[Tdwg-guid] LSIDs for PubMed, GenBank, and NCBI Taxonomy

Roderic Page r.page at bio.gla.ac.uk
Sat May 6 12:12:13 CEST 2006

The web server that hosts most of my LSID work (including the Taxonomy  
Search Engine) got hacked recently. Rebuilding it is taking time, but  
one positive outcome is I'm trying to clean up some LSID stuff.

I've rebuilt the LSID authority for PubMed, GenBank, and NCBI taxonomy  
(by hacking Roger Hyam's PHP code - IBM's Perl stack is giving me grief  
on a Fedora Core 4 box). These are, of course, experimental, but  
hopefully the RDF will be of interest. I've tried to use standard  
vocabularies, and link  between records wherever possible (e.g., a  
PubMed record for a paper will list sequences referred to in that  
paper, a sequence will link back to the paper in which it was  
published, etc.). I've set this up partly to support my attempt to  
build a triple store for ants (see  
which I hope to have running in time for GUID2.

You can try out the LSIDs, which have the form

urn:lsid:ncbi.nlm.nih.gov.lsid.zoology.gla.ac.uk:   pubmed or gi or  
taxon : id





There's a lot more which could be added to the metadata, but I hope  
this is of interest.



Professor Roderic D. M. Page
Editor, Systematic Biology
Graham Kerr Building
University of Glasgow
Glasgow G12 8QP
United Kingdom

Phone:    +44 141 330 4778
Fax:      +44 141 330 2792
email:    r.page at bio.gla.ac.uk
web:      http://taxonomy.zoology.gla.ac.uk/rod/rod.html
reprints: http://taxonomy.zoology.gla.ac.uk/rod/pubs.html

Subscribe to Systematic Biology through the Society of Systematic
Biologists Website:  http://systematicbiology.org
Search for taxon names: http://darwin.zoology.gla.ac.uk/~rpage/portal/
Find out what we know about a species: http://ispecies.org
Rod's rants on phyloinformatics: http://iphylo.blogspot.com

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