Annotated and Unannotated Ontologies

Two flavours of the eVOC ontologies are available for download - annotated and unannotated. The annotated versions list the cDNA libraries annotated to each term. The unannotated versions contain just the ontology terms. Each download contains all ten ontologies.

All the available data sets (ESTs, Unigene clusters, H-inv clusters, etc) are mapped to the ontology terms via the cDNAs. Thus if you're downloading data you probably want to get an annotated copy of the ontologies (otherwise you won't be able to connect the data to the ontology terms).

Unannotated ontologies can be downloaded from the ontology download page while the annotated ontologies can now be found on the data mappings download page.

Which Format to Download the Ontologies In?

GO and OBO

If you're wanting to view the ontologies in DAG-Edit (or OBO-Edit) you'll need the GO or OBO format. Unfortunately neither of these formats currently support annotations. Annotated ontologies are however available in an extension of the OBO format which we call OBOC (OBO plus cDNA libraries). OBOC files should load in programs which read OBO but are probably most useful if you have an OBO parser of your own and want to extend it to include reading in eVOC annotations.

OWL

We have two OWL formats available for download.

The first is the XSPAN OWL format. These files contain unannotated ontologies and conform to the OWL format used by XSPAN. They're what you want if you need to use the ontologies in Protege or COBrA.

The second is a homegrown OWL format. These can be read by Protege but not by COBrA (as far as we know). This is now essentially a legacy format but it is annotated so may still be useful to some users.

HTML and Tab-delimited

Those two formats have been deprecated in favor of OBO and RDF. Please contact us if your application requires either format.

RDF

An experimental RDF format currently undergoing development. They're provided mostly as a glimpse of what we're working on and the format may change somewhat before being finalised. We hope that the RDF format will eventually become eVOC's native format (although we will keep producing all other formats above, including the current native tab-delimited format).

Further Reading

You can find more detailed (but also more technical) file format descriptions on the file formats page.

---

Email Customer Support | Join eVOC Mailing List

Page last modified on June 13, 2007, at 02:36 PM