.rhea-db.org/sparql) and data from these other resources.