Protein Structure Analysis: A Tools Approach
William Gleason, University of Minnesota
Eric A. Johnson
Time: 8:30am - 12:00pm
Location: California Ballroom A

Introduction to Perl Regexes for Bioinformaticians (part 1)
Damian Conway, Thoughtstream
Time: 8:30am - 12:00pm
Location: California Ballroom B

Introduction to Whole Genome Analysis
Darrell Ricke, Torrey Mesa Research Institute
Time: 8:30am - 12:00pm
Location: California Ballroom C

Integrated Access to Complex Genomes at the NCBI
Peter Cooper, The National Center for Biotechnology Information
Time: 8:30am - 12:00pm
Location: Plaza

Python for Structural Bioinformatics
Sophie Coon, The Scripps Research Institute
Michel Sanner, Ph.D., The Scripps Research Institute
Time: 8:30am - 12:00pm
Location: Sierra

Using Perl and Bioperl
James Tisdall
Time: 1:30pm - 5:00pm
Location: California Ballroom A

Introduction to Perl Regexes for Bioinformaticians (part 2)
Damian Conway, Thoughtstream
Time: 1:30pm - 5:00pm
Location: California Ballroom B

Relational Databases For Bioinformatics
Aaron Mackey, University of Virginia
Time: 1:30pm - 5:00pm
Location: California Ballroom C

An Introduction to Machine Learning with Perl
Ken Williams
Time: 1:30pm - 5:00pm
Location: Plaza
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XSLT for Bioinformatics
Doug Tidwell, IBM
Time: 1:30pm - 5:00pm
Location: Sierra

Perl 6: Citius, Altius, Fortius
Damian Conway, Thoughtstream
Time: 8:00pm - 10:00pm
Location: California Ballroom A

Bridging the Gap Between Researchers and Information with XML and Web Services
Time: 6:00pm - 7:00pm
Location: Plaza

Working Towards a Standardized Curriculum in Bioinformatics
Time: 7:00pm - 8:00pm
Location: Plaza

PeGASys: A Parallel Genome Annotation System
Francis Ouellette, University of British Columbia Bioinformatics Centre
Time: 8:30am - 9:15am
Location: California Ballroom

The Genes, the Whole Genes, and Nothing But the Genes
Jim Kent, UC Santa Cruz Genome Bioinformatics Group
Time: 9:15am - 10:15am
Location: California Ballroom
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MetaGraph Framework: A Knowledge Storage Platform That Breaks Out of the Relational Paradigm
John McNeil, Isis Pharmaceuticals
Alan Goates, Isis Pharmaceuticals
Time: 10:45am - 11:30am
Location: California Ballroom A & B
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Architecting, Building and Managing Production Bioclusters
Chris Dagdigian
Time: 10:45am - 12:15pm
Location: California Ballroom C
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Technologies that Enable Research
Loralyn Mears, Ph. D., Sun Microsystems, Inc.
Time: 10:45am - 11:30am
Location: Plaza

Graphical Interfaces for Composing Analyses
Tom Hudson, University of North Carolina at Wilmington
Time: 11:30am - 12:15pm
Location: California Ballroom A & B
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Accelerate Your Code Using the PowerPC G4 Velocity Engine
Ian Ollmann, Apple Computer, Inc.
Time: 11:30am - 12:15pm
Location: Plaza

Computing Infrastructure for Life Sciences: Confessions of an Open Source Zealot
Timothy Kunau, University of Minnesota
Time: 1:30pm - 2:15pm
Location: California Ballroom A & B
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Vector Space Methods for Structural Bioinformatics
Per Jambeck, University of California, San Diego
Time: 1:30pm - 2:15pm
Location: California Ballroom C
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New Tricks For a New Dog: The BioKnowledge Retriever
Matthew E. Crawford, Ph.D., Incyte-Proteome
Time: 1:30pm - 2:15pm
Location: Plaza
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Engineered Gene Networks
Jeff Hasty, Department of Bioengineering, University of California, San Diego
Time: 2:15pm - 3:00pm
Location: California Ballroom A & B

BioPerl: Reality vs. Myth
Nathan Goodman
Time: 2:15pm - 3:00pm
Location: California Ballroom C
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Key to a Successful Life Science Cluster
Ron Neyland, RLX Technologies, Inc
Time: 2:15pm - 3:00pm
Location: Plaza

A New Kind of Science and Foundations For Theory in Biology
Stephen Wolfram, Wolfram Research, Inc.
Time: 4:00pm - 4:45pm
Location: California Ballroom

Using Open Source Tools in a 21CFR11 Regulated Environment
R. Mark Adams, Variagenics, Inc.
Time: 5:00pm - 5:45pm
Location: California Ballroom A & B
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Swarms and Wrappers: Making High-performance Computing Accessible to Bench Scientists
Susan Chacko, Center for Information Technology, National Institutes of Health
Time: 5:00pm - 5:45pm
Location: California Ballroom C
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Mac OS X: The Ultimate Unix Research Platform
Ernest Prabhakar, Apple, UNIX & Developers, Mac OS X Product Marketing
Time: 5:00pm - 5:45pm
Location: Plaza

Music
James Tisdall
Time: 7:00pm - 9:00pm
Location: California Ballroom

Scientific Research on Mac OS X
Time: 7:00pm - 8:00pm
Location: Plaza

Optimizing Bioinformatics Algorithms for the Altivec Vector Engine
Time: 8:00pm - 9:00pm
Location: Plaza

Bioinformatics: Gone in 2012
Lincoln D. Stein, Cold Spring Harbor Laboratory
Time: 8:30am - 9:15am
Location: California Ballroom

