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 2000 PSB sessions are:
Each paper must be accompanied by a cover letter. The cover letter must state the following:
Submitted papers are limited to twelve (12) pages in our publication format. Please format your paper according to instructions found at ftp://ftp-smi.stanford.edu/pub/altman/psb/. 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 (email@example.com) for additional information about paper submission requirements.
As more genomes become sequenced and more genes are located, the identification and characterization of gene functions on a large-scale (i.e. functional genomics) is the great new challenge to the various genome projects. The advent of large-scale "transcriptomic" and "proteomic" technologies, provides a new type of data, as well as new approaches to discover and characterize gene expression patterns and associated regulatory sequence elements. Developing and validating these new approaches is essential to the future of functional genomics.
Michael Q. Zhang, Ph.D.
Phone: (516) 367-8393
Fax: (516) 367-8461
The growth of activity in the areas of gene expression analysis, proteomics and metabolic analysis has opened dramatic new potential for the modeling and analysis of biomolecular networks. This session will focus on three areas:
Roland Somogyi, Ph.D.
The session "Analysis, Management and Application of SNP Data" aims to provide a timely forum on the computational challenges to handle and analyze the impending flood of polymorphism data, and to address the forthcoming problems in the utilization of this information in human genetics, pharmacogenetics, and populational genetics studies.
Francisco M. De La Vega
Tel: (650) 638-6989
Fax: (650) 638-6666
In order to establish an integrated study of the function of proteins, it is necessary to combine sequence, structure, and functional analysis in the context of their evolutionary history and their role in the organismal genome. This track will encompass all aspects of structural genomics. The track will also cover use of evolutionary analysis to infer and explain the structure, function, and the evolutionary dynamics of protein and genome sequences.
David D. Pollock, Ph.D.
We solicit contributions covering any aspect of the use of natural language processing in extracting information from biology sources such as MEDLINE abstracts, journal articles, and GenBank report annotations. We particularly encourage submissions describing implemented algorithms and techniques and submissions describing novel applications of natural language processing in biology.
tel: (+65) 874 8406
fax: (+65) 774 4990
The Protein Structure Prediction in Biology and Medicine session is dedicated to protein structure prediction and its application to understanding protein function in the context of important biological problems. We will review successful applications of protein structure prediction in cases of general interest for biology and medicine, presenting examples where structure prediction provided unique insights and guidance for experiment. We will also examine other sequence-structure relationships in proteins, including dynamic structural features, that may be important for function. For instance structure flexibility and disorder are often hypothesized as being crucial for many aspects of protein function. Finally, we will evaluate and compare specific assumptions and methodologies used for protein structure prediction, as well as novel methodological developments.
Adam Godzik, PhD
tel: (619) 646 3168
fax: (619) 646 3171
This session will address novel methods and developing ideas in the areas of chemical database analysis and bioactive structure prediction. More specifically, we plan to discuss novel metrics and functions for the description and comparison of organic molecules, current approaches to diversity and similarity sampling of molecular databases, combinatorial library design applications, and quantitative modeling of structure-activity relationships (QSAR).
tel: (919) 966-2955
Information theory offers a number of fertile applications to biology. These applications range from statistical inference to foundational issues. The applications of information theory can be broadly categorized into two main areas. These are:
This session will focus on the automated process of discovery of novel and useful patterns or motifs in molecular databases. A primary objective of the session will be on the mining of sequence and structure databases in order to gain an increased understanding of the underlying relationships among sequence, structure and function.
tel: (613) 533-6058
fax: (613) 533-6513
This session deals with tools and techniques for visualization and interaction in support of computational biology and bioinformatics, including but not limited to, interactive visualization of molecules, sequence data, and databases, interactive steering of computations, and standardization efforts related to visualization of and interaction with biological data. During the conference, we plan to have low- and high-end workstations available for live demonstrations. The ultimate goal of this session is to provide a forum for presentation of recent results and discussion among tool developers, researcher, and practitioners in visualization, user interaction, computational biology, and bioinformatics.
tel: (706) 542-5799
fax: (706) 542-2966