To support practical application and mapping
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| Document Title: | Guidelines for Best Practice to support Application and Mapping of Ontologies |
Brief Description: | These best practice guidelines are designed to check how suitable source ontologies are for mapping. It places emphasis on the application of ontologies in the Life Science industry to encourage best practice and to aid mapping of ontologies in a particular domain. This public resource was developed as part of the Pistoia Alliance Ontologies Mapping project. |
| Prepared by: | Ian Harrow and the The Pistoia Alliance Ontologies Mapping project Project team |
| Date: | 7th April 2016 |
| Version: | 1.2 |
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Many ontologies in the Disease, Phenotype and Experimental Investigation domains have textual definitions (vocabulary) for class terms which makes them more likely to bring unique value for application. A high proportion of quality textual definitions will facilitate interoperability through mapping the meaning (semantics) of equivalence in different ontologies.
3.13. Naming conventions
Naming conventions used by ontology providers tend to be a heterogeneous and inconsistent. This is because names emerge often in an ad hoc manner rather than through an agreed nomenclature. Of course there are exceptions which are much more mature and consistent, such as the HUGO Gene Nomenclature Committee which provides the authoritative source of human gene names (http://www.genenames.org). Another excellent example is Chemical Entities of Biological Entities (ChEBI) which started as a curated nomenclature for small molecules and has developed into a mature ontology in the OBO Foundry. The OBO principle wiki page, FP_012_naming_conventions (http://wiki.obofoundry.org/wiki/index.php/FP_012_naming_conventions) is under development and mostly mentions the publication entitled "Survey-based naming conventions for use in OBO Foundry ontology development” by Schober et al 2009 (http://www.biomedcentral.com/1471-2105/10/125). This guideline aligns with Malone et al 2016 Rule 5: Textual Definitions Should Be Written for Domain Experts.
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