WG: European Workshop on Data Mining and Text Mining for Bioinformatics: Final Call for Papers

Codrina Lauth codrina.lauth at ais.fraunhofer.de
Wed Jun 9 03:11:42 EST 2004

             Data Mining and Text Mining for Bioinformatics

    Second European Workshop at the ECML / PKDD 2004 in Pisa, Italy.
                          24. September, 2004.

			   Call for Papers
		    (Submission Deadline: June 14)
Workshop Scope
     In the past years, research in molecular biology and molecular
     medicine has accumulated enormous amounts of data. This includes
     genomic sequences gathered by the Human Genome Project, gene
     expression data from microarray experiments, protein
     identification and quantification data from proteomics
     experiments, and SNP data from high-throughput SNP arrays.
     However, our understanding of the biological processes underlying
     these data lags far behind. There is a strong interest in
     employing methods of knowledge discovery and data mining to
     generate models of biological systems. Mining biological databases
     imposes challenges which knowledge discovery and data mining have
     to address and which will be in the focus of the workshop.
     *   Important background knowledge in bioinformatics is often
         buried in textual documents, such as scientific publi-cations
         or database annotations. Text mining and information
         extraction approaches currently being studied range from term
         recognition to extraction of complex relationships of
         interaction between proteins.
     *   Analysing data from biological databases often requires the
         consideration of data from multiple relations rather than from
         one single table. Recently, approaches (such as
         propositionalization algorithms) are being studied that
         utilize multi-relational data and yet meet the efficiency
         requirements of large-scale data mining problems.
     *   It is difficult and requires profound understanding of both
         knowledge discovery and computational biology to identify
         problems and optimization criteria which, when maximized by
         knowledge discovery algorithms, actually contribute to a
         better understanding of biological systems. Identification of
         appropriate knowledge discovery problems and development of
         evaluation methods for knowledge discovery results are ongoing

Goals and Intended Audience
     In order to build knowledge discovery systems that contribute to
     our understanding of biological systems, solutions to the above
     problems have to be assembled into efficient and scalable
     systems. The workshop aims at facilitating this process, and at
     enhancing the exchange of knowledge between computational
     biologists and knowledge discovery researchers.  Accordingly, our
     intended audience are both computational biologists and KDD

Topics of Interest
     Topics include, but are not limited to:
     *   Application and assessment of data mining algorithms,
     *   Application and assessment of text mining algorithms,
     *   Information extraction from scientific papers,
     *   KD dealing with large and distributed data sets,
     *   Optimal database support for KD,
     *   Improving and assessing data quality in KD,
     *   Case studies,
     *   KD algorithms for drug de-velopment,
     *   Information integration for KD,
     *   Mining multi-relational data.
     *   Papers should deal with bio-medical data sets.


     The Program Committee invites
     *   Research papers with unpublished results which may be up to
         eight pages long using 10pt fonts,
     *   Research notes describing work in progress which may be up to
         five pages using 10pt fonts, and
     *   Project descriptions, providing a description of the goals and
         methods of research projects or PhD projects, up to five pages.
     There are no format requirements. Submissions can be uploaded via
     the workshop web site
     http://www.informatik.hu-berlin.de/Forschung_Lehre/wm/ws04/.  The
     submission deadline is June 14, 2004.

     Workshop proceedings will be published on the web site and will
     be available in printed form at the workshop.

Important Dates
     *   Submission Deadline: June 14, 2004.
     *   Acceptance Notification: July 5, 2004.
     *   Camera-ready Copy due: July 12, 2004.
     *   Workshop: September 24, 2004.

Workshop Chair
     Tobias Scheffer, Humboldt-Universitaet zu Berlin.

Program Committee
     *   Sourav Bhomwick , Nanyang Technological University.
     *   Christian Blaschke , Centro Nacional de Biotecnologia.
     *   Vladimir Brusic , Institute for Infocomm Research, Singapore.
     *   Carol Friedman, Columbia University.
     *   George Forman , Hewlett Packard.
     *   Rob Gaizauskas, University of Sheffield.
     *   Jörg Hakenberg, Humboldt-Universität zu Berlin.
     *   Ross King , University of Wales, Aberystwyth, and PharmaDM.
     *   Adam Kowalczyk, Telstra & Peter McCallum Cancer Centre.
     *   Stefan Kramer , Technische Universität München.
     *   Ulf Leser, Humboldt-Universität zu Berlin.
     *   Bhavani Raskutti, Telstra.
     *   Steffen Schulze-Kremer , Max-Planck-Institute, Berlin.
     *   Myra Spiliopoulou , University of Magdeburg.
     *   Alfonso Valencia , Centro Nacional de Biotecnologia, Spain.
     *   David Vogel, AI Insight.
     *   Mohammed Zaki, Rensselaer Polytechnic Institute.


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