Resources for Data Contributors

Viewing ontologies

On the web

Many ontologies are available for browsing at the NCBO BioPortal. For example:

• Zebrafish anatomy and development
• PATO

Click the "Visualize" button on the ontology's homepage to browse it graphically.

The taxonomic ontology is not yet available, but it will be generated from the Catalog of Fishes.

On your desktop

You can download the ontologies as OBO files from the above web sites. You can download and install OBO-Edit to view in a desktop application.

Annotating phenotypes

PhenoMaP EQ Editor

We are working on a specialized EQ Editor for data curation. Until it is ready for use, EQ annotations can be created using Phenote.

Phenote

Phenote is used by ZFIN and FlyBase for mutant phenotype annotation.

• Launch Phenote using the webstart link.
• You can download a customized Phenote configuration file which is suited to our data. See the instructions on how to use a custom configuration.
• Save your files using the PhenoSyntax file format.