23.2661, Calls: Computational Linguistics/Switzerland

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LINGUIST List: Vol-23-2661. Sat Jun 09 2012. ISSN: 1069 - 4875.

Subject: 23.2661, Calls: Computational Linguistics/Switzerland

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Date: Sat, 09 Jun 2012 09:08:43
From: Fabio Rinaldi [fabio.rinaldi at uzh.ch]
Subject: 5th International Symposium on Semantic Mining in Biomedicine

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Full Title: 5th International Symposium on Semantic Mining in Biomedicine 
Short Title: SMBM12 

Date: 03-Sep-2012 - 04-Sep-2012
Location: Zurich, Switzerland 
Contact Person: Fabio Rinaldi
Meeting Email: smbmzurich at gmail.com
Web Site: http://www.smbm.eu/ 

Linguistic Field(s): Computational Linguistics 

Call Deadline: 22-Jun-2012 

Meeting Description:

5th International Symposium on Semantic Mining in Biomedicine
http://www.smbm.eu/
September 3-4, 2012
Institute of Computational Linguistics, University of Zurich, Switzerland

SMBM 2012 aims to bring together researchers from text and data mining in biomedicine, medical, bio- and chemoinformatics, and researchers active in biomedical ontology design and engineering and the Semantic Web. The combined research helps to promote full integration of data and factual content from large text collections, biological databases, ontological and terminological resources and from the Web.

However, many challenges have yet to be met to achieve this ambitious goal. Significant advances have been made and many working systems for tasks ranging from semantics driven literature analysis to cross-resource data analysis and open linked data on the web have been suggested and deployed. Where do we stand and how do we advance toward fully integrated systems combining the different solutions and data sources?

SMBM 2012 is the follow-up to the following very successful two series: SMBM 2005 (EBI, U.K.), SMBM 2006 (University of Jena, Germany), SMBM 2008 (University of Turku, Finland) and SMBM 2010 (EBI, U.K). A parallel event (LBM: The International Symposium on Languages in Biology and Medicine) has been held in 2005 (KAIST, Daejeon, South Korea), 2007 (Matrix, Biopolis, Singapore), 2009 (Jeju Island, South Korea) and 2011 (NTU, Singapore).

Additional Information:

Venue and travel information: http://www.smbm.eu/venue/location 

Final Call for Papers:

In response to several requests for extension and concerns of coincidence with NAACL, we have decided to extend the SMBM 2012 submission deadline. The new deadlines are as follows:

- Full paper submission deadline: June 2, 2012
- Poster and system demonstration paper submission deadline: July 6, 2012

We hope this extension is sufficient for everyone considering submission to SMBM and look forward to seeing you in Zurich in September!

We are inviting papers from a full range of topics, emphasizing in particular work on methods deployed in a production-like research environment, user-facing applications of text mining technology, the integration of text with domain resources such as content from reference databases (e.g., UniProt, EntrezGene, OMIM) and semantic resources such as GO, UMLS etc. We also welcome contributions from across the biomedical domains, including genomics, translational medicine, clinical practice, and public health.

Topics of interest include (but are not limited to):

- Development and use of biomedical semantic resources
- Terminology and ontology development for biomedical information systems, including terminology evolution
- Integration of text and data mining in the biomedical domain
- (Semantic) Web mining of biomedical information
- Text mining, information extraction, and information retrieval for the biomedical domain
- Evaluation techniques and standards for text mining solutions
- Annotation schemes for biomedical corpora
- Text mining for resource building, e.g. ontologies, and resource enrichment, e.g., biomedical databases
- Representation and discovery of biomedical domain knowledge
- Image/caption processing in relation to content extraction
- Domain-specific reasoning processes, e.g., to infer non-explicit information, validation (trust-worthiness, believability, safety) of extracted information
- Integration of text mining in biological database curation workflows

All accepted papers will be published in the conference proceedings, which will be available online. We invite three categories of papers: full research papers, short papers and system papers. Research papers will be given an oral presentation, short papers a poster presentation, and systems papers will be presented in systems demonstration sessions. System papers should describe an implemented system related to a topic of interest that the authors will demonstrate live during the symposium. The final modality of presentation will be decided by the organizing committee.

Authors of selected papers will be invited to submit an extended version for publication in a special issue of the Journal of Biomedical Semantics (JBMS), an open-access journal published by BioMed Central (BMC).

Submissions should follow the ACL instructions for authors, with a maximal limit of seven (7) pages (plus one optional page for references). The recommended length for system papers and poster submissions is four (4) pages. Manuscripts will be submitted electronically as PDF files.  Reviewing will be double-blind, and submissions should therefore NOT contain author names or other obviously identifying information.

Contact:

SMBM-12 home page: http://www.smbm.eu/
Submission site: http://www.easychair.org/conferences/?conf=smbm12
Organizers email: smbmzurich at gmail.com

Organization:

Scientific Chairs:

Sophia Ananiadou (NaCTeM and University of Manchester, UK)
Tapio Salakoski (University of Turku, Finland)

Organization Committee:

Sampo Pyysalo (NaCTeM and University of Manchester, UK)
Dietrich Rebholz-Schuhmann (EBI, UK and University of Zurich, Switzerland)
Fabio Rinaldi (University of Zurich, Switzerland)

Local Arrangements Committee:

Fabio Rinaldi (University of Zurich, Switzerland)
Gerold Schneider (University of Zurich, Switzerland)
Simon Clematide (University of Zurich, Switzerland)
Gintarė Grigonytė (University of Zurich, Switzerland)

Programme Committee:

Adrian Shepherd (Birkbeck University of London, UK)
Anita Burgun-Parenthoine (University of Rennes, France)
David McClosky (Stanford University, USA)
Dina Demner-Fushman (National Library of Medicine, USA)
Filip Ginter (University of Turku, Finland)
Florian Leitner (CNIO, Spain)
Gerold Schneider (University of Zurich, Switzerland)
Goran Nenadic (University of Manchester, UK)
Gwan-Su Yi (KAIST, South Korea)
Hongfang Liu (Georgetown University Medical Center, USA)
Hyunju Lee (GIST, South Korea)
Jian Su (Institute for Infocomm Research, Singapore)
Jin-Dong Kim (Database Center for Life Science, Japan)
Jong C. Park (KAIST, South Korea)
Jung-Jae Kim (Nanyang Technological University, Singapore)
Karin Verspoor (NICTA, Australia)
Kevin Bretonnel Cohen (University of Colorado, USA)
Makoto Miwa (University of Manchester, UK)
Martin Krallinger (CNIO, Spain)
Martin Romacker (Novartis Pharma AG, Switzerland)
Martin Volk (University of Zurich, Switzerland)
Michael Krauthammer (Yale University School of Medicine, USA)
Mike Conway (University of Pittsburgh, USA)
Naoaki Okazaki (Tohoku University, Sendai, Japan)
Nigel Collier (National Institute of Informatics, Japan)
Patrick Ruch (University of Applied Sciences, Geneva)
Patrick Lambrix (Linköping University, Sweden)
Pierre Zweigenbaum (LIMSI-CNRS, France)
Tomoko Ohta (University of Manchester, UK)
Rune Sætre (University of Science and Technology, Trondheim, Norway)
Udo Hahn (University of Jena, Germany)
Wendy Chapman (University of Pittsburgh, USA)
Yoshimasa Tsuruoka (University of Tokyo, Ishikawa, Japan)
Yutaka Sasaki (Toyota Technological Institute, Nagoya, Japan)






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