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<div class=WordSection1>
<p class=MsoPlainText><span lang=EN-US style='font-family:"Times New Roman","serif"'>[With
apologies for cross-posting]<o:p></o:p></span></p>
<p class=MsoNormal><span lang=EN-US><o:p> </o:p></span></p>
<p class=MsoNormal style='margin-bottom:12.0pt'><span lang=EN-US>Submissions
are now open for the 3rd Int. Semantic Web Applications and Tools for Life
Sciences<br>
Berlin, 10th December 2010<br>
</span><a href="http://www.swat4ls.org/2010/"><span lang=EN-US>http://www.swat4ls.org/2010/</span></a><span
lang=EN-US><br>
<br>
*********************************************************<br>
News:<br>
* Special issue in BMC Bioinformatics<br>
* Nature proceedings / CEUR Proceedings<br>
* 2 keynotes<br>
* Tutorial day on Semantic Web Services, Linked Data, D2RQ, …<br>
* Semantic Web Meetup in Semantic Life Sciences and Chemistry<br>
* Panel discussion<o:p></o:p></span></p>
<p class=MsoNormal style='margin-bottom:12.0pt'><span lang=EN-US>*********************************************************</span><span
lang=EN-US style='font-size:11.0pt'><o:p></o:p></span></p>
<p class=MsoNormal style='margin-bottom:12.0pt'><span lang=EN-US>Overview<br>
<br>
SWAT4LS is a workshop that provides a venue to present and discuss benefits and
limits of the adoption of Web based information systems and semantic
technologies in life sciences, biomedical informatics and computational
biology.<br>
</span>________________________________________<o:p></o:p></p>
<div>
<p class=MsoNormal>Rationale<o:p></o:p></p>
<div>
<p class=MsoNormal style='margin-bottom:12.0pt'><br>
The web is a key medium for information publishing, and web based information
systems play a key role in biomedical information exchange and integration. At
the same time, the variety and complexity of biomedical information call for
the adoption of semantic-based solutions. The Semantic Web provides a set of
technologies and standards that are key to support semantic markup, ontology
development, distributed information resources and collaborative social
environments. Altogether the adoption of the web-based semantic-enabled
technologies in the Life Sciences has potential impact on the future of
publishing, biological research and medicine. This workshop will provide a
venue to present and discuss benefits and limits of the adoption of these
technologies and tools in biomedical informatics and computational biology. It
will showcase experiences, information resources, tools development and
applications. It will bring together researchers, both developers and users,
from the <br>
various fields of Biology, Bioinformatics and Computer Science, to discuss
goals, current limits and some real use cases for Semantic Web technologies in
Life Sciences. <br>
________________________________________<br>
<br>
Topics<br>
<br>
Topics of interest include, but are not limited to: <br>
• Standards, Technologies, Tools for the Semantic Web<br>
o Semantic Web standards and new proposals (RDF, OWL, SKOS, Linked Data, … )<br>
o Biomedical Ontologies and related tools<br>
o Alternative approaches to integrate semantic representations and web based
solutions<br>
o Formal approaches to large biomedical knowledge bases<br>
• Systems for a Semantic Web for Bioinformatics<br>
o RDF stores, Reasoners, query and visualization systems for life sciences<br>
o Semantic biomedical Web Services<br>
o Semantics aware Biological Data Integration Systems<br>
• Existing and prospective applications of the Semantic Web for Bioinformatics<br>
o Semantics aware application tools<br>
o Semantic Wikis<br>
o Semantic collaborative research environments<br>
o Case studies, use cases, and scenarios<br>
________________________________________<br>
<br>
Type of contributions<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal style='margin-bottom:12.0pt'>The following possible
contributions are sought: <br>
• Research papers<br>
• Position papers<br>
• Posters<br>
• Software demos<br>
<br>
________________________________________<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal style='margin-bottom:12.0pt'>Proceedings<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal style='margin-bottom:12.0pt'><span lang=EN-US>All accepted
communications will be published in the proceedings, either Nature Proceedings
or via CEUR-WS (</span><a href="http://ceur-ws.org/"><span lang=EN-US>http://ceur-ws.org/</span></a><span
lang=EN-US>)<br>
________________________________________<br>
<br>
Special issue<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal style='margin-bottom:12.0pt'>Authors of accepted
contributions to the 2010 edition of SWAT4LS will be invited to submit extended
and revised contributions for a special issue in BMC Bioinformatics.<br>
________________________________________<br>
<br>
Deadlines<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal style='margin-bottom:12.0pt'>• Submission openinig: 13
September 2010<br>
• Papers submission deadline: 12 October 2010<br>
• Posters and demo submission deadline: 1 November 2010<br>
• Communication of acceptance: 8 November 2010<br>
• Camera ready: 21 November 2010<br>
________________________________________<br>
<br>
Instructions<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal style='margin-bottom:12.0pt'>All papers and posters must be
