WCB 09: Workshop on Constraint Based Methods for Bioinformatics

WCB09 - Workshop on
Constraint Based Methods for Bioinformatics

September 20, 2009,
Lisbon, Portugal
Associated to CP 2009

Topics. Bioinformatics is a challenging and fast growing area of research, which is of utmost importance for our understanding of life. Major contributions to this discipline can have thousands of positive effects in medicine, agriculture, or industry. To pick out only a few examples, Bioinformatics tackles problems related to:

  • Recognition, analysis, and organization of DNA sequences
  • Biological systems simulations (for metabolic or regulatory networks)
  • Prediction of the spatial conformation of a biological polymer, given its sequence of monomers (in particular for proteins and RNA)
  • All these problems can be naturally formalized using constraints over finite domains or intervals of reals. Biology is a source of extremely interesting and challenging problems that can be encoded exploiting the application of recent and more general techniques of constraint programming. In this framework, some problems that have been successfully tackled are:
  • The fundamental bioinformatics problem of sequence alignment can be solved by recent inference based constraint methods
  • Biological systems simulations can be easily designed using concurrent constraint programming, and
  • The constrained-based prediction of protein conformations promoted the development of new search strategies, new constraint solvers, and general symmetry breaking.

    The main aim of this workshop is twofold. On the one hand, to share recent results in this area (new constraint solvers, new prediction and simulation programs). On the other hand, to present new challenging problems formalized and/or solved with constraint based methods.
    See also last year workshop details: WCB08.

  • Call for Papers (Extended Deadline)[txt]

    Workshop Program

    Workshop Proceedings

    Invited Talk: Abstract

    Program Committee
    Important Dates
    Rolf Backofen Freiburg Univ., Germany
    Pedro Barahona Univ. Nova de Lisbona, Portugal
    Alexander Bockmayr Freie Univ. Berlin, Germany
    Mats Carlsson SICS, Uppsala Sweden
    Alessandro Dal Palù (co-chair) Parma Univ., Italy
    Agostino Dovier Udine Univ., Italy
    Esra Erdem Sabanci University, Turkey
    Francois Fages INRIA Rocquencourt, France
    Inês Lynce INESC-ID Lisboa, Portugal
    Neil Moore Univ. of St Andrews, UK
    Enrico Pontelli NMSU, USA
    Sebastian Will (co-chair) Freiburg Univ., Germany
    Submission Deadline: July, 3rd
    Notification to Authors: July, 24th
    Camera-ready copy due: Aug, 14th
    Workshop: September, 20th