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Re: ISMB/ECCB2007 Demo Acceptance

From: M. Scott Marshall <marshall@science.uva.nl>
Date: Tue, 19 Jun 2007 09:54:12 +0200
Message-ID: <46778BA4.5050609@science.uva.nl>
To: William Bug <William.Bug@DrexelMed.edu>
CC: Alan Ruttenberg <alanruttenberg@gmail.com>, public-semweb-lifesci hcls <public-semweb-lifesci@w3.org>

Thanks for the suggestion Bill. As I've mentioned before, I think that 
the addition of a spatialization mapping (ala visualization) would 
broaden the appeal of the demo and interest more people from the wet lab 
and clinical areas with a tangible (visible) example.

-scott

-- 
M. Scott Marshall
http://staff.science.uva.nl/~marshall
http://adaptivedisclosure.org

Alan Ruttenberg wrote:
> I think it would be good to show this at the demo - it demonstrates that 
> "view source" is effective for the semantic web.
> -Alan
> 
> On Jun 18, 2007, at 2:24 AM, William Bug wrote:
> 
>> I will not be able to attend, unfortunately.
>>
>> However, the Mouse BIRN Atlas Toolkit (MBAT) contributing programmers 
>> have succeeded in using some of the demo (the Allan Brain Atlas (ABA) 
>> RDF repository and GoogleMaps/JS-HTML template Alan created) to 
>> integrate ABA data in a semantically relevant manner into the MBAT 
>> atlasing environment.  I was able to quickly Skype Alan in last week 
>> as they demo'd this for the Mouse BIRN group.  I think it would be a 
>> wonderful example of how SemWeb made it possible for BIRN to achieve a 
>> "lite" integration of a complex, related image repository (ABA) with 
>> the primary cost being to learn how to use Jena for SPARQL queries and 
>> to enhance Alan's original GoogleMaps/JS-HTML template by running it 
>> in Java HTML Browser where they could also include thumbnails of the 
>> entire coronal or sagittal series - as well as links to the 
>> NeuroCommons "related literature" repository.  These were all 
>> experienced Java coders (really two lead programmers) who started with 
>> NO knowledge of RDF or SemWeb Tech in late April while working on many 
>> other tasks in parallel.  Given the glacial pace some of these joint 
>> neuroinformatics projects move at, I think what they were able to 
>> achieve with a hours invested per week over several weeks is truly 
>> quite remarkable.
>>
>> If others feel it's relevant, this could be added to the ISMB demo as 
>> an example  of how quickly others have been able to make effective use 
>> of this SemWeb demo application.
>>
>> This will certainly be shown at the Society for Neuroscience Mouse 
>> BIRN MBAT presentations in November, as will use of the exact same 
>> interface against other multi-resolution image pyramids (the Zoomify 
>> format used by ABA) collected in other Mouse BIRN related projects 
>> such as the Cell-Centered Database (CCDB) and the Mouse Brain Library 
>> (MBL) projects.
>>
>> Please let me know whether you think it would be appropriate to 
>> include this in the ISMB demo, and I'll have the MBAT folks get in touch.
>>
>> Cheers,
>> Bill
>>
>> On Jun 16, 2007, at 10:47 AM, Eric Neumann wrote:
>>
>>> Eric,
>>>
>>> It is planned to be the same demo with a few additions to the query, 
>>> including some additional visualizations.
>>>
>>> Folks on the HCLSIG mailing list, please add your name to the 
>>> following page if you are planning to attend ISMB2007: 
>>> http://esw.w3.org/topic/HCLS/ISMB2007
>>>
>>> We will use this to coordinate plans...
>>>
>>> Eric
>>>
>>>
>>> -----Original Message-----
>>> From: public-semweb-lifesci-request@w3.org 
>>> <mailto:public-semweb-lifesci-request@w3.org> on behalf of Eric Jain
>>> Sent: Sat 6/16/2007 11:21 AM
>>> To: public-semweb-lifesci@w3.org <mailto:public-semweb-lifesci@w3.org>
>>> Subject: Re: Fwd: ISMB/ECCB2007 Demo Acceptance
>>>
>>>
>>> Eric Neumann wrote:
>>> > We have been given a slot to show the HCLS demo there (see below), so
>>> > for those of you planning to be at ISMB next month, please be sure to
>>> > attend/participate.
>>>
>>> Great, I'll be there -- provided it doesn't overlap with my own demo :-)
>>>
>>> Is it the same demo that was presented in Banff, or is it being updated?
>>>
>>> btw would be interesting to know who is attending ISMB/ECCB/BOSC etc!
>>>
>>>
>>>
>>>
>>
>>
>>
>> Bill Bug
>> Senior Research Analyst/Ontological Engineer
>>
>> Laboratory for Bioimaging  & Anatomical Informatics
>> www.neuroterrain.org
>> Department of Neurobiology & Anatomy
>> Drexel University College of Medicine
>> 2900 Queen Lane
>> Philadelphia, PA    19129
>> 215 991 8430 (ph)
>> 610 457 0443 (mobile)
>> 215 843 9367 (fax)
>>
>>
>> Please Note: I now have a new email - William.Bug@DrexelMed.edu 
>> <mailto:William.Bug@DrexelMed.edu>
Received on Tuesday, 19 June 2007 07:53:45 GMT

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