eVOC Ontologies v1.8
Contents
Summary of eVOC v1.8
The data mapped was taken from Genbank release 140 (20/02/2004) and daily updates up to and including 05/04/2004.
| Ontology | Numbers of Terms | Annotated cDNA Libraries1 |
|---|
| Anatomical System | 376 | 7656 (92%) |
| Cell Type | 158 | 571 (7%)2 |
| Developmental Stage | 155 | 6626 (80%) |
| Pathology | 164 | 6938 (84%) |
| Pooling | 9 | 4881 (59%) |
Total number of annotated cDNA libraries:
8274
Notes:
- All cDNA libraries are mapped to each ontology but are only considered annotated if they are mapped to terms other than unclassifiable or pending.
- Many cDNA libraries are not annotated with specific cell type information and are therefore mapped to unclassifiable.
Download eVOC v1.8 Ontologies
Two flavours of the eVOC ontologies are available for download - annotated and unannotated. The annotated versions list the cDNAs annotated to each term. The unannotated versions contain just the ontology terms. Each download contains all five 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).
If you're wanting to view the ontologies in
DagEdit you'll need the GO or OBO format. Unfortunately neither of these formats currently support annotations. In eVOC 1.8 annotations where put into the OBO format using dbXref (external database) tags. However, it was decided that this was an abuse of the dbXref tag and the annotations were removed in later releases.
If you have
Protege and its OWL plugin, you can download the OWL versions of the ontologies which do contain the cDNA annotations. You can also use the OWL version in
COBrA.
Ontologies:
- eVOC tab-delimited flatfile format [1] (7K)
- GO flatfile format [2] (9K)
Annotated Ontologies:
- eVOC tab-delimited flatfile format [3] (15M)
- OBO file format [4] (325K)
- OWL format [5] (467K)
- HTML format [6] (330K)
