[BiO BB] call for papers

Michela de Concini concini at brenta.dit.unitn.it
Thu Sep 26 02:30:02 EDT 2002

Computational Methods in Systems Biology
University of Trento
24-26 February, 2003  Rovereto, Italy

Molecular biology has until now mainly focussed on individual 
molecules, on their properties as isolated entities or as complexes 
in very simple model systems. However, biological molecules in living 
systems participate in very complex networks, including regulatory 
networks for gene expression, intracellular metabolic networks and 
both intra- and intercellular communication networks. Such networks 
are involved in the maintenance (homeostasis) as well as the 
differentiation of cellular systems of which we have a very 
incomplete understanding.
Nevertheless, the progress of molecular biology has made possible the 
detailed description of the components that constitute living 
systems, notably genes and proteins. Large scale genome sequencing 
means that we can (at least in principle) delimneate all 
macromolecular components of a given cellular system, and microarray 
experiments as well as large scale proteomics will soon give us large 
amounts of experimental data on gene regulation, molecular 
interactions and cellular networks. The challenge of the 21st century 
will be to understand how these individual components integrate to 
complex systems and the function and evolution of these systems, thus 
scaling up from molecular biology to systems biology. By combining 
experimental data with advanced formal theories from computer 
science, "the formal language for biological systems" to specify 
dynamic models of interacting molecular entities would be essential 
1. understanding normal behaviour of cellular processes, and how 
changes may affect the processes and cause disease. It may be 
possible to correlate genetic properties and symptoms in new and more 
efficient ways, based on an actual understanding of how various 
processes interact.
2. Providing predictability and flexibility to academic, 
pharmaceutical, biotechnology and medical researchers studying gene 
or protein functions. In particular, it may save time by reducing the 
number of experiments needed, if inadequate hypotheses could be 
excluded by computer simulation.

Topics of interest include, but are not limited to:

 Modelling languages for Systems Biology

 Concurrency theory in Systems Biology

 Constraint programming in Systems Biology

 Logical methods in Systems Biology

 Formal methods to analyse biomolecular systems

 Quantitative analysis of biomolecular systems

 Simulation techniques for Systems Biology

 Case studies


 Nov 9, 2002  Submission deadline for papers and demos

 Nov 30, 2002  Notification of acceptance

 Dec 16, 2002  Camera-ready version due

The proceedings will be published in the Springer LNCS series and 
will be available at the workshop.

Authors are invited to submit .ps or .pdf original research papers as 
well as survey or tutorial papers of no more than 12 pages in LNCS 
format (see
for instructions) at the address
concini at dit.unitn.it
For further information please contact us at the addresses 
[concini,priami]@dit.unitn.it. The papers will pass a peer review 
process and the accepted ones will appear in the proceedings.


 Ehud Shapiro, Weizmann Institute of Science, Israel

 To be announced


 Charles Auffray, CNRS, Villejuif (F)

 Cosima Baldari, Università di Siena (I)

 Alexander Bockmayr, Université Henri Poincaré, Nancy (F)

 Luca Cardelli, Microsoft Research Cambridge (UK)

 Vincent Danos, Université Paris VII (F)

 Pierpaolo Degano, Università di Pisa (I)

 François Fages, INRIA Rocquencourt (F)

 Drabløs Finn, , Norwegian University of Science and Technology, Trondheim (N)

 Monika Heiner, Brandenburg University of Technology at Cottbus - (D)

 Ina Koch, University of Applied Sciences Berlin, (D).

 John E. Ladbury, University College London (UK)

 Patrick Lincoln, SRI (USA)

 Satoru Miyano, University of Tokyo (JP)

 Gordon Plotkin, University of Edinburgh (UK)

 Simon Plyte, Pharmacia Corporation (I)

 Corrado Priami (CHAIR), Università di Trento (I)

 Aviv Regev, Weizmann Institute of Science (IL)

 Magali Roux-Rouquié, BSMI Pasteur Institute (F)

 Vincent Schachter, Hybrigenics  Paris (F)

 Masaru Tomita, Keio University (JP)

 Adelinde Uhrmacher, University of Rostock (D)

 Alfonso Valencia, CNB-CSIC Centro Nacional de Biotecnologia, 
Cantoblanco Madrid, (E)

 Olaf Wolkenhauer,  UMIST, Manchester (UK)


Linda Brodo, Michela de Concini, Corrado Priami, Debora Schuch da Rosa Machado
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