in English, formatted according to LNCS format (<a
href="http://www.springer.de/comp/lncs/authors.html">http://www.springer.de/comp/lncs/authors.html</a>)
and submitted in pdf format. <br>
• Submissions for papers should report original research, and should be between
8 and 15 pages.<br>
• Submissions for position papers should report qualified opinions,
recommendations or conclusions, and should be between 3 and 6 pages.<br>
• Submissions for posters should be between 2 and 4 pages.<br>
• Submissions for software demo proposals should also be between 2 and 4 pages.<br>
________________________________________<br>
<br>
Submission<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal style='margin-bottom:12.0pt'>All submissions will be handled
via the EasyChair submission system. A link will be provided when registrations
open.<br>
To ensure high quality, submitted papers will be carefully peer-reviewed by at
least three members of the Scientific Program Committee. <br>
________________________________________<o:p></o:p></p>
<div>
<p class=MsoNormal>Full Program<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal>(more detailed information available at <a
href="http://www.swat4ls.org/2010/progr.php">http://www.swat4ls.org/2010/progr.php</a>)<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal><o:p> </o:p></p>
</div>
<div>
<p class=MsoNormal style='margin-bottom:12.0pt'>Wednesday 8th December 2010<br>
Location: Free University of Berlin<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal>-<span class=apple-tab-span>
</span>Tutorial: Semantic Web meets Cloud Computing<br>
<span class=apple-tab-span>
</span>Presenter: Jonas Almedia (Univ. Texas MDAnderson Cancer Center, Huston,
USA)<br>
-<span class=apple-tab-span>
</span>Free Hackathon<br>
<br>
Thursday 9th December 2010<br>
Location: Free University of Berlin or Harnak Hause (to be confirmed)<br>
<br>
-<span class=apple-tab-span>
</span>Tutorial: Interoperable Semantic Web services<br>
-<span class=apple-tab-span>
</span>Presenters: Jon Ison (EMBL-EBI, Hinxton, U.K.), Matus Kalas (Bergen
Center for Computational Science, Bergen, Norway)<br>
-<span class=apple-tab-span>
</span>Tutorial: Producing Linked Data<br>
<span class=apple-tab-span>
</span>Presenters: TBD<br>
-<span class=apple-tab-span>
</span>Tutorial: D2RQ<br>
<span class=apple-tab-span>
</span>Presenters: Radoslaw Oldakowski (Free University of Berlin)<br>
-<span class=apple-tab-span>
</span>7th Berlin Semantic Web Meetup - Semantic Health Care and Life
Sciences<br>
<span class=apple-tab-span>
</span>Presentations from Meetup participants<br>
-<span class=apple-tab-span>
</span>SWAT4LS / Meetup Dinner + poster session<br>
<br>
Friday 10th December 2010<br>
Location: Harnak Hause<br>
The workshop will run from 9.00 to 19.00, followed by the optional social
dinner. <br>
It will feature:<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal>-<span class=apple-tab-span>
</span>Keynotes:<o:p></o:p></p>
<div>
<p class=MsoNormal><span class=apple-tab-span>
</span>-<span class=apple-tab-span>
</span>Christopher Baker: A renaissance for the point mutation: from legacy
data to semantic web service<br>
<span class=apple-tab-span>
</span>-<span class=apple-tab-span>
</span>Jonas Almeida: Development of Integrative Bioinformatics Applications
using Cloud Computing resources and Knowledge Organization Systems (KOS).<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal>-<span class=apple-tab-span>
</span>Accepted papers presentations<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal>-<span class=apple-tab-span>
</span>Flash presentations<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal>-<span class=apple-tab-span>
</span>Poster session<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal>-<span class=apple-tab-span>
</span>Demo session<o:p></o:p></p>
</div>
<p class=MsoNormal style='margin-bottom:12.0pt'>-<span class=apple-tab-span>
</span>Panel discussion (Confirmed participants: Chris Baker, Jonas
Almeida, Chirs Bizer)<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal>________________________________________<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal><br>
Workshop Chairs<br>
• Adrian Paschke, Corporate Semantic Web, Freie Universitaet Berlin, Germany<br>
• Albert Burger, School of Mathematical and Computer Sciences, Heriot-Watt
University, and Human Genetics Unit, Medical Research Council, Edinburgh,
Scotland, United Kingdom<br>
• Paolo Romano, Bioinformatics, National Cancer Research Institute, Genova,
Italy<br>
• M. Scott Marshall, Adaptive Information Disclosure Group, University of
Amsterdam, The Netherlands<br>
• Andrea Splendiani, Biomathematics and Bioinformatics dept., Rothamsted
Research, UK<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal><o:p> </o:p></p>
</div>
<div>
<p class=MsoNormal>________________________________________<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal><o:p> </o:p></p>
</div>
<div>
<p class=MsoNormal style='margin-bottom:12.0pt'>Scientific Program committee
(more to be confirmed):<o:p></o:p></p>
<div>
<p class=MsoNormal><span class=apple-tab-span>
</span>• Erick Antezana, Bayer CropScience, Ghent, Belgium<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal><span class=apple-tab-span>
</span>• Pedro Barahona, Department of Informatics, New University of
