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HiBi 2009 : International Workshop on High Performance Computational Systems Biology


When Oct 14, 2009 - Oct 16, 2009
Where Trento, Italy
Abstract Registration Due Jul 31, 2009
Submission Deadline Apr 24, 2009
Notification Due Jun 23, 2009
Final Version Due Jul 15, 2009
Categories    parallel computing   systems biology   emerging architectures   parallel visualization

Call For Papers

International Workshop on High Performance Computational Systems Biology
(HiBi 2009)
Trento, Italy, October 14-16, 2009

1st Call for Papers (

The HiBi (High performance computational systems Biology) workshop
establishes a forum to link researchers in the areas of parallel computing
and computational systems biology.

One of the main limitations in managing models of biological systems comes
from the fundamental difference between the high parallelism evident in
biochemical reactions and the sequential environments employed for the
analysis of these reactions. Such limitations affect all varieties of
continuous, deterministic, discrete and stochastic models; undermining the
applicability of simulation techniques and analysis of biological models.

The goal of HiBi is therefore to bring together researchers in the fields
of high performance computing and computational systems biology. Experts from
around the world will present their current work, discuss profound
challenges, new ideas, results, applications and their experience relating
to key aspects of high performance computing in biology.


Topics of interest include high performance algorithms, systems,
architecture, and tools for the following: (but are not limited to the
following list)

- Parallel and distributed Stochastic simulation
- Biological and Numerical parallel computing
- Parallel and distributed architectures
- Emerging processing architectures (Cell processors, GPUs, mixed CPU-FPGA)
- Parallel Model Checking techniques
- Parallel parameters estimation
- Parallel algorithms for biological analysis
- Application of concurrency theory to biology
- Parallel visualization algorithms
- Web-services and internet computing for e-Science
- Tools and applications


HiBi welcomes submissions for:

- *full research papers* describing recent advances at the border between parallel computing and systems biology;
- *short tool papers* describing implemented parallel techniques and tools for systems biology.


paper submission deadline (abstract only) April 24, 2009
paper submission deadline May 1, 2009
acceptance notification June 23, 2009
revised papers due July 15, 2009
early registration deadline July 31, 2009


All submitted papers will be reviewed by the Program Committee. The review
process will include a rebuttal phase whereby authors will be given the
possibility to send their comments on the received review. Full papers as
well as short (tool) papers will be published in the proceedings of the
workshop. Detailed information about papers format and publisher will be
available soon. A selection of best (full) papers will also be published on
a dedicated special issue of the Briefings in Bioinformatics journal.
Submission of papers to HiBi09 will be through the EasyChair conference


- Tommaso Mazza (CoSBi, Italy) - chair
- Mateo Valero (Technical University of Catalonia, Spain) - co-chair
- Yutaka Akiyama (Tokyo Institute of Technology, Japan)
- Paolo Ballarini (CoSBi, Italy)
- Gianfranco Balbo (University of Torino, Italy)
- Lubos Brim (Masaryk University, Czech Republic)
- Kevin Burrage (University of Oxford, UK)
- Hidde De Jong (INRIA Rhône-Alpes, France)
- François Fages (INRIA Paris-Rocquencourt, France)
- Fabrizio Gagliardi (Microsoft Research Cambridge, United Kingdom)
- Martin Leucker (Technische Universität München, Germany)
- Gethin Norman (Oxford University Computing Laboratory, United Kingdom)
- Dave Parker (Oxford University Computing Laboratory, United Kingdom)
- Davide Prandi (CoSBi, Italy)
- Assaf Schuster (Israel Institute of Technology, Israel)
- Koichi Takahashi (RIKEN, Japan)
- David Torrents Arenales (Barcelona Supercomputing Center, Spain)
- Adelinde Uhrmacher (University of Rostock, Germany)

Information related to HiBi 2009 is available at the official HiBi 2009 Web

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