www.VirtualGenomics.Org

Fifth Virtual Conference on Genomics and Bioinformatics


Sharing Knowlegde with the World

October, 25-28, 2005
Overview
Agenda & Programs
Speakers
Hotel & Travel
Sponsors & Exhibitors
Tuesday, October 25
13:00 -13:15 UTC
08:00 -08:15 EDT
Willy A. Valdivia Granda, Orion Integrated Biosciences Inc.
Opening of the Virtual Conference on Genomics and Bioinformatics
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Computational Chemistry
Discussion Leader: Kim Baldridge, Universität Zürich, Switzerland

This track will feature researchers working on computer-assisted simulation of molecular systems and the analysis of their properties by formalisms based on quantum mechanics, classical mechanics and other mathematical techniques. Researchers in this track are developing new theories and computer programs to calculate the properties of molecules (such as total energy, dipole moment, vibrational frequencies) and to apply these advances to problems of biological significance.

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Alberto Garcia, Universidad del Pais Vasco. Spain
First-principles Electronic-Structure Calculations for Biological Systems with the SIESTA code

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Daniele Passerone, University of Zürich. Switzerland
Photochemistry Meets Physics: Semiclassical Dynamics of Light-driven Molecular Switches

Video
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Ari P Seitsonen, Université Pierre et Marie Curie. Finland
Surface Chemistry and Catalysis: Atomic-scale glimpse of reactions at ruthenium dioxide surfaces

Abstract
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Amit Majumdar, San Diego Supercomputer Center. USA
Grid Enabled Image Guided Neurosurgery Using High Performance Computing
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Forum Discussion
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Structural Genomics Track
Discussion Leader: Maricel Kann, National Institutes of Health

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Phil Bourne University of California San Diego. USA
Functional Coverage of the Human Genome by Existing Structures, Structural Genomics Targets and Homology Models

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Julie Bernauer, Yeast Structural Genomics - IBBMC UMR. France
A new Protein-Protein Docking Scoring Function Based on Interface Residues Properties

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Teresa Przytycka National Institutes of Health. NCBI. USA
Genomics meets Graph Theory

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Anna Panchenko, National Institutes of Health. NCBI. USA
Evolution of protein structures: Analysis of Protein Loops
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Wednesday, October 26

Ethics, Education, Biomedical Research Networks (INBRE) and the Government
Discussion Leaders
Steve Jennings, University of Arkansas at Little Rock. USA
Krishan Arora, National Institutes of Health. USA

The sequencing of the genome of several species is allowing a better understanding of the structure and dynamics of biological systems. This research is also challenging researchers with new ethical issues about the use of this information and the sharing of the benefits. At the same time, genomic advances are challenging the development of new curricular programs that can adapt to new advances. In this regard, the ethics and education track will provide an open forum for researchers, educators and ethics worldwide to discuss the challenges and opportunities dealing with training of a new generation of researchers and the social implications of the genomics, bioinformatics and nanotechnology.
Discussion Leaders Remarks
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Tan Tin Wee Bioinformatics Centre. National University of Singapore. Singapore
S* Alliance Introductory Bioinformatics Online Course
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Krishan Arora, National Institutes of Health. USA
INBRE – Bioinformatics in Research and Education at IDeA Institutions
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Chris Dwan The BioTeam. USA
BioTeam's iNquiry: Bridging the Gap Between Cluster Computing and the User
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Tamara Zemlo, The Science Advisory Board. USA
Balancing the Promise and Peril of Pharmacogenomics
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Marcella A. McClure, Montana State University. USA
Lariat Provides New Collaborative Opportunities for the Northwest
Abstract
Video
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Carol Lushbough, University of South Dakota. USA
South Dakota INBRE Bioinformatics Core Group's Novel Approach to Minority Mentoring Experience
Video
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Eric Rouchka, University of Louisville. USA
Statewide Bioinformatics in Kentucky
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Panel Discussion:
Scott Little, University of South Carolina, USA
John Rose, University of South Carolina, USA
Deanne Taylor, Serono Reproductive Institute. USA
Vivian Stojanoff, Brookhaven National Laboratory. USA
The X6A workbench experience Slides
John Baynes, University of South Carolina, USA

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Genomics of Cancer and Bioinformatics for Toxicogenomics
Discussion Leader:Willy A. Valdivia-Granda, Orion Integrated Biosciences, Inc.

