Call for Papers and Posters
Molecular Bioinformatics for Diseases: Protein
Interactions and Phenomics
Pacific Symposium on Biocomputing Session
January 4-8, 2008
Fairmont Orchid, Big Island
Hawaii, U.S.A.
This session
focuses on the emerging fields of protein interactions in diseases and
phenomics: from protein-protein interactions to supracellular phenotypes. Experimental studies indicate that
protein interactions play a key role in many diseases, even in some that are
considered complex or multifactorial. While altered phenotypes are among the
most reliable manifestations of altered gene functions, research focused on
systematic analysis of phenotype relationships to study human biology is still
in its infancy. We the word phenome and phenomics to describe the physical
totality of all traits of an organism (Mahner, J Theor Biol 1997 186:55-63). We
are seeking original research that aims to capitalize on novel computational
methods and technological developments in informatics to derive disease
predictions from protein interactions of phenomic datasets and networks. The
goal of this session is to bring together bioinformaticians, systems
biologists, biomedical informaticians, physicians, pharmacologists, computer
scientists, statisticians, members of the pharmaceutical industry and others to
share their experience and scientific findings in this area.
We would like to
invite contributions addressing informatics approaches to analyzing how diseases
are determined at any scale of biology: from protein interactions to organismsÕ
phenotypes. In this context, submission topics can include, but are not limited
to:
(i) protein
interactions:
á
protein-protein
interactions
á
protein-DNA/RNA
interactions
á
analysis of protein networks and systems analysis of
disease
á
studies in cis/co- regulation
á
effects of SNPs and haplotypes on protein interactions
á
studies in protein misfolding or aggregation as related
to the emergence of diseases
á
protein interactions in drug discovery: drug design and
target selection
(ii) phenomics:
á
Fundamental properties
emerging from phenome-genome networks or new methods to generate associations
from these multi-scale networks
á
Comparative phenomics or
determination of shared molecular mechanisms of phenotypes from genomic
analyses
á
Integrative phenomics or
methods to integrate large datasets comprising heterogeneity of measurements
and representation at the molecular level and phenotypic levels
á
Discovery systems predicting
gene-phenotype associations or supracellular biological processes associated
with genes, gene products or molecular functions
á
Significant innovation in
standards for exchanging and reusing phenomes or phenotypes associated with
genetic or model organism databases or electronic medical records.
á
Original methodologies for
quantitative trait loci or other genetic analyses that also include prior
probabilities derived from high throughput phenomic studies
á
Visualization systems for
cross-scale genome-phenome networks
Other topics within the subject area
are welcome. Note that all submitted papers
should make clear their relevance for the study of disease. If unsure
whether your paper fits the session theme, please contact one of the co-chairs.
Session Co-Chairs (alphabetical order)
Stanford University
abutte@stanford.edu
National Center of Biotechnology Information, NIH at the
Structure Group
kann@mail.nih.gov
The
University of Chicago
Lussier@uchicago.edu
Columbia University
yanay.ofran@columbia.edu
Columbia University
punta@cubic.bioc.columbia.edu
Indiana University
predrag@indiana.edu
Submission Information
Please note that the submitted papers are reviewed and
accepted on a competitive basis. At least three reviewers will be assigned to
each submitted manuscript.
Important Dates
Paper submissions due: July 16, 2007
Notification of paper acceptance: September 5, 2007
Final paper deadline: September 24, 2007 at midnight PDT
Poster abstract deadline: November 9, 2007
Paper Format
All papers must be submitted to psb-submit @ helix.stanford.edu in
electronic format with PSB in the subject line. The file formats we accept are: Adobe
Acrobat (*.pdf) and postscript (*.ps). Attached files should be
named with the last name of the first author (e.g. altman.pdf or altman.ps). 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:
á
The email address of the corresponding author
á
The specific PSB session that should review the paper
or abstract
á
The submitted paper contains original, unpublished
results, and is not currently under consideration elsewhere.
á
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 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.
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 for
additional information about paper submission requirements.