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Re: SfN meeting submission

From: William Bug <William.Bug@DrexelMed.edu>
Date: Thu, 3 May 2007 17:00:09 -0400
Message-Id: <D41341B9-E71F-4EA5-97A5-8225DD49CC7B@DrexelMed.edu>
To: public-semweb-lifesci hcls <public-semweb-lifesci@w3.org>
Hi Don,

This works for me.

In regards to the suggestion Mark made, I think some of his  
suggestions sound very practical.  I'd be glad to participate - or  
not - depending on the need and intended outcome.

With this in mind, if you'd like someone to vet what you work up - or  
work with you on it, Don - I'd be glad to do that.

Cheers,
Bill

On May 3, 2007, at 1:06 PM, Donald Doherty wrote:

> Here's my proposal:
>
> I write a quick rough draft and send a copy to all interested parties.
> People actually contributing to the writing should mostly be  
> neuroscientists
> but of course include input from the rest.
>
> Then I'll take all of the input and work up a revised abstract and  
> send it
> back out to all interested parties for further feedback.
>
> Repeat until everyone is happy and/or we run out of time. Then we  
> decide to
> submit or not.
>
> About authors, here is the Neuroscience community standard. First  
> author is
> usually the graduate student and last author is usually the principal
> investigator.
>
> Submitter must be first author...so if I take this on everyone must be
> comfortable with me being the grad student :^). We should probably  
> put the
> person who put the most sweat into the demo as last author.
>
> Hopefully the author issue won't be too divisive since this is  
> simply an
> abstract. The important thing is that everyone is acknowledged.
>
> Of highest importance is that the demo gets in front of the  
> neuroscience
> community at their biggest meeting.
>
> What do you think?
>
> Don
>
> -----Original Message-----
> From: public-semweb-lifesci-request@w3.org
> [mailto:public-semweb-lifesci-request@w3.org] On Behalf Of Kei Cheung
> Sent: Thursday, May 03, 2007 12:19 PM
> To: William Bug
> Cc: public-semweb-lifesci hcls
> Subject: Re: SfN meeting submission
>
>
> Hi Bill et al.,
>
> I agree that it's important to make our SW/Neuro demo visible to the
> neuroscience community. For example, I have asked Gordon Shepherd  
> (PI of
> SenseLab) to look at the AD use case written by June, Gwen, et al  
> to see
> if any comments/suggestions can be made. It would be great if we  
> can get
> more neuroscientists involved to help make our work more  
> scientifically
> relevant. I believe this would also help make SW technologically  
> credible.
>
> Regarding the SfN abstract, my concern is that we might not be able to
> meet the deadline given that people are currently busy preparing  
> for the
> upcoming demo at WWW2007 next week. In addition to what to write  
> and how
> to write it (it probably won't take long for an abstract),  we need to
> discuss how the author list should appear. All these may take some  
> time
> to resolve as part of the community process, but we'd better start
> thinking/discussing about it soon ...
>
> Cheers,
>
> -Kei
>
> William Bug wrote:
>> Hi Don, Matthias, John, Kei, et al.,
>>
>> I too would like to contribute to an SfN abstract in this context.
>>
>> I believe given the domain HCLS IG is covering - neurodegenerative
>> disease - despite the lack of a full, refereed article, this is a  
>> very
>> important venue in which to present, in order to help bolster the
>> relevance and credibility of this effort to the general neuroscience
>> community.  With a working demo, it would be a shame NOT to have it
>> represented at the SfN meeting.
>>
>> We could also look to use such an abstract as starting material for a
>> full submission to journals that cover neuroinformatics such as
>> Neuroinformatics, PLoS Computational Biology, or Journal of
>> Computational Neuroscience.
>>
>> In regards to relevant neuroscience meetings, there are also the
>> meetings hosted by:
>> Federation of European Neuroscience Societies (FENS):
>> http://fens.mdc-berlin.de/calendar/
>>
>>
>> International Brain Research Organization (IBRO):
>> http://www.ibro.org/Pub_Events_Search.asp?Search=.
