Links

Curation

• Phenoscape Guide to Character Annotation

Ontologies

National Center for Biomedical Ontology

• Ontologies from NCBO
• Ontology of Zebrafish Anatomy and Development
• Common Anatomy Reference Ontology (CARO) (also available in OWL format)
• Maintaining inter-ontology relations between species specific anatomy ontologies and CL/GO/CARO
• OBD Phenotype file formats - Includes standards and schemas for PhenoSyntax and PhenoXML
• Open Biomedical Data (OBD) data model, API, and other downloads

Fish resources

• Zebrafish Information Network (ZFIN)
• DeepFin
• All Catfish Species
• Digital Fish Library
• Catalog of Fishes
• FishBase

Morphology image database resources

• Morphbank
• MorphoBank
• Digimorph
• Morphster

Software

• Phenex
• OBO-Edit
• Ontology term request prototype https://www.nescent.org/phenoscape/ORB_TERM_REQUEST_PROTOTYPE

NCBO BioPortal support requests

Support (for issues) and feature requests for the NCBO BioPortal can be submitted through the following venues (according to Benjamin Dai, BioPortal Lead Software Architect):

• BioPortal 2.0 Tracker at the BMIR GForge installation
• Support email: support@bioontology.org

NCBO BioPortal User Group:

We are a (voting) member of the BioPortal User Group. The group has monthly teleconferences where new features are being discusses and subsequently prioritized through survey-voting.

• A Basecamp-based BioPortal project management site (login required) has User Group meeting presentations and other information.

Bibliography

We also maintain a list of references on Connotea, using the tag "phenoscape". This list may be more up-to-date than the bibliography below. Anyone can easily recommend references (and in fact any site or resource) to us simply by tagging it with "phenoscape" in Connotea.

<biblio>

1. rosen1974 Rosen DE. 1974. Phylogeny and zoogeography of salmoniform fishes and relationships of Lepidogalaxias salamandroides. Bulletin of the American Museum of Natural History 153:267-325.
2. finkfink1981 Fink SV, Fink WL. 1981. Interrelationships of the ostariophysan fishes (Teleostei). Zoological Journal of the Linnean Society 72(4):297-353.
3. finkfink1997 Fink, S.V. and W.L. Fink. 1997. Interrelationships of the Ostariophysi. In: Interrelationships of Fishes, M. Stiassney, L. Parenti and D. Johnson (Eds). Academic Press, 209-249.
4. schulz2007 pmid=17448242

</biblio>