This page describes the various versions of Gene Ontology available for download. Note that there are some changes to download locations.
|go-basic.obo||http://purl.obolibrary.org/obo/go/go-basic.obo||Filtered, for use with legacy tools|
|go.obo||http://purl.obolibrary.org/obo/go.obo||Core ontology (OBO Format)|
|go.owl||http://purl.obolibrary.org/obo/go.owl||Core ontology (OWL RDF/XML)|
|extensions/go-plus.owl||http://purl.obolibrary.org/obo/go/extensions/go-plus.owl||Core plus additional axioms, vetted|
This is the basic version of the GO filtered such that the graph is guaranteed to be acyclic, and annotations can be propagated up the graph. The relations included are is_a, part_of, regulates, negatively_regulates and positively_regulates. This version excludes relationships that cross the 3 main GO hierarchies. This is the version that should be used with most GO-based annotation tools.
go.obo and go.owl
These files contain the core GO ontology in two formats, OBO and OWL-RDF/XML. This view includes relationships not in the filtered version of GO including has_part and occurs_in. The set of relationships used is likely to extend over time. Many of these relationships may not be safe for propagating annotations across, so this version should not be used with legacy GO tools. This version currently excludes relationships to external ontologies.
This is the fully axiomatised of the GO. It includes cross ontology relationships (axioms) and imports additional required ontologies including ChEBI, cell ontology and Uberon. It also includes a complete set of relationship types including some not in go.obo/go.owl. This version is only available in OWL.
GO slims are subsets of terms in the ontology. GO slims give a broad overview of the ontology content without the detail of the specific fine grained terms. More information in the GO slim guide. The slims are named according to the focus or application of the slim; e.g. the Pombe slim contains terms particularly useful when annotating S. pombe; the generic slim is suitable for most applications and has no species bias.
The current list of supported slims is:
For internal checking purposes we also provide two "anti-slims":
- Do not annotate -- the set of high level terms that are useful for grouping, but should have no direct annotations
- Do not manually annotate -- as above, but it's permitted for automated tools to make direct annotations to these
Mappings of GO to other classification systems
GO classes have been mapped to a number of other, external, classification systems. Click here to view and download these mappings.
The GO is also available in a number of other formats. These other formats are not recommended for new applications, but as many existing applications rely on these downloads we will continue to support them. For users of the GO-RDF/XML version of the ontology, we recommend the OWL RDF/XML version (see above). For OWL users, we continue to support the legacy obo2owl translation, but users are strongly encouraged to switch to the new translation (see above).
|MySQL database dump [database schema]||Filtered ontology||Daily||MySQL database dump|
|SQL database dump [database schema]||Filtered ontology||Daily||SQL database dump|
|RDF-XML [format guide]||Filtered ontology||Daily||rdf-xml.gz|
|OBO-XML [format guide; OBO-XML RNC; OBO-XML RNG]||Filtered ontology||Daily||obo-xml.gz|
|OWL (old mapping) [format guide]||Filtered ontology||Daily||owl.gz|
Archives and previous versions
An archive of the ontology files (in both current and legacy formats) from the first of each month is available on the GO website, or by downloading previous revisions of the ontology files via the GO web CVS interface, or from the directory go/ontology/ in the GO CVS repository.