Registry Bioinformatics operations, data types, formats, identifiers and topics

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
Version
2019-07-17
Links
Homepage OWL
Contact
edam@elixir-dk.org
Pattern for Local Unique Identifiers

Local identifiers in Bioinformatics operations, data types, formats, identifiers and topics 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 Bioinformatics operations, data types, formats, identifiers and topics should match this regular expression:
^edam:(data|topic|operation|format)\_\d{4}$

Example CURIE
edam:data_1664
Metaregistry

The metaregistry provides mappings between the Bioregistry and other registries. There are 6 mappings to external registries for edam.

Registry Name Metaprefix External Prefix
BioPortal Prefixes bioportal EDAM
Identifiers.org miriam edam
Name-to-Thing n2t edam
Ontology Lookup Service ols edam
OntoBee ontobee EDAM
Prefix Commons prefixcommons EDAM
Providers

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

Name Metaprefix URI
Bioinformatics operations, data types, formats, identifiers and topics edam https://www.ebi.ac.uk/ols/ontologies/edam/terms?iri=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