EDAM is an ontology of general bioinformatics concepts, including topics, data types, formats, identifiers and operations. EDAM provides a controlled vocabulary for the description, in semantic terms, of things such as: web services (e.g. WSDL files), applications, tool collections and packages, work-benches and workflow software, databases and ontologies, XSD data schema and data objects, data syntax and file formats, web portals and pages, resource catalogues and documents (such as scientific publications).

Prefix
edam
Keywords
analysis bioinformatics data acquisition data transformation life science obo ontology subject agnostic
Links
Homepage Repository OBO OWL @edamontology
Contact
Matúš Kalaš   0000-0002-1509-4981   matuskalas
Pattern for Local Unique Identifiers

Local identifiers in EDAM Ontology should match this regular expression:
^(data|topic|operation|format)\_\d{4}$

Example Local Unique Identifier
data_1664   Resolve
Pattern for CURIES

Compact URIs (CURIEs) constructed from EDAM Ontology should match this regular expression:
^edam:(data|topic|operation|format)\_\d{4}$

Example CURIE
edam:data_1664
Publications
Ontology

A summary of the relations in the Bioregistry schema can be found here.

Has Parts (bfo:0000051 )
edam.data edam.format edam.operation edam.topic
Metaregistry EDAM Ontology

The metaregistry provides mappings between the Bioregistry and other registries. There are 10 mappings to external registries for this resource with 2 unique external prefixes.

Registry Name Registry Metaprefix External Prefix Curate
AberOWL AberOWL logo aberowl EDAM
AgroPortal AgroPortal logo agroportal EDAM
BioContext biocontext EDAM
BioPortal BioPortal Prefixes logo bioportal EDAM
FAIRSharing FAIRSharing logo fairsharing FAIRsharing.a6r7zs
Identifiers.org Identifiers.org logo miriam edam
N2T Name-to-Thing logo n2t edam
OLS Ontology Lookup Service logo ols edam
OntoBee OntoBee logo ontobee EDAM
Prefix Commons Prefix Commons logo prefixcommons edam
RDF Information

When using this resource in RDF, the following URI format should be used:

http://edamontology.org/$1

Providers

Providers are various services that resolve CURIEs to URLs. The example CURIE edam:data_1664 is used to demonstrate the provides available for this resource. Generation of OLS and BioPortal URLs requires additional programmatic logic beyond string formatting.

Name Metaprefix URI
EDAM Ontology edam https://www.ebi.ac.uk/ols/ontologies/edam/terms?iri=http://edamontology.org/data_1664
EDAM Ontology (RDF) rdf http://edamontology.org/data_1664
Bioregistry bioregistry https://bioregistry.io/edam:data_1664
Identifiers.org miriam https://identifiers.org/edam:data_1664
Name-to-Thing n2t https://n2t.net/edam:data_1664
Extra Providers

Additional providers curated in the Bioregistry are listed here.

Code Name URL
bio2rdf Bio2RDF http://bio2rdf.org/edam:data_1664