Alternative Splicing and Gene Regulation
Steven Brenner, UC Berkeley
Time: 9:15am - 10:15am
Location: California Ballroom
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Integrating Distributed Bioinformatics Data Using Data Webs
Robert Grossman, Laboratory for Advanced Computing, University of Illinois at Chicago
Time: 10:45am - 11:30am
Location: California Ballroom A & B
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An Open Source Implementation of Life Science Identifier (LSID) Data Access
Brian King, Sun Microsystems, Inc.
Time: 10:45am - 11:30am
Location: California Ballroom C
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Developing The Open Lab
J. W. Bizzaro, Bioinformatics.Org
Time: 10:45am - 11:30am
Location: Plaza

Bioinformatics in the Large vs. Bioinformatics in the Small
Christopher Lee, UCLA Bioinformatics
Time: 11:30am - 12:15pm
Location: California Ballroom A & B
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How Not To Use BLAST
Christopher Dwan, University of Minnesota
Time: 11:30am - 12:15pm
Location: California Ballroom C
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Biopackage Repository and BioBrew Linux Projects
Glen Otero, Linux Prophet
Time: 11:30am - 12:15pm
Location: Plaza
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The MAGE Project
Jason Stewart, Open Informatics
Time: 1:30pm - 2:15pm
Location: California Ballroom A & B

Patterns in Bioinformatics Project Management
Maury Leysens
Time: 1:30pm - 2:15pm
Location: California Ballroom C
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Blastology and Open Source: Needs and Deeds
Iddo Friedberg, The Burnham Institute
Time: 1:30pm - 2:15pm
Location: Plaza
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The TIGR Microarray Data Manager, MADAM
Joseph White, The Institute for Genomic Research
Time: 2:15pm - 3:00pm
Location: California Ballroom A & B
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Bioinformatics Data Integration Approaches via SOAP Web Services and XML
Jurgen Kaljuvee
Time: 2:15pm - 3:00pm
Location: California Ballroom C
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The Open Notebook Project: How to Collate and Keep Updated Data from Scientific Web Sites
Gregory Quinn, San Diego Supercomputer Center
Time: 2:15pm - 3:00pm
Location: Plaza

Teaching Bioinformatics
Helge Weissig, Ph.D., ActivX Biosciences, Inc.
Time: 4:00pm - 4:45pm
Location: California Ballroom A & B

Functional Genomics: Integration of Computational, Visualization and Genomic Database Annotation Tools for Biological Pathway Analysis
Michael Caudy, Ph.D., Burke Medical Research Institute
Time: 4:00pm - 4:45pm
Location: California Ballroom C

Building your own Bioinformatics Supercomputer for Cheap Using Grid Technology
Bill Day, Sun Microsystems, Inc.
Doris Chen, Ph.D., Sun Microsystems, Inc.
Time: 4:00pm - 4:45pm
Location: Plaza
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caCORE: Infrastructure for Communal Biomedical Informatics
Peter Covitz, NCI Center for Bioinformatics
Time: 4:45pm - 5:30pm
Location: California Ballroom A & B

Converting Serial to Parallel Database Loads
Steven Lembark, Workhorse Computing
Time: 4:45pm - 5:30pm
Location: California Ballroom C
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The SLRITools Project: Providing a Platform for Bioinformatics Research
Michel Dumontier, SLRI / University of Toronto
Time: 4:45pm - 5:30pm
Location: Plaza
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Establishing Standards and Infrastructure for Sharing Microarray Data
Alvis Brazma, European Bioinformatics Institute
Time: 8:30am - 9:15am
Location: California Ballroom
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Java for Numerical Computing: A Tour Through Issues and Directions in the Use and Evolution of Java for Numerical Computing
James Gosling, Sun Microsystems
Time: 9:15am - 10:00am
Location: California Ballroom

Best Practices for Designing XML Schemas for Bioinformatics
Ayesha Malik, Object Machines
Time: 10:45am - 11:30am
Location: California Ballroom A & B
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The Hidden Models Revealed: a survey of HMM databases
Martin Gollery, University of Nevada, Reno
Time: 10:45am - 11:30am
Location: California Ballroom C
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The I3C Vision
Tim Clark, Millennium Pharmaceuticals
Time: 10:45am - 11:30am
Location: Plaza

Creating and Using Multi-protocol Bioinformatic Web Services
Jesus Castagnetto, Scripps Research Institute
Time: 11:30am - 12:15pm
Location: California Ballroom A & B
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Genomic Data Platform: RGD Data Curation System
Jian Lu, Medical College of Wisconsin
Time: 11:30am - 0:15am
Location: California Ballroom C
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Update on the I3C Technical Committee
Jill Kaufman, IBM Life Sciences
Time: 11:30am - 12:15pm
Location: Plaza

Using Latent Semantic Analysis in Bioinformatics
John Cuadrado
Maciej Ceglowski, National Institute for Technology and Liberal Education
Time: 1:30pm - 3:00pm
Location: California Ballroom A & B
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myGrid: Directly Supporting the "e-Scientist"
Alan Robinson, EMBL European Bioinformatics Institute
Time: 1:30pm - 2:15pm
Location: California Ballroom C
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Life Science Identifiers
Philip Werner, AVAKI
Sean Martin, IBM
Time: 1:30pm - 2:15pm
Location: Plaza
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Visualization Considerations for Real Time Viewing
Michael A. Schulman, Sun Microsystems, Inc.
Time: 2:15pm - 3:00pm
Location: California Ballroom C

Life Science Identifiers: Demo
Philip Werner, AVAKI
Sean Martin, IBM
Time: 2:15pm - 3:00pm
Location: Plaza

Lightning Talks
R. Geoffrey Avery, GlaxoSmithKline
Time: 3:30pm - 4:15pm
Location: California Ballroom