Call for Papers



biomolecular networks: from analysis to synthesis

A Pacific Symposium on Biocomputing 2009 session

January 5-9, 2009, Fairmont Orchid, The Big Island of Hawaii



Session Chairs

Gil Alterovitz



Judith A. Blake
The Jackson Laboratory

Drew Endy

Marco F. Ramoni



Paper deadline

July 14, 2008


Acceptance notification

September 8, 2008


PSB Session and Tutorials

January 5-9, 2009










Session Topics

The term ‘biological networks’ refers both to biomolecular networks and supporting knowledge representation networks. Technology, capable of designing cellular systems for specific functions and applications, has revolutionized molecular biology via the new area of synthetic biology- which focuses on design rather than analysis.

There have been numerous recent advancements in synthesizing biological networks in academia as well as the corporate world. At the same time, the field still must overcome several challenges.  This session aims to introduce novel engineering and other mathematical / computational methods that are successfully translated to yield significant biological applications. Another goal is to promote communication and collaboration of scientists from different arenas through this session.

Papers within the following areas of design and synthesis of networks are encouraged:  synthetic biology networks, bio-knowledge networks, and general mathematical/computational methods for network design/synthesis.

Some of the objectives of this session include:

1.                  Emphasize the guiding role that computational methods should play in the design/synthesis of biological networks.

2.                  Create a new paradigm whereby biocomputing researchers can take more active, leading role in synthetic biology.

3.                  Promote communication and collaboration by scientists from other areas, especially from mathematics, engineering, physics, biological, and medical communities.

4.                  Apply novel network-related methods from engineering and applied mathematics (e.g. information theory, game theory) from the last couple of years to biological network design and synthesis.


Paper Submission

Considering the popularity of biological network analysis, this PSB session was developed to have a special focus on design and synthesis of biological networks in order to encourage the research in this new area.  Both the biocomputing and biological community could benefit from exchanges of ideas and this could open up new research venues. This call for papers seeks original, high quality manuscripts which are not submitted or published elsewhere.  Please see guidelines below for details on paper format and submission details.


Paper Format and Submission Guidelines

Papers must be submitted to the PSB 2009 paper management system at

Please click the "Not a user? Create an account with this site" link to create an author account and upload your paper.

All papers must be submitted in electronic format to the paper management system. The file formats we accept are: postscript (*.ps) and Adobe Acrobat (*.pdf). Attached files should be named with the last name of the first author (e.g., altman.pdf, or Hardcopy submissions or unprocessed
TEX or LATEX files will be rejected without review.

Each paper must be accompanied by a cover letter. The cover letter must state the following:

  The email address of the corresponding author
•  The specific PSB session that should review the paper or abstract
•  The submitted paper contains original, unpublished results, and is not currently under consideration elsewhere.
  All co-authors concur with the contents of the paper.

Submitted papers are limited to twelve (12) pages in our publication format. Please format your paper according to instructions found at 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.

Color pictures can be printed at the expense of the authors. The fee is $500 per page of color pictures, payable at the time of camera ready submission.

Contact Russ Altman (psb.hawaii @ for additional information about paper submission requirements.


All deadlines are at midnight Pacific Standard Time.


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