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Re: BioRDF Telcon

From: Nigam Shah <nigam@stanford.edu>
Date: Tue, 1 Sep 2009 14:37:14 -0700
Message-ID: <352cf0db0909011437l3575e9e5wb591f9674ce1a369@mail.gmail.com>
To: Maryann Martone <maryann@ncmir.ucsd.edu>
Cc: Helen Parkinson <parkinso@ebi.ac.uk>, Kei Cheung <kei.cheung@yale.edu>, HCLS <public-semweb-lifesci@w3.org>, tomasz.adamusiak@gmail.com, Fahim Imam <smtifahim@gmail.com>
NIFSTD is there: http://bioportal.bioontology.org/ontologies/40510 last
updated 8/18 and browsable at:
http://bioportal.bioontology.org/visualize/40510 .. though because of the
imports it "looks" ugly [all the name spaces show up]. All the content is
there I believe.
Regards,
Nigam.

On Tue, Sep 1, 2009 at 12:25 PM, Maryann Martone <maryann@ncmir.ucsd.edu>wrote:

> It is there.  I know that Fahim uploaded the latest;  I don't know if it's
> exposed yet.  The BIoportal has had some troubles with the modular design,
> but I think most have been worked out
>
>
> On Sep 1, 2009, at 12:12 PM, Helen Parkinson wrote:
>
>  Having the NIFSTD in bioportal would be ideal, we will always defer to NIF
>> for neuroscience terms,
>>
>> best
>>
>> Helen
>>
>> Kei Cheung wrote:
>>
>>> Nigam Shah wrote:
>>>
>>>> On Tue, Sep 1, 2009 at 6:37 AM, Helen Parkinson <parkinson@ebi.ac.uk<mailto:
>>>> parkinson@ebi.ac.uk>> wrote:
>>>>
>>>>   The performance depends largely on how well the ontology is
>>>>   aligned with the input data, for this reason we developed our own
>>>>   ontology.
>>>>
>>>> This is very true. However, if there is already an existing ontology
>>>> that matches the input data well (e.g. the NCI Thesaurus in case of Tissue
>>>> Microarray Annotations in TMAD (http://tma.stanford.edu/) .. then its
>>>> possible to use the annotator tool at NCBO (
>>>> http://bioportal.bioontology.org/annotate).
>>>>
>>>> Regards,
>>>> Nigam.
>>>>
>>> I notice that EFO is accessible through BioPortal. As the Neurolex group
>>> is in the process of updating NIFSTD, perhaps the new version of NIFSTD may
>>> also be made accessible through BioPortal when it's ready.
>>>
>>> Thanks,
>>>
>>> -Kei
>>>
>>>
>>
>
>
>
> Maryann Martone
> Professor-In-Residence
> Dept of Neurosciences
> University of California, San Diego
> San Diego, CA  92093-0446
> Tel:  858 822 0745
> Fax:  858 246 0644
>
>
>
>
>
Received on Tuesday, 1 September 2009 21:37:55 UTC

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