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CALL FOR PARTICIPATION: Fifth BioCreative Challenge workshop

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  • CALL FOR PARTICIPATION: Fifth BioCreative Challenge workshop
  • Centro de Investigaciones Científicas Isla de la Cartuja
  • Seville
  • Spain

CALL FOR PARTICIPATION: Fifth BioCreative Challenge workshop

Fifth BioCreative Challenge workshop, Seville, Spain

Workshop date: 9-11th Sept 2015
Workshop format: Keynote speech, paper presentations, poster and group discussions.

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1. SCOPE
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BioCreative: Critical Assessment of Information Extraction in Biology is a community-wide effort for evaluating text mining and information extraction systems applied to the biological domain.
Built on the success of the previous BioCreative Challenge Evaluations and Workshops (BioCreative I, II, II.5, III, 2012 workshop, and IV), the BioCreative Organizing Committee will host the BioCreative V Challenge in Sevilla, Spain on September 9-11, 2015.
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2. TOPICS
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This workshop invites proceedings papers and posters of teams participating in the BioCreative V tracks. Additionally we invite also posters on other topics related to biomedical text mining, information retrieval and natural language processing. Topics of interest include:
 * Named entity recognition of chemical compounds and gene/protein mentions in patents
*  Development and integration of BioC compatible modules that assist interaction database curation
* Automatic detection of chemical/drugs and diseases, and their relations in PubMed abstracts
 *  Text mining solutions to develop and test novel approaches for relation extraction in the context of pathway networks
 * Demonstration and evaluation of web-based systems addressing user-defined tasks, evaluated by curators on performance and usability
 * Demonstration of tools to extract metagenomics metadata, including environment and habitat metadata
 * The importance and practical use of text mining and information extraction systems for the extraction of biological and biomedical annotations and integration to existing life sciences knowledgebases
* Demonstration of real world cases of crowdsourcing and community annotations for generating Gold Standard annotations for text mining and database annotations
* Use of text mining strategies to extract clinically relevant information from public data and clinical records, with a special focus on disease and symptom related concepts.
Authors can submit short proceedings papers and posters describing systems participating in BioCreative V tracks. Additionally we invite also posters on other topics related to biomedical text mining, information retrieval and natural language processing.  Proceedings authors will be invited to submit full papers for a special journal issue. Previous special issues:
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3. DATES
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Submission deadline: August 15th 2015 (check task timelines: http://www.biocreative.org/events/biocreative-v/CFP)
Workshop date: 9-11th September 2015
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4. BIOCREATIVE ORGANIZING COMMITTEE
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Cecilia Arighi, University of Delaware, USA
Kevin Cohen, University of Colorado, USA
Donald Comeau, National Center for Biotechnology Information (NCBI), NIH, USA
Juliane Fluck, Fraunhofer Institute for Algorithms and Scientific Computing SCAI, Germany
Rezarta Islamaj Dogan, National Center for Biotechnology Information (NCBI), NIH, USA
Lynette Hirschman, MITRE Corporation, USA
Sun Kim, National Center for Biotechnology Information (NCBI), NIH, USA
Martin Krallinger, Spanish National Cancer Centre, CNIO, Spain
Zhiyong Lu, National Center for Biotechnology Information (NCBI), NIH, USA
Fabio Rinaldi, Institute of Computational Linguistics, University of Zurich, Switzerland
Alfonso Valencia, Spanish National Cancer Centre, CNIO, Spain
Thomas Wiegers, North Carolina State University, USA
John Wilbur, National Center for Biotechnology Information (NCBI), NIH, USA
Cathy Wu, University of Delaware and Georgetown University, USA
Martin Krallinger,
On behalf of the BioCreative organizing committee