4th International SWAT4LS Workshop - Semantic web applications and tools for life sciences

Call for Papers


Since 2008, SWAT4LS is a workshop that has provided a platform for the presentation and discussion of the benefits and limits of applying web-based information systems and semantic technologies in Biomedical Informatics and Computational Biology.
Growing steadily each year as Semantic Web applications become more widespread, SWAT4LS has been in Edinburgh 2008, Amsterdam 2009, and Berlin 2010, with London planned for 2011. The last edition of SWAT4LS was held in Berlin, on December 10th, 2010. It was preceded by two days of tutorials and other associated events.
We are confident that the next edition of SWAT4LS will provide the same open and stimulating environment that continues to bring together researchers, both developers and users, from domains spanning health care, life sciences, clinical research and translational medicine, to discuss goals, current limits and real experiences in the use of Semantic Web technologies in Life Sciences.


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 supporting 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 a potential impact on the future of publishing, scientific communication, and biomedical research. 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 serve as a showcase for experiences, information resources, tools development and applications.


Topics of interest include, but are not limited to:

  • Standards, Technologies, Tools for the Semantic Web
    • Semantic Web standards and new proposals (e.g.: RDF, OWL, SKOS, SPIN, RuleML)
    • Tools for ontology management, editing and versioning
    • RDF stores, Reasoners, query and visualization systems
    • Formal approaches to large biomedical knowledge bases
    • Tools for semantic-enabled web publication
    • Alternative approaches to integrate semantic representations and web based solutions
  • Systems for a Semantic Web for Bioinformatics
    • Biomedical knowledge bases on the Semantic Web
    • EHR and clinical research data interoperability and reuse
    • Clinical data pipelines for supporting tailored therapy and molecular medicine
    • Tracking genotype and phenotype assertions with provenance
    • Semantic biomedical Web Services
    • Semantics aware Biological Data Integration Systems
    • Semantic-enabled biomedical information systems and solutions
    • Linked Data for biomedical research, drug development and discovery
  • Existing and prospective applications of the Semantic Web for Bioinformatics
    • Semantic Wikis
    • Semantic collaborative research environments
    • Semantic crowdsourcing and collective intelligence
    • Alternative approaches to biomedical metadata generation and management
    • Case studies, use cases, and scenarios

Type of contributions

The following possible contributions are sought:

  • Research papers
  • Position papers
  • Posters
  • Software demos


Accepted papers will be published as proceedings in the ACM ICP Series (The publication will be available under the following ISBN number: 978-1-4503-1076-5).

The SWAT4LS Workshop 2011 , in cooperation with Faculty of 1000 (http://f1000.com/), invites poster/oral presenters at this meeting to deposit their poster(s)/slides(s) into the new open access poster repository, F1000 Posters (http://posters.f1000.com/) to enable those who could not make the meeting to see your novel work. F1000’s expert Faculty of 10,000 members will then view these submissions to identify those they wish to select for positive evaluation in the award winning F1000 service. To deposit your poster, simply go to http://posters.f1000.com/deposit and upload your poster file.

Special issue

Authors of accepted contributions to the upcoming edition of SWAT4LS will be invited to submit an extended and revised version of their contributions for a special issue of an internation peer-reviewed scientific journal (under definition, special issues of SWAT4LS have appeared in the past in BMC Bioinformatics and in the BMC Journal of Biomedical Semantics.)


  • Expression of interest for tutorials: 10 June 2011
  • Submission opening: 12 September 2011
  • Papers submission deadline: 7 October 2011 18th October 2011 (abstract must be submitted by the October 14th
  • Posters and demo submission deadline: 31 October 2011
  • Communication of acceptance: 7 November 2011
  • Camera ready: 21 November 2011


All papers and posters must be in English, formatted according to ACM IPCS guidelines (http://www.acm.org/sigs/publications/proceedings-templates) and submitted in pdf format.
Submissions for papers should report original research, and should be between 4 and 8 pages.
Submissions for position papers should report qualified opinions, recommendations or conclusions, and should be between 1 and 3 pages.
Submissions for posters should be between 1 and 2 pages.
Submissions for software demo proposals should also be between 1 and 2 pages.


Submission is open!

All submissions are handled via the EasyChair submission system ( https://www.easychair.org/conferences/?conf=swat4ls2011).
To ensure high quality, submitted papers will be carefully peer-reviewed by at least three members of the Scientific Committee.