COGs stands for Clusters of Orthologous Genes. The database was initially created in 1997 (Tatusov et al., PMID: 9381173) followed by several updates, most recently in 2014 (Galperin et al., PMID: 25428365). The current update includes complete genomes of 1,187 bacteria and 122 archaea that map into 1,234 genera. The new features include ~250 updated COG annotations with corresponding references and PDB links, where available; new COGs for proteins involved in CRISPR-Cas immunity, sporulation, and photosynthesis, and the lists of COGs grouped by pathways and functional systems.
- Prefix
cog.cluster- Alternative Prefixes
- cog COG_Cluster
- Keywords
- genome life science ontology ortholog protein
- Links
- Homepage OWL Part of cog
- Publications
- 1997 A genomic perspective on protein families
- 2014 Expanded microbial genome coverage and improved protein family annotation in the COG database
Identifier Standards
- Pattern for Local Unique Identifiers
-
Local unique identifiers in Cluster of orthologous genes should match this
regular expression:
^COG\d+$ - Example Local Unique Identifier
- COG0001 Resolve
- Pattern for CURIES
-
Compact URIs (CURIEs) constructed from Cluster of orthologous genes should match
this regular expression:
^cog\.cluster:COG\d+$ - Example CURIE
- cog.cluster:COG0001
Contacts
- Contact
-
Michael Y Galperin
0000-0002-2265-5572
- Identifier Space Owner
-
National Center for Biotechnology Information
- Contributor
-
creator
Charles Tapley Hoyt
0000-0003-4423-4370
cthoyt
Mappings to External Registries
Mappings from records in Semantic Farm to external registries comprises the metaregistry. This resource has 8 mappings to external registries with 3 unique external prefixes.
| Registry Name | Registry Metaprefix | External Prefix | Curate |
|---|---|---|---|
AberOWL
|
aberowl |
COG
|
|
Biolink
|
biolink |
COG
|
|
BioPortal
|
bioportal |
COG
|
|
FAIRSharing
|
fairsharing |
FAIRsharing.djsbw2
|
|
GO
|
go |
COG_Cluster
|
|
Identifiers.org
|
miriam |
cog
|
|
Prefix Commons
|
prefixcommons |
cog
|
|
| TogoID | togoid |
Cog
|
Providers
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 COG0001 is used to demonstrate the providers
available for Cluster of orthologous genes. Some providers may use a different example, which is displayed in the table below.
A guide for curating additional providers can be found
here.
| Provider Name | Provider Code | URI |
|---|---|---|
| Cluster of orthologous genes | cog.cluster |
https://www.ncbi.nlm.nih.gov/research/cog/cog/COG0001 |
| Bioregistry | bioregistry |
https://bioregistry.io/cog.cluster:COG0001 |
| Identifiers.org | miriam |
https://identifiers.org/cog:COG0001 |
Extra Providers
Additional providers curated in the Semantic Farm are listed here. These are typically inherited from Identifiers.org or Prefix Commons, and need extra curation.
| Provider Name | Provider Code | URL |
|---|---|---|
| Bio2RDF | bio2rdf |
http://bio2rdf.org/cog:COG0001 |