Lisboa, Lisboa, Portugal<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal><span class=apple-tab-span>
</span>• Olivier Bodenreider, National Library of Medicine, Bethesda, MD,
United States of America<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal><span class=apple-tab-span>
</span>• Werner Ceusters, NY CoE in Bioinformatics and Life Sciences,
University at Buffalo, Buffalo, NY, United States of America<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal><span class=apple-tab-span>
</span>• Kei Cheung, Center for Medical Informatics, Yale University
School of Medicine, New Haven, United States of America<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal><span class=apple-tab-span>
</span>• Tim Clark, Massachuttes General Hospital and Harvard Medical School,
Boston, United States of America<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal><span class=apple-tab-span>
</span>• Marie-Dominique Devignes, LORIA, Vandoeuvre les Nancy, France<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal><span class=apple-tab-span>
</span>• Olivier Dameron, INSERM U936, University of Rennes 1, France<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal><span class=apple-tab-span>
</span>• Asuman Dogac, Department of Computer Eng., Middle East Technical
University, Ankara ,Turkey<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal><span class=apple-tab-span>
</span>• Michel Dumontier, Carleton University, Ottawa, Ontario, Canada<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal><span class=apple-tab-span>
</span>• Toshiaki Katayama, Human Genome Center (HGC), University of
Tokyo, Japan<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal><span class=apple-tab-span>
</span>• C. Maria Keet, Faculty of Computer Science, Free University of
Bozen-Bolzano, Bolzano, Italy<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal><span class=apple-tab-span>
</span>• Graham Kemp, Chalmers University of Technology, Sweden<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal><span class=apple-tab-span>
</span>• Michael Krauthammer, Department of Pathology, Yale University
School of Medicine, United States of America<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal><span class=apple-tab-span>
</span>• Patrick Lambrix, Department of Computer and Information Science,
Linköping University, Linköping, Sweden<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal><span class=apple-tab-span>
</span>• Phillip Lord, School of Computing Science, Newcastle University,
Newcastle-upon-Tyne, United Kingdom<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal><span class=apple-tab-span>
</span>• Alistair Miles, Centre for Genomics and Global Health, The
Wellcome Trust Centre for Human Genetics, Oxford, Uk<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal><span class=apple-tab-span>
</span>• Stephan Philippi, Institute for Software Technology, University
of Koblenz-Landau, Koblenz, Germany<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal><span class=apple-tab-span>
</span>• Marco Roos, Instituut voor Informatica, University of Amsterdam,
The Netherlands<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal><span class=apple-tab-span>
</span>• Alan Ruttenberg, Science Commons, Cambridge, MA, United States of
America<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal><span class=apple-tab-span>
</span>• Matthias Samwald, DERI, Galway, Ireland, and Konrad Lorenz
Institute for Evolution and Cognition Research, Altenberg, Austria<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal><span class=apple-tab-span>
</span>• Nigam Shah, Center for Biomedical Informatics Research, Stanford,
United States of America<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal><span class=apple-tab-span>
</span>• Michael Schroeder, Biotechnology Centre, TU Dresden, Dresden,
Germany<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal><span class=apple-tab-span>
</span>• Robert Stevens, School of Computer Science, University of Manchester,
Manchester, United Kingdom<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal><span class=apple-tab-span>
</span>• Tetsuro Toyoda, Genomic Sciences Center, RIKEN, Yokohama, Japan<o:p></o:p></p>
</div>
<div>
<div>
<p class=MsoNormal><o:p> </o:p></p>
</div>
<p class=MsoNormal>________________________________________ <o:p></o:p></p>
</div>
<div>
<p class=MsoNormal><o:p> </o:p></p>
</div>
<div>
<p class=MsoNormal>Registrations<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal><o:p> </o:p></p>
</div>
<div>
<p class=MsoNormal><span lang=EN-US>The deadline for early bird registration is
October 8th. <o:p></o:p></span></p>
<p class=MsoNormal><span style='font-size:11.0pt;font-family:"Calibri","sans-serif"'><o:p> </o:p></span></p>
<p class=MsoNormal><span style='font-size:11.0pt;font-family:"Calibri","sans-serif"'><a
href="http://www.swat4ls.org/2010/rform.php">http://www.swat4ls.org/2010/rform.php</a><o:p></o:p></span></p>
<p class=MsoNormal><span style='font-size:11.0pt;font-family:"Calibri","sans-serif";
color:#1F497D'><o:p> </o:p></span></p>
<p class=MsoNormal><span lang=EN-US>As spaces are limited, we encourage
interested participants to register in advance.<o:p></o:p></span></p>
</div>
<p class=MsoNormal><span lang=EN-US><o:p> </o:p></span></p>
</div>
</div>
</div>
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