The Cell Ontology is designed as a structured controlled vocabulary for cell types. The ontology was constructed for use by the model organism and other bioinformatics databases, incorporating cell types from prokaryotes to mammals, and includes plants and fungi.

Prefix

cl

Preferred Prefix

CL

Keywords

anatomy annotation cell cell biology life science morphology obo ontology

Version

2024-08-16

License

CC-BY-4.0

Links

Homepage Repository OBO OWL

Contact

Alexander Diehl   0000-0001-9990-8331   addiehl

Pattern for Local Unique Identifiers

Local identifiers in Cell Ontology should match this regular expression:
^\d{7}$

Example Local Unique Identifier

0000062   Resolve

Pattern for CURIES

Compact URIs (CURIEs) constructed from Cell Ontology should match this regular expression:
^CL:\d{7}$

Example CURIE

CL:0000062

MIRIAM Namespace Embedded in LUI

The legacy MIRIAM standard for generating CURIEs with this resource annotates the namespaceEmbeddedInLUI as true. This means that you may see local unique identifiers that include a redundant prefix and delimiter (also known as a banana) and therefore look like a CURIE. For Cell Ontology, the banana looks like CL:. Therefore, you may see local unique identifiers for this resource that look like CL:0000062 (instead of the canonical form 0000062) and CURIEs for this resource that look like CL:CL:0000062 (instead of the canonical form CL:0000062). The Bioregistry will automatically strip off the banana when standardizing local unique identifiers and CURIEs.

Publications

• 2016 The Cell Ontology 2016: enhanced content, modularization, and ontology interoperability
• 2011 Logical development of the cell ontology

Contributors

• contributor Anita Caron   0000-0002-6523-4866   anitacaron

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

Depends On (7) (bioregistry.schema:0000017 )

CHEBI GO NCBITaxon PATO PR RO UBERON

Appears In (8) (bioregistry.schema:0000018 )

CLO ECAO EHDAA2 GO MCO PCL UBERON XPO

The metaregistry provides mappings between the Bioregistry and other registries. There are 14 mappings to external registries for this resource with 3 unique external prefixes.

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

http://purl.obolibrary.org/obo/CL_$1

A provider turns a local unique identifiers from a resource into a URI. Many providers are also resolvable as URLs (i.e., they can be used in a web browser).

The local unique identifier 0000062 is used to demonstrate the providers available for Cell Ontology. A guide for curating additional providers can be found here.

Additional providers curated in the Bioregistry are listed here. These are typically inherited from Identifiers.org or Prefix Commons, and need extra curation.