[Corpora-List] 2nd and final CFP: Finding the Hidden Knowledge: Text Mining for biology and medicine

[Benjamin Hachey]

******************************************************

               CALL FOR POSTERS & DEMOS:

       Biomedical Text Mining and Collaboration

        21-22 February 2008, Glasgow, Scotland

   http://www.bioinformatics-scotland.org/txt_mining/

         Submission deadline: 21 January 2008

         ***Prize for best student poster***

******************************************************


In connection with the workshop Finding the Hidden Knowledge: 
Text mining for biology and medicine, to be held in Glasgow 
(Scotland) 21-22 February 2008, there will be a hosted poster 
and demo session with refreshments.  The poster and demo session 
is open to interested authors from all sectors (e.g. research, 
industry, health).  There will be a prize for the best student 
poster.


CALL DETAILS
------------

The electronic availability of biomedical publications has led 
to a surge of interest in using text mining (TM) as a way of 
accessing this ever expanding knowledge store.

It is clear that future advances in understanding of biomedical 
issues will rely on the discovery of interconnections of data 
and models, which are as yet unrecognised.  TM will provide a 
major contribution to joining up diverse experimental evidence 
and will give new insights into biological processes.

Assembling a picture of the mechanisms of life in a systems or 
pathway context, for example, can be greatly facilitated by the 
use of tools such as intelligent search and knowledge 
distillation over very large document collections.

However, effective tools require cooperation between the 
designers and the users.  This workshop aims to bring the 
biomedical and TM communities together by showcasing the 
possible applications of TM while opening up dialogue that will 
facilitate specification of use cases to drive the next 
generation of applications.

Interested parties from all sectors (e.g. research, industry, 
health) are invited to submit posters or demos on text mining, 
methods which could be adapted for text mining, and aspects of 
biology and health that could benefit from text mining.

We invite posters on original work and work in progress, 
position posters, etc.  Creativity and imagination are 
encouraged.  Topics of interest include, but are not limited to:

* Approaches to information retrieval, extraction and
   summarisation for biomedical text
* Term identification and normalisation for biomedical text
* Incorporating knowledge, e.g. ontologies, into extraction
   systems
* POS tagging, parsing and shallow parsing for biomedical text

* Specific challenges for TM in the biomedical domain
* General vs. specific solutions for subdomains and subproblems
* Accessing information in full papers
* Accessing information in tables, figures and captions

* Building databases based on information published in textual
   form
* Extracting pathways from text and linking pathways to text
* Building and maintaining ontologies for the biomedical domain
* TM vs. hand curated databases and ontologies

* Interactive tools for annotating biomedical texts
* Interactive tools for database curation, ontology building
* Bootstrapping assistive tools from small amounts of text
* Unsupervised and partially supervised learning

* Difficulties and solutions in eliciting user requirements
* Reconciling annotation and curation
* User interface design for annotation and curation
* Incorporating TM into research and curation workflows

* Assessing impact of assistive technologies on the end task
* Impact of information extraction on research and curation
* Impact of summarisation on on research on curation
* Impact of extraction on ontology building and maintenance


SUBMISSIONS
-----------

Abstracts should be in MSWord or PDF format and no longer than 
300 words. The submission should include the title, authors, 
affiliation, contact details for the corresponding author, and 
the description of the poster (abstract). The posters chosen 
based on this abstract will be displayed at the workshop and 
included in a workshop booklet.

Please email submissions to <fthk2008 at googlemail.com> and 
indicate whether you are a student and wish to be considered for 
the prize for the best student poster.  Submissions do not need 
to be anonymised.


PRIZE FOR BEST STUDENT POSTER
-----------------------------

There will also be a prize for the best student poster.  Judges 
for the competition will be drawn from the invited speakers and 
panel members, including:

* Sophia Ananiadou, National Centre for Text Mining, University
   of Manchester
* Doug Armstrong, Edinburgh Centre for Bioinformatics,
   University of Edinburgh
* Wendy Bickmore, MRC Human Genetics Unit, Western General
   Hospital, Edinburgh
* Elizabeth Fairley, Cognia LTG
* William Hayes, Biogen Idec
* Lawrence Hunter, University of Colorado Denver School of
   Medicine
* Peter Jackson, Thomson Corporation
* Mark Liberman, Linguistic Data Consortium / University of
   Pennsylvania
* Tim Miller, Thomson Scientific
* John Pestian, Cincinnati Children's Hospital


ORGANISING COMMITTEE
--------------------

* David Gilbert, Bioinformatics Research Centre, University of
   Glasgow
* Claire Grover, School of Informatics, University of Edinburgh
* Ben Hachey, School of Informatics, University of Edinburgh
* Chris Janssen, Scottish Bioinformatics Forum
* Ewan Klein, School of Informatics, University of Edinburgh
* Tamara Polajnar, Bioinformatics Research Centre, University of
   Glasgow
* Bonnie Webber, School of Informatics, University of Edinburgh


FURTHER INFORMATION
-------------------

The workshop will be held at the Kelvin Gallery, housed in the 
Hunterian Museum (Scotland's oldest public museum) and located 
in the historic East Quadrangle at Glasgow University.

See web site for workshop details:

* http://www.bioinformatics-scotland.org/txt_mining/


CONTACT INFORMATION
-------------------

Send email to:

* fthk2008 at googlemail.com


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