On Feb 26, 2009, at 7:03 PM, Kei Cheung wrote:
I gave the following neuroscience URI examples in my biordf talk at
C-SHALS yesterday.
http://dbpedia.org/resource/Dopamine_receptor
http://purl.org/ycmi/senselab/
neuron_ontology.owl#Dopaminergic_Receptor
http://purl.org/nif/ontology/NIF-Molecule.owl#nifext_5832
I pointed out that the last one might be a possible solution. There
might be hope. :-)
Actually, I think the last one is changing to
http://ontology.neuinfo.org/NIF/BiomaterialEntities/NIF-Molecule.owl#nifext_5832
There is also FMA:61811 "Dopamine receptor", and it's various
translations to URIs, including http://purl.org/obo/owl/FMA#FMA_61811
PRO has various classes such as DR(1)-like, but PRO is a structural
classification, whereas dopanine receptor is a functional
classification. GO:0004952 "dopamine receptor activity" is the
relevant functional classification. So I would suggest all the various
URIs for DR state an equivalence to PRO:000000001 [protein] that
has_function some GO:0004952, which will allow reasoners to determine
equivalence between them all, plus you get the cognate representations
of all the UniProt records for DRs for free.
-Kei
Alan Ruttenberg wrote:
So I count three different sets of URIs for NCBI taxonomy so far. :(
-Alan
On Fri, Feb 27, 2009 at 11:37 AM, Chris Mungall
<c...@berkeleybop.org> wrote:
also..
part of the NCBI taxonomy is in NIF Organism:
http://ontology.neuinfo.org/NIF/BiomaterialEntities/NIF-Organism.owl
See also:
https://wiki.neuinfo.org/xwiki/bin/view/Main/NIFSTDoverview
http://neuinfo.org
On Feb 25, 2009, at 4:17 PM, andrea splendiani (RRes-Roth) wrote:
Thanks!
It'2 240M, but compressed is only 9.
I wonder whether there is some architecture to transparently
transfer
compressed ontologies...
Ciao,
Andrea
-----Original Message-----
From: Chris Mungall [mailto:c...@berkeleybop.org]
Sent: 25 February 2009 20:53
To: andrea splendiani (RRes-Roth)
Cc: public-semweb-lifesci hcls
Subject: Re: Is there an NCBI taxonomy in OWL ?
On Feb 25, 2009, at 11:58 AM, Andrea Splendiani wrote:
Hi,
I was looking for an NCBI Taxnomoy in OWL, but I didn't find it
(or
better, could find fragment from other projects...)
What is strange though, is that on the obo foundry website
(berkeleybop.org/ontologies) there are notes on the ncbi taxonomy
representation in owl... but not the representation itself.
Temporarily dropped from the summary page but still available at
the
usual URL
http://purl.org/obo/owl/NCBITaxon
(warning: large..)
Does anybody have some hint about where I can fin an OWL version ?
Or even an RDF version ? Even better would a sparql endpoint
containing it...
best,
Andrea Splendiani
