Call for Papers: ACL 2008 BioNLP Workshop


In Columbus, OH on 19 or 20 June 2008

Submissions due: March 7, 2008

Continuing a successful series of BioNLP workshops at ACL 2002, ACL 2003, NAACL 2004, ACL 2005, NAACL 2006, and ACL 2007, and in accordance with the ACL BioNLP tradition of presenting work on a broad range of topics, we invite submissions on any topic of current interest in the field of Biomedical Natural Language Processing. We especially encourage submissions on:

  • Entity identification and normalization for a broad range of semantic categories
  • Ontologies and knowledge bases in BioNLP
  • Extraction of complex relations
  • The economics of text mining and database curation
  • Resources and novel strategies for system testing and evaluation
  • Shared tasks in the biomedical domain
  • Test suites and corpora for BioNLP
  • Quantifying utility to end-users
  • Portability for non-developers
  • Summarization
  • Question-answering
  • Full text and figures

Important Dates:

Submission deadline: Friday, March 7, 2008

Notification of acceptance: Friday, April 4, 2008

Camera-ready copy due from authors: Thursday, April 10, 2008

Workshop: June 19 or 20, 2008

Submission instructions:

Two types of submissions are invited: full papers and poster abstracts.

Submissions are due by 11:59 PM EST on March 7, 2008. Submit your paper or abstract via the ACL BioNLP 2008 site at

Full papers should not exceed eight (8) pages, including references. These are intended to be reports of original research. BioNLP aims to be the forum for interesting/innovative/promising work involving biomedicine and language technology, whether or not yielding high performance at the moment. This by no means precludes our interest in mature results, strong performance, and thorough evaluation. Both types of research and combinations of thereof are encouraged.

Poster abstracts should not exceed two (2) pages. Accepted abstracts will be published in a separate section of the workshop proceedings. Appropriate poster topics include preliminary results, application notes, descriptions of work in progress, etc.

Submissions must be electronic and in PDF format, and should follow the two-column format of ACL proceedings. Ensure that you are not in A4 format. Please see the conference website for detailed typesetting specifications. Authors are strongly encouraged to use the LaTeX or Microsoft Word style files available on the ACL meeting website ( Submissions need not be anonymous. Authors who cannot submit a PDF file electronically should contact the workshop organizers well in advance of the submission deadline.

Dual submission policy: note that papers may not be submitted to the BioNLP 2008 workshop if they are or will be concurrently submitted to another meeting or publication and that other meeting or publication prohibits dual submissions. If your paper is also submitted to ISMB, you should expect it to be rejected by ISMB. If your paper is or will be concurrently under consideration by another meeting or publication, notify us of that fact in a footnote on the first page. Do not dual-submit your BioNLP 2008 workshop paper to ISMB.

Workshop chairs:

  • Dina Demner-Fushman, US National Library of Medicine
  • Sophia Ananiadou, National Centre for Text Mining & U. Manchester, UK
  • Kevin Bretonnel Cohen, The MITRE Corporation and U. Colorado School of Medicine
  • John Pestian, Computational Medicine Center, Cincinnati Children's Hospital and Medical Center
  • Jun-ichi Tsujii, U. Tokyo, Japan & U. Manchester, UK
  • Bonnie Webber, U. Edinborough, UK

Program Committee:

  • Alan Aronson, LHNCBC, US National Library of Medicine
  • Catherine Blake, University of North Carolina
  • Olivier Bodenreider, LHNCBC, US National Library of Medicine
  • Bob Carpenter, Alias-i
  • Wendy Chapman, University of Pittsburgh
  • Aaron Cohen, Oregon Health and Science University
  • Nigel Collier, National Institute of Informatics, Tokyo
  • Noemie Elhadad, Columbia University
  • Carol Friedman, Columbia College of Physicians and Surgeons
  • Peter Haug, University of Utah
  • Marti Hearst, University of California at Berkeley
  • Su Jian, A-star
  • Jin-Dong Kim, University of Tokyo
  • Marc Light, University of Iowa
  • Zhiyong Lu, NCBI, US National Library of Medicine
  • Aurelie Neveol, LHNCBC, US National Library of Medicine
  • Serguei Pakhomov, University of Minnesota
  • Thomas Rindflesch, LHNCBC, US National Library of Medicine
  • Daniel Rubin, Stanford University
  • Yuka Tateisi, University of Tokyo
  • Yoshimasa Tsuruoka, University of Manchester
  • Alfonso Valencia, Centro Nacional de Biotecnologia
  • Karin Verspoor, Los Alamos National Laboratory
  • W. John Wilbur, NCBI, US National Library of Medicine
  • Limsoon Wong, National University of Singapore
  • Hong Yu, University of Wisconsin
  • Pierre Zweigenbaum, LIMSI


  • bionlp2008 at (all organizers)
  • ddemner at
  • kevin.cohen at

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