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Category:   E-CFP
Subject:   Coling 2004 Workshop: Natural Language Processing in Biomedicine
From:   Nigel Collier
Email:   [collier_(on)_nii.ac.jp]
Date received:   24 Feb 2004
Deadline:   14 Apr 2004
Start date:   28 Aug 2004

FIRST CALL FOR PAPERS COLING Workshop INTERNATIONAL JOINT WORKSHOP ON NATURAL LANGUAGE PROCESSING IN BIOMEDICINE AND ITS APPLICATIONS (BioNLP/NLPBA 2004) http://www.genisis .ch/%7Enatlang/JNLPBA04/ Call for Papers http://www .genisis.ch/%7Enatlang/JNLPBA04/cfp.html Geneva, Switzerland August 28-29, 2004 Workshop Description Recent years have seen a growing interest in the application of NLP techniques to texts in the domains of biology and medicine. The problem of information overload that has resulted from the massive growth in the scientific literature has clearly shown the necessity to automatically locate, organize and manage facts relating to experimental results. At the same time clinicians have experienced greatly improved access to the medical literature and clinical repositories which needs to be matched by the development of enhanced information access tools. This year NLPBA (http://www.genisis. ch/%7Enatlang/NLPBA02/) and BioNLP (http://www- tsujii.is.s.u-tokyo.ac.jp/ACL03/bionlp.htm) merge for a joint workshop with the aim of bringing together researchers from natural language processing, bio-informatics, medicine and ontologies who are concerned with developing methods and resources for solving these problems. Over the last five years we have seen significant steps forward in the development of language technology and large-scale resources for the Bio-Medical domain such as linguistically annotated corpora (e.g. GENIA POS and NE corpora), ontologies (e.g. Gene Ontology), thesauri (e.g. UMLS Metathesaurus), lexicons and term lists (e.g. UMLS SPECIALIST) as well as information retrieval collections (e.g. TREC Genomics track). At the application level we see development of question answering systems, event recognition, zone (rhetorical region) identification, as well as term and bio-entity recognition. The demand for information access tools from domain users is increasing to support literature survey, often integrated into online $B!F (Jportals $B!G (J where scientists can navigate through related information resources such as genetics and disease databases. Ongoing challenges relate to the growing and ambiguous nomenclature, the need to integrate deep knowledge sources into machine learning, a need to scale up methods for processing full text articles etc. The objective of the workshop is to bring together researchers in this area, to establish common themes and goals between different groups. We have seen from previous experience in the natural language learning and information retrieval communities the benefits of sharing resources and developing common evaluation criteria. In this workshop we are introducing a special shared task to promote discussion of these issues as well as the objective of integrating machine learning with knowledge resources. We invite submission of papers on topics related to bio-medical NLP including, but not limited to: · Information extraction · Text mining · Named entity recognition · Coreference resolution · Term recognition · Knowledge-based information retrieval · Multi-lingual resources and applications · Ontology construction and ontology mapping · Visualization tools for viewing clustered or extracted information or meta-data · Multi-modal approaches combining text and images, etc. · Event recognition · Construction of pathways from literature and databases · Creation of data-sets of bio-medical entities, coreferences and relations · Annotation standards and quality control methodologies · Resource integration and re-engineering · Corpus/lexicon construction · Text summarization and report generation Shared Task http://research.nii.ac.jp/%7Ecollier/workshops/JNLPBA04st.htm This year we propose to have a special shared task: bio-medical named entity recognition from the GENIA corpus. The purpose of this track is essentially to investigate the integration of statistical machine learning methods with symbolic knowledge sources from the bio-medical domain such as ontologies, thesauri and lexicons : shared task description. Invited Speaker To be announced soon $B!D (J Paper Format and Submission Papers must follow the COLING 2004 templates, and will be submitted by email to jnlpba-submit_(on)_sim.hcuge.ch. Important Dates Submission deadline for regular workshop papers: April 14th, 2004 Submission deadline for shared task papers: April 21st, 2004 Notification of accepted papers: May 14th, 2004 Deadline for camera ready copies: June 6th, 2004 Workshop Chairs Nigel Collier (National Institute of Informatics, Japan) Patrick Ruch (University Hospital of Geneva and EPFL, Switzerland) Adeline Nazarenko (LIPN, France) Organizing Committee Alfonso Valencia (Centro Nacional de Biotecnologia, Spain) Carol Friedman (CUNY/Columbia University, USA) Donia Scott (University of Brighton, UK) Udo Hahn (Albert-Ludwigs University, Freiburg, Germany) Junichi Tsujii (University of Tokyo, Japan) Program Committee Sophia Ananiadou (University of Salford, UK) Alan Aronson (National Library of Medicine, USA) Robert Baud (University Hospital of Geneva, Switzerland) Christian Blaschke (CNB, Spain) Oliver Bodenreider (National Library of Medicine, USA) Berry de Bruijn (National Research Center, Canada) Marc Craven (University of Wisconsin, USA) Robert Gaizauskas (University of Sheffield, UK) Eric Gaussier (Xerox, XRCE, France) Vasileios Hatzivassiloglou (Columbia University, USA) Lynette Hirschman (MITRE, USA) Dimitar Hristovski (University of Ljubljana, Slovenia) Jerry Hobbs (USC/ISI, USA) Aravind Joshi (University of Pennsylvania, USA) Su Jian (Institute for Infocomm Research, Singapore) Asao Fujiyama (National Institute of Informatics, Japan) Arne Jonsson (University of Linkoping, Sweden) Frederique Lisacek (GeneBio SA, Switzerland) Yuji Matsumoto (NAIST, Japan) Claire Nedellec (INRA, France) Kousaku Okubo (Kyushu University, Japan) Jong C. Park (KAIST, Korea) Thierry Poibeau (LIPN, France) Denys Proux (Xerox, XRCE, France) James Pustejovsky (Brandeis University, USA) Dietrich Rebholz-Schuhmann (European Bioinformatics Institute, EU) Irena Spasic (UMIST, UK) Ben Stapley (UMIST, UK) Padmini Srinivasan (University of Iowa, USA) Hirotoshi Taira (NTT Communication Science, Japan) Toshihisa Takagi (University of Tokyo, Japan) Yuka Tateishi (University of Tokyo, Japan) Anne-Lise Veuthey (SIB, Switzerland) Limsoon Wong (Institute for Infocomm Research, Singapore) Pierre Zweigenbaum (AP-HP, INSERM & INaLCO, France) Contact Information General organization : jnlpba-request_(on)_sim.hcuge.ch Shared task organization: bio04sharedtask_(on)_nii.ac.jp Main page : http://www.genisis .ch/%7Enatlang/JNLPBA04/
 

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