[tdwg-tag] NCBI taxonomy in RDF

[Roderic Page]

Dear Kevin,

But the reality is that a taxon concept may have a rank that's not in  
the TDWG vocabulary (e.g., an informal rank), and existing name  
databases may disagree about the rank. For example, a nomenclator may  
have a name that was published as a subgenus, but a concept database  
(such as NCBI) may use it as a genus.

I guess I'm keen on capturing what is actually out there, not what  
ideally should be out their.

Regards

Rod

On 12 Jul 2009, at 06:59, Kevin Richards wrote:

> I suspect the rankString (as well as the rank property) was  
> deprecated from the TaxonConcept class because the rank and  
> rankString properties are also on the TaxonName class (http://rs.tdwg.org/ontology/voc/TaxonName 
> ), where it is far more appropriate to have them - ie Taxon Concepts  
> are not the best place to put rank info.
>
> Kevin
>
> ________________________________________
> From: tdwg-tag-bounces at lists.tdwg.org [tdwg-tag- 
> bounces at lists.tdwg.org] On Behalf Of Roderic Page [r.page at bio.gla.ac.uk 
> ]
> Sent: Sunday, 12 July 2009 5:25 a.m.
> To: Technical Architecture Group mailing list
> Subject: [tdwg-tag] NCBI taxonomy in RDF
>
> I've been playing with expressing the NCBI taxonomy in TDWG RDF. The
> results are described at http://iphylo.blogspot.com/2009/07/ncbi-rdf.html
>  (see also http://iphylo.blogspot.com/2009/07/ncbi-taxonomy-tdwg-vocabularies-and-rdf.html
>  for some background).
>
> It's still incomplete (I've not put links up and down the tree yet),
> but for now the focus is on expressing links to nomenclators that
> support LSIDs (such as IPNI and Index Fungorum) so that I can annotate
> the NCBI taxonomy via SPARQL queries.
>
> One minor comment, the property "rankString" has been deprecated
> (apparently), but it makes sense to retain this as there may well be
> ranks that a classification has that aren't in the TDWG vocabulary.
> Hence, I'd be keen for this NOT to be deprecated.
>
> Regards
>
> Rod
>
> ---------------------------------------------------------
> Roderic Page
> Professor of Taxonomy
> DEEB, FBLS
> Graham Kerr Building
> University of Glasgow
> Glasgow G12 8QQ, UK
>
> Email: r.page at bio.gla.ac.uk
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>
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---------------------------------------------------------
Roderic Page
Professor of Taxonomy
DEEB, FBLS
Graham Kerr Building
University of Glasgow
Glasgow G12 8QQ, UK

Email: r.page at bio.gla.ac.uk
Tel: +44 141 330 4778
Fax: +44 141 330 2792
AIM: rodpage1962 at aim.com
Facebook: http://www.facebook.com/profile.php?id=1112517192
Twitter: http://twitter.com/rdmpage
Blog: http://iphylo.blogspot.com
Home page: http://taxonomy.zoology.gla.ac.uk/rod/rod.html