W3C home > Mailing lists > Public > public-semweb-lifesci@w3.org > February 2009

Re: Is there an NCBI taxonomy in OWL ?

From: Kei Cheung <kei.cheung@yale.edu>
Date: Fri, 27 Feb 2009 07:38:48 -0500
Message-ID: <49A7DED8.9030201@yale.edu>
To: erant@psb.vib-ugent.be
CC: public-semweb-lifesci hcls <public-semweb-lifesci@w3.org>
I think the slides of the HCLS tutorial session at C-SHALS  might be 
availlable to public. The C-SHALS organizers (e.g., Susie) con confirm. 
If not, I can make my slides available through the BioRDF site.

Thanks,

-Kei

 Erick Antezana wrote:

>Kei,
>
>  would it be possible to get your slides? do you know if the material
>disucussed during the C-SHALS will be available?
>
>thanks,
>Erick
>
>  
>
>>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. :-)
>>
>>-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 <cjm@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:cjm@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
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>            
>>>>>>
>>>>>          
>>>>>
>>>>
>>>>        
>>>>
>>>
>>>      
>>>
>>
>>    
>>
>
>
>  
>
Received on Friday, 27 February 2009 12:42:42 GMT

This archive was generated by hypermail 2.3.1 : Tuesday, 26 March 2013 18:00:54 GMT