>>
>> The Japan Neuroscience Society
>> http://www.jnss.org/english/index_e.html
>> http://www2.convention.jp/neuro2007/
>>
>> Federation of Asian and Oceanian Neuroscience Societies (FAONS)
>> http://www.faons.org/
>>
>> I'm not certain what the deadlines are for the associated meetings.
>>
>> Cheers,
>> Bill
>>
>> On May 2, 2007, at 11:51 AM, Donald Doherty wrote:
>>
>>>
>>> Hi Matthias,
>>>
>>> That'd be great! SfN abstracts are brief (max. 2300 characters  
>>> including
>>> punctuation!) so focusing on the value to neuroscientists sounds  
>>> like the
>>> right course.
>>>
>>> Abstract may be presented or posters. Slide presentations are  
>>> kept very
>>> brief and there is so much going on most people won't see a
>>> particular slide
>>> presentation. Even if we indicate our preference for a slide  
>>> presentation
>>> it's likely we wouldn't get it.
>>>
>>> If we do a poster it will be up half a day. We can bring our demo  
>>> machine
>>> and set it up next to the poster. (I've seen BIRN and others do  
>>> this.
>>> Wireless is generally available.) I think this is the preferred mode
>>> for us.
>>>
>>> There is also a $75 submission fee.
>>>
>>> I'm willing to take responsibility for paying the submission fee,  
>>> getting
>>> the poster up, staying there while it's up, and working the demo as
>>> long as
>>> everyone is interested in doing this and a demo machine will be
>>> available.
>>>
>>> We won't get a paper out of it but I think it's worthwhile to  
>>> expose the
>>> end-user community (neuroscientists) to the value the Semantic Web
>>> technologies may provide to them.
>>>
>>> Best wishes,
>>> Don
>>>
>>> -----Original Message-----
>>> From: public-semweb-lifesci-request@w3.org
>>> <mailto:public-semweb-lifesci-request@w3.org>
>>> [mailto:public-semweb-lifesci-request@w3.org] On Behalf Of
>>> samwald@gmx.at <mailto:samwald@gmx.at>
>>> Sent: Wednesday, May 02, 2007 9:37 AM
>>> To: donald.doherty@brainstage.com
>>> <mailto:donald.doherty@brainstage.com>; public-semweb-lifesci@w3.org
>>> <mailto:public-semweb-lifesci@w3.org>
>>> Subject: SfN meeting submission
>>>
>>>
>>> Hi Don,
>>>
>>> I would help with the abstract for SfN where I can, of course. I  
>>> guess it
>>> should be even more focussed on the requirements and use cases in
>>> Neuroscience than the BMC Bioinformatics paper. Mainly a description
>>> of the
>>> collaborating neuroscience groups, their motivation and the types of
>>> information that we are integrating, and less about the technical
>>> details.
>>>
>>> I guess it is much too late to start writing a group paper for  
>>> the ISMB
>>> workshop now. A poster abstract would be possible, but I think we
>>> don't want
>>> to present a poster.
>>>
>>> cheers,
>>> Matthias
>>>
>>>
>>>
>>>> This year's Society for Neuroscience meeting abstracts are due  
>>>> May 15th.
>>>> I'd
>>>> like to take the lead on submitting an abstract if the team is
>>>> interested.
>>>>
>>>> Don
>>>>
>>>> P.S. This year's meeting is November 3-7 in San Diego, California.
>>>>
>>>> -----Original Message-----
>>>> From: public-semweb-lifesci-request@w3.org
>>>> <mailto:public-semweb-lifesci-request@w3.org>
>>>> [mailto:public-semweb-lifesci-request@w3.org] On Behalf Of Alan
>>>> Ruttenberg
>>>> Sent: Tuesday, May 01, 2007 12:57 AM
>>>> To: public-semweb-lifesci@w3.org <mailto:public-semweb- 
>>>> lifesci@w3.org>
>>>> Subject: ISMB Bio-Ontologies Meeting
>>>>
>>>>
>>>> I forget, was someone submitting an abstract about our work to this
>>>> workshop?
>>>> -Alan
>>>>
>>>>
>>>> On Apr 26, 2007, at 1:18 PM, Susanna wrote:
>>>>
>>>>> ** Apologies for cross posting **CALL FOR PAPERS and POSTER
>>>>> ABSTRACTS (Deadline May 1st)
>>>>> Proceedings in BMC Bioinformatics
>>>>>
>>>>> *^**^***^****^****^****^****^****^****^****^****^****^*****^**^*** 
>>>>> ^**
>>>>> Bio-Ontologies SIG Workshop
>>>>> Vienna, Austria: July 20 2007
>>>>>
>>>>> "Bio-Ontologies: ten years past and looking to the future"
>>>>>
>>>>> *^**^***^****^****^****^****^****^****^****^****^****^*****^**^*** 
>>>>> ^**
>>>>> 15th ISMB & 6th ECCB Vienna, Austria: July 18-25, 2007
>>>>>
>>>>>
