[BiO BB] Update: Biological Language Conference

Madhavi Ganapathiraju madhavi at cs.cmu.edu
Fri Oct 3 16:49:14 EDT 2003

BLC2003: Biological Language Conference : Final Call for papers
UPDATE: The conference is being held in cooperation with American 
Association for Artificial Intelligence (AAAI). Selected papers will be 
published in J. Applied Bioinformatics.

Integration of language technologies in bioinformatics/computational 
biology research
Protein sequences from different organisms may be viewed as texts written 
in different languages. The mapping of protein sequence to their structure, 
dynamics and function then becomes analogous to the mapping of words to 
meaning in natural languages. This analogy can be exploited by application 
of statistical language modeling and text classification techniques to 
biological sequences, thereby generating testable hypotheses regarding the 
fundamental building blocks of "protein sequence language".

The biology-language analogy enables novel applications of language 
technologies to the biology domain, but is to a great extent overlapping 
with existing other computational biology/bioinformatics applications. The 
purpose of the Biological Language Conference is to facilitate scientific 
exchange between researchers using the language analogy approach directly 
and researchers using other approaches.

We invite papers in the following areas of interest:
secondary structure prediction
tertiary structure prediction
repetitive fold prediction
membrane protein-specific prediction challenges
protein folding/misfolding
conformational changes
genome evolution/comparison
sequence alignment
protein family classification
immune system
protein-protein interactions
protein/gene networks and pathways

Because of the challenge in bioinformatics research of involvement of 
non-biology domain experts in biology research, we also encourage 
submission of papers describing new approaches to cross-disciplinary education.

Venue and dates:

November 20-21, 2003 at Carnegie Mellon University in Pittsburgh, USA

The conference is organized by:
        Profs. Raj Reddy and Judith Klein-Seetharaman
        of the NSF-funded Center for Biological Language Modeling 

Papers should be a maximum of 15 pages and will be peer-reviewed. All 
accepted papers will appear in the conference proceedings a selection of 
best papers will be published in J. Applied Bioinformatics. Papers should 
be prepared according to the guidelines 
(http://flan.blm.cs.cmu.edu/meeting2003/template.doc) and submitted online 
here. Further information on the conference will be available at 

September 20th, 2003
   (Optional) White-paper abstract and indication of intention to submit a 
paper by email to judithks at cs.cmu.edu

October 20th, 2003
   Deadline for electronic paper submission

November 1st, 2003
   Notification of acceptance

November 10th, 2003
   Final camera-ready manuscript due

November 10th, 2003
   Registration deadline

Judith Klein-Seetharaman,
Language Technologies Institute,
School of Computer Science,
Carnegie Melon University,
Pittsburgh 15213 PA
email: judithks at cs.cmu.edu,
phone: 412 383 7325,
fax: 412 648 1945.

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