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From "genes" to "phenotype": linking organism names in NCBI to their taxonomic descriptions in the biodiversity literatue
Issue
Organisms (taxa in taxonomic language) in NCBI implicitly relate to a currently accepted name in the taxonomic world, where those taxa have been established in a scientific article. However, many of those taxa have been undergoing a change in their naming history which involves often many variants, from synonyms, the original combination, to misidentifications. Synonymic lists are contained in nomenclators (name services). They allow two essential services: to find out for any given name what the currently accepted name is, and, relevant in this context, the links to the taxonomic treatment via the bibliographic citation, or more recently a persistent idnentifier. This allows to retrieve all the content published on any of the names, and thus to have at once all the published information available. The inclusion of synonyms thus allows to expand the amount of linked data for any of the taxa in NCBI.
Use case
Anochetus grandidieri (Ant from Madagascar)
NCBI Taxonomy
ID: 269309
Other names:
synonym: Anochetus sp. BLF m2
synonym: Anochetus madecassus
synonym: Anochetus grandidieri Forel, 1891
Name server
for ants: Hymenoptera Name Server
ID 25263
http://hol.osu.edu/index.html?id=25263
other names
Include links to your demo and/or source code.
Data
- List and link your actual and ideal data sources.
Team
- Elena Mastrandrea, HTW Chur
- Philipp Kuntschik, HTW Chur
- Terry Catapano, Plazi
- Guido Sautter, Plazi
Links
- Relevant documentation …
- Blog or forum posts …
- Tools you used …