>>>>> CALL FOR PAPERS and POSTER ABSTRACTS (Deadline May 1st)
>>>>> Proceedings in BMC Bioinformatics
>>>>>
>>>>> The long-standing ISMB Bio-Ontologies SIG is in its tenth
>>>>> consecutive year. This year the workshop will have a celebratory
>>>>> and reflective discussion on "Bio-Ontologies: ten years past and
>>>>> looking to the future".
>>>>>
>>>>> PROGRAM CHAIRS:
>>>>> Robert Stevens (1), Phillip Lord (2), Robin McEntire (3), Susanna-
>>>>> A. Sansone (4)
>>>>> 1.    School of Computer Science, University of Manchester, UK
>>>>> 2.    School of Computing Science, University of Newcastle, UK
>>>>> 3.    GlaxoSmithKline, USA
>>>>> 4.    EMBL-EBI The European Bioinformatics Institute,  
>>>>> Cambridge, UK
>>>>>
>>>>> WEBSITES:
>>>>> Bio-Ontologies SIG workshop: http://bio-ontologies.org.uk
>>>>> ISMB & ECCB main conference website http://www.iscb.org/ 
>>>>> ismbeccb2007
>>>>>
>>>>> ABOUT THE BIO-ONTOLOGIES SIG WORKSHOP
>>>>> The workshop will continue offer an informal environment for
>>>>> presentation and discussion of ontologies and their role in
>>>>> providing a mechanism for organising, sharing and reconciling  
>>>>> data.
>>>>> This year, to celebrate its tenth anniversary, we have invited  
>>>>> four
>>>>> presenters from the first bio-ontologies tutorial and meeting
>>>>> organisers to sit on a panel, namely: Mark Musen, Peter Karp, Russ
>>>>> Altman and Steffen Schulze-Kremer
>>>>>
>>>>> They will be asked to present positions on the following  
>>>>> questions:
>>>>> 1. What has been the best thing to have happened in bio-ontologies
>>>>> in the past ten years?
>>>>> 2. What has been the worst thing to have happened in bio- 
>>>>> ontologies
>>>>> in the past ten years?
>>>>> 3. How must bio-ontologies progress in the next ten years?
>>>>> 4. How must bio-ontologies not progress in the next ten years
>>>>>
>>>>> CALL FOR PAPERS AND POSTER ABSTRACT:
>>>>> We are inviting two types of submissions SHORT PAPER papers (up to
>>>>> 4 pages) and POSTER ABSTRACT (up to 1/2 page) from any aspect  
>>>>> doing
>>>>> bio-ontology research or using bio-ontologies to do bioinformatics
>>>>> research. Topics include, but are not restricted to:
>>>>> - Biological Applications of Ontologies
>>>>> - Reports on Newly Developed or Existing Bio-Ontologies
>>>>> - Tools for Developing Ontologies
>>>>> - Use of Ontologies in Data Communication Standards
>>>>> - Use of Semantic Web technologies in Bioinformatics
>>>>> - The implications of Bio-Ontologies or the Semantic Web for the
>>>>> drug discovery process
>>>>> - Current Research In Ontology Languages and its implication for
>>>>> Bio-Ontologies
>>>>>
>>>>> PROGRAM COMMITTEE
>>>>> Abstracts will be reviewed by the Program Committee, including the
>>>>> Program Chairs and additionally: David Benton, Suzanna Lewis,  
>>>>> Chris
>>>>> Mungall and Alan Ruttenberg.
>>>>>
>>>>> PUBLICATION OF THE PROCEEDINGS
>>>>> The Programme Committee will also select those papers, which are
>>>>> suitable for further publication in a BMC Bioinformatics
>>>>> Supplement. Authors will be invited to resubmit full papers.
>>>>>
>>>>> DEADLINES
>>>>> Submissions due: May 1st 2007
>>>>> Notification of acceptance: May 21st 2007
>>>>> Final versions due: May 31st 2007
>>>>> Workshop: July 20th 2007
>>>>>
>>>>> -- Susanna-Assunta Sansone, PhD NET Project - Coordinator 
>>>>> www.ebi.ac.uk/net-project <http://www.ebi.ac.uk/net-project> The
>>>>> European Bioinformatics Institute
>>>>> email: sansone@ebi.ac.uk <mailto:sansone@ebi.ac.uk> EMBL  
>>>>> Outstation
>>>>> - Hinxton direct: +44 (0)
>>>>> 1223 494 691 Wellcome Trust Genome Campus fax: +44 (0)1223 494 468
>>>>> Cambridge CB10 1SD, UK room: A229
>>>>> ------------------------------------------------------------------ 
>>>>> ----
>>>>> ---
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>>>>
>>>>
>>>>
>>>>
>>>
>>> -- 
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>>>
>>>
>>>
>>
>>
>>
>> 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>
>>
>>
>>
>>
>
>
>
>
>

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





Received on Thursday, 3 May 2007 21:00:25 UTC

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