The goals of the toxicogenomics track is to feature researchers trying to elucidate molecular mechanisms of involved in studying: a) cellular responses to environmental stresses, b) how responses to environmental stressors extrapolate from one species to another; c) identify toxicant-specific and adverse effects-specific patterns of gene expression; d) develop gene expression-based biomarkers to particular toxic components; e) develop a bioinformatic tools to integrate genomic data dealing with the effects of toxicological compounds.

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Susanna-Assunta Sansone. The European Bioinformatics Institute. UK
ToxicogenOMICS Omics standards, resources and data at EBI
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Daniel Rubin, Stanford University. USA
Moving Beyond Ontology Libraries: Integrating and Accessing Biomedical Ontologies to Annotate Experimental Data
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Vladimir A. Kuznetsov., Genome Institute of Singapore. Singapore
How the Semantic Web Will Revolutionize Informatics Data Integration
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Dennis Quan. IBM T. J. Watson Research Center. USA
How the Semantic Web Will Revolutionize Informatics Data Integration
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Keith Dunker University of Indiana. USA
Intrinsic disorder in Cell-Signaling and Cancer-associated Proteins

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Susan Wilson. Australian National University. Australia
Some Fundamental Considerations in Interpretation of Gene-expression Profile Data with Applications to Cancer Research
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Thursday, October 27

Biocomplexity and Systems Biology
Alissa Resch, National Institutes of Health

Systems biology and biocomplexity aims to integrate the knowledge of biologists, mathematicians, engineers, and computer scientists with those of evolutionary biologists, pharmacologists, and pathologists to produce a robust and comprehensive understanding of the multiresulution interactions within living cells. This track will focus on research that has a computational component, but is strongly coupled with and relevant for experimental investigationsgations and advanced visualization tools.
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John Mattick, University of Queensland. Australia
The hidden layer of noncoding RNA in the evolution and genetic programming of complex organisms
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Richard J. Feldmann. Global Determinants Inc. USA
Understanding the Control of Gene Expression in Large and Small Genomes by means of the Computational Determination of Connectrons
Eugene Koonin. National Institutes of Health. USA
Evolutionary Systems Biology
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M. Madan Babu, National Institutes of Health. USA
Insights into the Structure, Evolution and Dynamics of Transcriptional Regulatory Networks
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Jason Papin. University of Virginia. USA
Intracellular Signaling Networks: Reconstruction and Analysis
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Biocomplexity/ Artificial and Synthetic Life

This track will feature researchers studying life through the use of human-made analogs of living systems. The synthetic life aspect of this track will feature researchers focus in stretching the boundaries of life and machines until the two overlap to yield truly programmable organisms.
Discussion Leader Remarks
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Michael Ellison. University of Alberta. Canada
Modeling Cell Function by Discrete Automata: Simple Rules for Complex Behaviour
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Friday, October 28

Infectious Diseases
Discussion Leader
Orli G. Bahcall

Less than 10% of the world's resources for health research are devoted to 90% of the world's health problems. The infectious diseases track will aim to present the recent developments in the application of genomic and computational tools to find relevant targets for vaccines and drugs against tropical, sexually transmitted diseases and other pathogens afflicting large number of people. This track will also focus in the understanding of signaling, regulatory and metabolic pathways involved in immunity and molecular aspects of host-parasite relationships.
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Pandjassare Kangueane. Nanyang Technological University. Singapore
Designing Peptide Vaccine Rhetoric or Reality
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