The paper submission deadline has passed; paper decision notification was sent on September 10, 2009. The list of accepted papers has been selected by our referees.
The fifteenth Pacific Symposium on Biocomputing (PSB), will be held January 4-8, 2010 at the Fairmont Orchid on the Big Island of Hawaii. PSB will bring together top researchers from North America, the Asian Pacific nations, Europe and around the world to exchange research results and address open issues in all aspects of computational biology. PSB will provide a forum for the presentation of work in databases, algorithms, interfaces, visualization, modeling and other computational methods, as applied to biological problems, with emphasis on applications in data-rich areas of molecular biology. PSB intends to attract a balanced combination of computer scientists and biologists, presenting significant original research, demonstrating computer systems, and facilitating formal and informal discussions on topics of importance to computational biology.
To provide focus for the very broad area of biological computing, PSB is organized into a series of specific sessions. Each session will involve both formal research presentations and open discussion groups. The PSB 2010 sessions are:
Please see the PSB paper format template and instructions at http://psb.stanford.edu/psb-online/psb-submit/index.html.
The accepted file formats are: postscript (*.ps) and Adobe Acrobat (*.pdf). Attached files should be named with the last name of the first author (e.g. altman.ps or altman.pdf). Hardcopy submissions or unprocessed TEX or LATEX files or electronic submissions not submitted through the paper management system will be rejected without review.
Each paper must be accompanied by a cover letter. The cover letter should be the first page of your paper submission. The cover letter must state the following:
Submitted papers are limited to twelve (12) pages (not including the cover letter) in our publication format. Please format your paper according to instructions found at http://psb.stanford.edu/psb-online/psb-submit/. If figures can not be easily resized and placed precisely in the text, then it should be clear that with appropriate modifications, the total manuscript length would be within the page limit.
Contact Russ Altman (psb.hawaii @ gmail.com) for additional information about paper submission requirements.
The rapidly increasing collection of full genome sequences is posing
new computational challenges in comparative genomics. We invite
contributions with a substantial and innovative computational component
(such as computational models, algorithms, simulation studies, and
computationally innovative analyses of biological data) in all areas of
comparative genomics, including, but not limited to, gene family
evolution, ancestral genome reconstruction, and integration with
Contact: Bernard Moret
Email: bernard.moret at epfl.ch
Recent improvements in sequencing methods introduced high-throughput, low-cost, and cloning-free (thus less labor-intensive)
technologies. The revolution in DNA sequencing will shortly result in an enormous collection of sequence data pertaining to the
genomes and transcriptomes of various human individuals from different populations and also various species. Exact and approximation,
possibly high-throughput, algorithms and tools are therefore needed for non-coding RNA studies. This session will focus on new computational
work in the area of non-coding RNAs. It is intended to cover the wide range of computational challenges in this field, including the discovery,
structural and functional characterization, and modelling interactions of non-coding RNAs.
Contact: S. Cenk Sahinalp
Email: cenk at cs.sfu.ca
Network analysis provides a unifying language to describe relations
within complex systems. This session focused on the changes in the
properties of molecular networks in time (cell cycle scale and
evolutionary scale) and space, and in response to varying conditions
such as stress, diseases, and drug treatment. It will also include work
leading to an understanding the natural variability in the interactome
caused by sequence polymorphisms present in populations.
Contact: Teresa Przytycka
Email: przytyck at ncbi.nlm.nih.gov
Molecular modelling of macromolecules and their interactions is one of the major challenges in current computational biology. Structure prediction, dynamics, interactions and data analysis are necessary to better understand biological functions. In the structural genomics and systems biology era, models are thus needed at different resolutions, both in space and time. This session focuses on multi-scale approaches to predict and analyze
macromolecular structure, assembly and dynamics.
Contact: Julie Bernauer
Email: julie.bernauer at sophia.inria.fr
This session focuses on the development of novel computational methods in all aspects of Personal Genomics including genetic and epigenetic variation discovery, genotype-phenotype associations, indexing and cataloguing both normal and disease-related variation, exome capture and resequencing, and personalized medicine. This session has a broad target audience that includes algorithm developers working on sequence analysis, genomics researchers, pharmacogeneticists, and medical geneticists. Papers presenting new methods should provide experimental or empirical evidence of the performance and practicality of the new methods.Contact: Can Alkan
This PSB session was developed to have a special focus on the reverse engineering and synthesis of biomolecular systems.
This session aims to introduce novel engineering and other mathematical / computational methods within this area of focus.
The methods should be shown to have significant biological applications.
Contact: Gil Alterovitz
Email: psb-bnas at mit.edu