HAO to
From HAO Wiki
Contents |
How do I contribute to the HAO?
How do I utilize the HAO?
- Much of the core content is available at the Hymenoptera Anatomy Ontology Portal, the primary public interface of the underlying HAO database.
- There are a series of use cases being outlined.
How do I cite the HAO?
Original publication
The HAO was introduced in this publication:
Yoder MJ, Mikó I, Seltmann KC, Bertone MA, Deans AR, 2010 A Gross Anatomy Ontology for Hymenoptera. PLoS ONE 5(12): e15991. doi:10.1371/journal.pone.0015991
The HAO homepages (these pages)
Hymenoptera Anatomy Consortium. The Hymenoptera Anatomy Ontology Hompage: Accessed on some time. Available at http://purl.oclc.org/NET/hymontology
In taxonomic or other descriptive text
Note that methods for including linkages to ontologies in published papers are in their infancy. Please anticipate that the following recommendations will evolve.
In a materials and methods section
It's important that the reader understand the role that links provided in digital descriptions are playing- are they simply to enhance the paper for the reader or to provide semantic enhancements that are digitally consumed? Referencing HAO concepts is analogous to providing a GenBank number in your paper. That Genbank identifier can be used in a wide range of different portals to return the exact sequence being referenced, or utilized in other manners (e.g. in a Blast search). The Hymglossary ([1]) is only one such portal with which a HAO id can be used, for example others include Bioportal (http://bioportal.bioontology.org/) and Ontobee (http://www.ontobee.org/browser/index.php?o=HAO). Providing a HAO concept id (e.g. HAO:0123456) in the form of a URI (e.g. http://purl.obolibrary.org/obo/HAO_0000124) will enable additional linkages to ultimately be realized through software based parsing and reasoning. These URIs present resolve to the preferred OBO Foundry portal, Ontobee.
To reference the HAO's concepts in a taxonomic paper some discussion of the role of the links might be relevant to readers, the following is provided as an example and can be reproduced or modified as necessary:
The version URI can be found in the OWL file, it looks like this:
<owl:versionIRI rdf:resource="http://purl.obolibrary.org/obo/hao/2012-05-03/hao.owl"/>
Provide this: 'http://purl.obolibrary.org/obo/hao/2012-05-03/hao.owl' part.
Creating links to the HAO's web-based resources in documents
References to particular concepts (structures/anatomy) in the HAO can be made independent of the labels used for those concepts. This allows users to use whatever label/term for a particular feature/character while also linking to a definition which they feels best defines what they want to convey. A publication in press in the Journal of Hymenoptera Research documents a straightforward approach to referencing the HAO's anatomical concepts.
Including links to concepts in TaxPub or similar markup
to do
How do I find technical details on the HAO and OWL?
- The OWL generating script is here at github.
