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

Re: BioRDF Telcon

From: Kei Cheung <kei.cheung@yale.edu>
Date: Tue, 01 Sep 2009 14:51:49 -0400
To: Helen Parkinson <parkinson@ebi.ac.uk>
Cc: HCLS <public-semweb-lifesci@w3.org>, "tomasz.adamusiak@gmail.com" <tomasz.adamusiak@gmail.com>, Maryann Martone <maryann@ncmir.ucsd.edu>
Message-id: <4A9D6D45.1000507@yale.edu>
Hi Helen,

Thanks for circulating the link to EFO and the associated mapping 
application. For annotating neuroscience microarray experiments, for 
example, we need a rich-enough collection of neuroscience concepts and 
relationships. I hope your interaction with the neurolex group will help 
in this regard.

Best,

-Kei

Helen Parkinson wrote:
> One of my action items following the call was to circulate a link to a 
> text-ontology mapping application
>
> https://sourceforge.net/projects/efo/files/
>
> It's a perl implementation of the metaphone algorithm and we use it to 
> map free text values entered via our older annotation tools to 
> ontology terms vs an OWL or OBO format ontology. The performance 
> depends largely on how well the ontology is aligned with the input 
> data, for this reason we developed our own ontology. It's being used 
> in EBI and also by colleagues at UPenn
>
> Comments and questions welcome, Tomasz Adamusiak is the developer and 
> cc'd if there are any questions
>
> thanks
>
> Helen
>
> Kei Cheung wrote:
>> The minutes of today's BioRDF call are available at:
>>
>> http://esw.w3.org/topic/HCLSIG_BioRDF_Subgroup/Meetings/2009/08-31_Conference_Call 
>>
>>
>> Thanks to:
>>
>> Helen for giving a report on neuroscience mciroarray data curation;
>> Sudeshna for giving an informative presentation;
>> Lena for scribing.
>>
>> Cheers,
>>
>> -Kei
>>
>> Kei Cheung wrote:
>>> This is a reminder that the next BioRDF telcon. call will be held at 
>>> 11 am EDT (5 pm CET) on Monday, August 31 (see details below).
>>>
>>> The description of the microarray use case is available at:
>>>
>>> http://esw.w3.org/topic/HCLSIG_BioRDF_Subgroup/QueryFederation2
>>>
>>> Cheers,
>>>
>>> -Kei
>>>
>>> == Conference Details ==
>>> * Date of Call: Monday August 31, 2009
>>> * Time of Call: 11:00 am Eastern Time
>>> * Dial-In #: +1.617.761.6200 (Cambridge, MA)
>>> * Dial-In #: +33.4.89.06.34.99 (Nice, France)
>>> * Dial-In #: +44.117.370.6152 (Bristol, UK)
>>> * Participant Access Code: 4257 ("HCLS")
>>> * IRC Channel: irc.w3.org port 6665 channel #hcls (see 
>>> [http://www.w3.org/Project/IRC/ W3C IRC page] for details, or see 
>>> [http://cgi.w3.org/member-bin/irc/irc.cgi Web IRC])
>>> * Duration: ~1 hour
>>> * Frequency: bi-weekly
>>> * Convener: Kei Cheung
>>>
>>> == Agenda ==
>>> * Roll call and introduction (Kei)
>>> * HCLS KB update (Matthias, Adrian)
>>> * Update on neuroscience microarray data curation (Helen) * 
>>> Presentation: "Semantic Annotation of Genomics Experiments" (Sudeshna)
>>> * Q&A and discussion (All)
>>>
>>>
>>>
>>
>>
>
Received on Tuesday, 1 September 2009 18:52:59 UTC

This archive was generated by hypermail 2.4.0 : Friday, 17 January 2020 17:20:45 UTC