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Cfp SWAT4LS: Semantic Web Applications and Tools for Life Sciences 2010

From: Andrea Splendiani <andrea.splendiani@bbsrc.ac.uk>
Date: Mon, 13 Sep 2010 11:55:29 +0000
Message-ID: <339406136322363@jngomktg.net>
To: w3c semweb HCLS <public-semweb-lifesci@w3.org>, W3C Semantic Web IG <semantic-web@w3.org>, W3C LOD Mailing List <public-lod@w3.org>
**Apologies for multiple postings**
***Please diffuse ***

Submissions are now open for the 3rd Int. Semantic Web Applications and
Tools for Life Sciences
Berlin, 10th December 2010


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.


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 
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. 


Topics of interest include, but are not limited to: 
• Standards, Technologies, Tools for the Semantic Web
o Semantic Web standards and new proposals (RDF, OWL, SKOS, Linked Data, …
o Biomedical Ontologies and related tools
o Alternative approaches to integrate semantic representations and web based
o Formal approaches to large biomedical knowledge bases
• Systems for a Semantic Web for Bioinformatics
o RDF stores, Reasoners, query and visualization systems for life sciences
o Semantic biomedical Web Services
o Semantics aware Biological Data Integration Systems
• Existing and prospective applications of the Semantic Web for
o Semantics aware application tools
o Semantic Wikis
o Semantic collaborative research environments
o Case studies, use cases, and scenarios

Type of contributions

The following possible contributions are sought: 
• Research papers
• Position papers
• Posters
• Software demos



All accepted communications will be published in the proceedings, either via
CEUR-WS (http://ceur-
ws.org/) or Nature Proceedings.

Special issue

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.


• Submission openinig: 13 September 2010
• Papers submission deadline: 12 October 2010
• Posters and demo submission deadline: 1 November 2010
• Communication of acceptance: 8 November 2010
• Camera ready: 21 November 2010


All papers and posters must be in English, formatted according to LNCS
(http://www.springer.de/comp/lncs/authors.html) and submitted in pdf format.

• Submissions for papers should report original research, and should be
between 8 and 15 pages.
• Submissions for position papers should report qualified opinions,
recommendations or conclusions, 
and should be between 3 and 6 pages.
• Submissions for posters should be between 2 and 4 pages.
• Submissions for software demo proposals should also be between 2 and 4


All submissions will be handled via the EasyChair submission system. A link
will be provided when 
registrations open.
To ensure high quality, submitted papers will be carefully peer-reviewed by
at least three members of 
the Scientific Program Committee. 

Full Program
(more detailed information available at

Wednesday 8th December 2010
Location: Free University of Berlin

-	Tutorial: Semantic Web meets Cloud Computing
Presenter: Jonas Almedia (Univ. Texas MDAnderson Cancer Center, Huston, USA)
-	Free Hackathon

Thursday 9th December 2010
Location: Free University of Berlin or Harnak Hause (to be confirmed)

-	Tutorial: Interoperable Semantic Web services
-	Presenters: Jon Ison (EMBL-EBI, Hinxton, U.K.), Matus Kalas (Bergen
Center for Computational 
Science, Bergen, Norway)
-	Tutorial: Producing Linked Data
Presenters: TBD
-	Tutorial: D2RQ
Presenters: Radoslaw Oldakowski (Free University of Berlin)
-	7th Berlin Semantic Web Meetup - Semantic Health Care and Life Sciences
Presentations from Meetup participants
-	SWAT4LS / Meetup Dinner + poster session

Friday 10th December 2010
Location: Harnak Hause
The workshop will run from 9.00 to 19.00, followed by the optional social
It will feature:
-	Keynotes:
-	Christopher Baker: A renaissance for the point mutation: from legacy
data to semantic web 
-	Jonas Almeida: Development of Integrative Bioinformatics Applications
using Cloud Computing 
resources and Knowledge Organization Systems (KOS).
-	Accepted papers presentations
-	Flash presentations
-	Poster session
-	Demo session
-	Panel discussion (Confirmed participants: Chris Baker, Jonas Almeida,
Chirs Bizer)


Workshop Chairs
• Adrian Paschke, Corporate Semantic Web, Freie Universitaet Berlin,
• Albert Burger, School of Mathematical and Computer Sciences, Heriot-Watt
University, and Human 
Genetics Unit, Medical Research Council, Edinburgh, Scotland, United Kingdom
• Paolo Romano, Bioinformatics, National Cancer Research Institute,
Genova, Italy
• M. Scott Marshall, Adaptive Information Disclosure Group, University of
Amsterdam, The Netherlands
• Andrea Splendiani, Biomathematics and Bioinformatics dept., Rothamsted
Research, UK


Scientific Program committee (more to be confirmed):

• Erick Antezana, Bayer CropScience, Ghent, Belgium
• Pedro Barahona, Department of Informatics, New University of Lisboa,
Lisboa, Portugal
• Olivier Bodenreider, National Library of Medicine, Bethesda, MD, United
States of America
• Werner Ceusters, NY CoE in Bioinformatics and Life Sciences, University
at Buffalo, Buffalo, NY, 
United States of America
• Kei Cheung, Center for Medical Informatics, Yale University School of
Medicine, New Haven, 
United States of America
• Tim Clark, Massachuttes General Hospital and Harvard Medical School,
Boston, United States of 
• Marie-Dominique Devignes, LORIA, Vandoeuvre les Nancy, France
• Olivier Dameron, INSERM U936, University of Rennes 1, France
• Asuman Dogac, Department of Computer Eng., Middle East Technical
University, Ankara ,Turkey
• Michel Dumontier, Carleton University, Ottawa, Ontario, Canada
• Toshiaki Katayama, Human Genome Center (HGC), University of Tokyo, Japan
• C. Maria Keet, Faculty of Computer Science, Free University of
Bozen-Bolzano, Bolzano, Italy
• Graham Kemp, Chalmers University of Technology, Sweden
• Michael Krauthammer, Department of Pathology, Yale University School of
Medicine, United States 
of America
• Patrick Lambrix, Department of Computer and Information Science,
Linkφping University, 
Linkφping, Sweden
• Phillip Lord, School of Computing Science, Newcastle University,
Newcastle-upon-Tyne, United 
• Alistair Miles, Centre for Genomics and Global Health, The Wellcome
Trust Centre for Human 
Genetics, Oxford, Uk
• Stephan Philippi, Institute for Software Technology, University of
Koblenz-Landau, Koblenz, 
• Marco Roos, Instituut voor Informatica, University of Amsterdam, The
• Alan Ruttenberg, Science Commons, Cambridge, MA, United States of
• Matthias Samwald, DERI, Galway, Ireland, and Konrad Lorenz Institute for
Evolution and Cognition 
Research, Altenberg, Austria
• Nigam Shah, Center for Biomedical Informatics Research, Stanford, United
States of America
• Michael Schroeder, Biotechnology Centre, TU Dresden, Dresden, Germany
• Robert Stevens, School of Computer Science, University of Manchester,
Manchester, United 
• Tetsuro Toyoda, Genomic Sciences Center, RIKEN, Yokohama, Japan



Registration will be open before or on September 13th. The deadline for
early registration will be 
October 8th. As spaces are limited, we encourage interested participants to
register in advance.
Andrea Splendiani
Senior Bioinformatics Scientist
Centre for Mathematical and Computational Biology
+44(0)1582 763133 ext 2004
Received on Monday, 13 September 2010 11:56:26 UTC

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