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Re: SfN meeting submission

From: Mark Montgomery <markm@kyield.com>
Date: Thu, 3 May 2007 14:22:22 -0700
Message-ID: <001401c78dc9$25c5a040$a100a8c0@Inspiron>
To: "William Bug" <William.Bug@DrexelMed.edu>, "public-semweb-lifesci hcls" <public-semweb-lifesci@w3.org>
PS- it just occurred to me that the workgroup already has a leader, or co-leaders, which doesn't necessarily also mean they desire to lead each paper/project coming out of the WG, but I would defer to them. - Mark
  ----- Original Message ----- 
  From: William Bug 
  To: public-semweb-lifesci hcls 
  Sent: Thursday, May 03, 2007 2:00 PM
  Subject: Re: SfN meeting submission

  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.


  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

    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?


    -----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 ...



    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):

      International Brain Research Organization (IBRO):

      The Japan Neuroscience Society

      Federation of Asian and Oceanian Neuroscience Societies (FAONS)

      I'm not certain what the deadlines are for the associated meetings.


      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 

        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,

        -----Original Message-----
        From: 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 
        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 

        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.


          This year's Society for Neuroscience meeting abstracts are due May 15th.
          like to take the lead on submitting an abstract if the team is 


          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] On Behalf Of Alan 
          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

          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

            Bio-Ontologies SIG workshop: http://bio-ontologies.org.uk
            ISMB & ECCB main conference website http://www.iscb.org/ismbeccb2007

            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

            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

            Abstracts will be reviewed by the Program Committee, including the
            Program Chairs and additionally: David Benton, Suzanna Lewis, Chris
            Mungall and Alan Ruttenberg.

            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.

            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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      Bill Bug
      Senior Research Analyst/Ontological Engineer

      Laboratory for Bioimaging  & Anatomical Informatics
      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 

  Bill Bug
  Senior Research Analyst/Ontological Engineer

  Laboratory for Bioimaging  & Anatomical Informatics
  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 21:22:54 UTC

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