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Re: Is there an NCBI taxonomy in OWL ?

From: Lee Feigenbaum <lee@thefigtrees.net>
Date: Fri, 27 Feb 2009 11:39:20 -0500
Message-ID: <49A81738.1040306@thefigtrees.net>
To: Kei Cheung <kei.cheung@yale.edu>
CC: erant@psb.vib-ugent.be, public-semweb-lifesci hcls <public-semweb-lifesci@w3.org>
Slides from the C-SHALS HCLS tutorial(s) are available at:

http://esw.w3.org/topic/HCLS/CSHALS2009/Tutorial

Thanks to Susie for pulling everything together.

Lee

Kei Cheung wrote:
> 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 16:40:29 GMT

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