NEW: The completed Detailed Conference Schedule (with times for all of the lectures) has been added.

Ewan Birney, European Bioinformatics Institute , Hinxton, UK
Ensembl, annotation of large metazoan genomes

Luciano Brocchieri, Stanford University, Stanford, CA
Comparative Analysis of Protein Lengths and Amino Acid Usages among the Three Domains of Life.

Chris Burge, MIT, Cambridge, MA
Predicting Splicing Enhancers

Laurent Duret, University Claude Bernard, Lyon, France
Isochore Organization of Mammalian Genomes: Selection or Neutral Evolution?

Mark Gerstein, Yale University, New Haven, CT
Integrative Genomics beyond the Genes: Computational Analyses of Pseudogenes and Expression Data

Nick Grishin, Howard Hughes Medical Institute, Huston, TX
Remote Homology Detection and Protein Classification

Austin Hughes, University of South Carolina, Columbia, SC
Testing Hypotheses of Genome Duplication

Alexy S. Kondrashov, NCBI, NIH, Bethesda, MD
A Direct Estimate of Human per Nucleotide Spontaneous Mutation Rates at 20 Loci Causing Mendelian Diseases

Eugene V. Koonin, NCBI, NIH, Bethesda, MD
Back to RNA World through Comparative Genomics

John M. Logsdon, Jr., Emory University, GA
Origin and Evolution of Meiosis: Complex Machinery of Sex

Hanah Margalit, Hebrew University, Jerusalem, Israel
From Database Information to Prediction of Protein-DNA and Protein-Protein Interaction

Chris Ponting, Oxford University, Oxford, UK
The Natural History of Domains

Milton H. Saier,Jr., University of California SD, CA
Genome archeology leading to the characterization and classification of transport proteins

Gary D. Stormo, Washington University Medical School, MO
Probabilistic Codes for DNA-Protein Interactions

Kenneth Wolfe, University of Dublin Trinity College, Dublin, Ireland
The 2R hypothesis and the human genome sequence

Igor Zhulin, Georgia Institute of Technology, GA
Can Bioinformatics Tackle Signal Transduction?

Yeung, K. Y. Fraley, C. Murua, A. Raftery, A. E. Ruzzo, W. L.
University of Washington, USA
Model-Based Clustering and Data Transformations for Gene Expression Data

Eva Bolten, Alexander Schliep, Sebastian Schneckener, Dietmar Schomburg and Rainer Schrader
University of Keln, Germany
Clustering Protein Sequences - Structure Prediction by Transitive Homology

Samuel Levy, Sridhar Hannenhalli and Christopher Workman
Celera Genomics Corporation, USA
Enrichment of regulatory signals in conserved non-coding genomic sequence

Martin C. Frith, Ulla Hansen and Zhiping Weng
Boston University, USA
Detection of cis-element clusters in higher eukaryotic DNA

Andrey Rzhetsky and Shawn M. Gomez
Columbia University, USA
Birth of scale-free molecular networks and the number of distinct DNA and protein domains per genome

Piero Fariselli and Rita Casadio
Centro Interdipartimentale per le Ricerche Biotecnologiche, ITALY
Prediction of disulfide connectivity in proteins

Artemis G. Hatzigeorgiou, Petko Fiziev, and Martin Reczko
Metagen GmbH, Ihnestr.63, 14195 Berlin, Germany
DIANA-EST: a statistical analysis

I. King Jordan, Fyodor A. Kondrashov, Igor B. Rogozin, Roman L. Tatusov, Yuri I. Wolf and Eugene V. Koonin
National Center for Biotechnology Information, USA
Genomic Scale Relative Rates Test and the Detection of Functional Diversification among Bacterial, Archaeal and Eukaryotic Proteins

A Biosystems Network Ontology Based on Petri Nets
John Ambrosiano and Joseph S. Oliviera,
Los Alamos National Laboratory; Pacific Northwest National Laboratory, USA

Reconstructing ORFs for the EST and mRNA Assemblies in the AllGenes Gene Index Project.
Vladimir Babenko, Brian Brunk, Jonathan Crabtree, Li Li and Christian Stoeckert
University of Pennsylvania, USA

Gene Finding Applications of New Models of RNA-mRNA Interactions
John Besemer, Alex Lomsadze and Mark Borodovsky
Georgia Institute of Technology, USA

Robust Cluster Analysis of DNA Microarray Data: An Application of Nonparametric Correlation Dissimilarity
David R. Bickel
Medical College of Georgia, USA

A Distributed Protein Visualization Application
Tolga Can
University of California at Santa Barbara, USA

Genome-Wide Comparative Analysis of Transcriptional Regulatory Regions
Yu Chen, Victor Olman, Ying Xu and Dong Xu
University of Tennessee; Oak Ridge National Laboratory, USA

Comparing Protein Clustering Methods Using the Arabidopsis Proteome
Christine G. Elsik and William R. Pearson
University of Virginia, USA

New Features of FPC (FingerPrinted Contigs) V6.0
F. Engler, J. Hatfield, S. Blundy, S. Ness and C. Soderlund
Clemson University, USA
Genome Sequence Centre, British Columbia Cancer Agency, CANADA

Sequencing and Comparison of Orthopoxviruses
Michael Frace, Melissa Olsen-Rasmussen, Roger Morey, Yu Li, Miriam Laker, Richard Kline, Scott Sammons, Inger Damon, Robert Wohlhueter, Joseph J. Esposito, Ming Zhang
Centers for Disease Control and Prevention, USA

In Silico Prediction of the Transcriptional Regulation of Human Genes
M.C. Frith, J. Spouge, U. Hansen and Z. Weng
Boston University, USA

Identification of Sequence and Structural Determinants of Functional Diversification using Site Specific Amino Acid Variation Profiles
Daniel S. Gonzalez, G. Reid Bishop and I. King Jordan
US Department of Agriculture; Millsaps College; National Center for Biotechnology Information, USA

Prediction of Gene Function within a Family of Related Proteins: A Case Study of the Xanthine Oxidase Family.
Nikolai V. Ivanov and Dale E. Edmondson
Emory University, USA

PlasmoDB: an Example of Using GUS and RAD to Build a Database for Malaria Researchers that Combines Mapping, Sequence and Expression Data
Jessica C. Kissinger, Brian Brunk, Jonathan Crabtree, Sharon J. Diskin, Martin J. Fraunholz, Gregory R. Grant, Dinesh Gupta, Shannon McWeeney, Arthur J. Milgram, David S. Roos, Jonathan Schug, and Christian J. Stoeckert Jr.
University of Pennsylvania, USA

An Analysis of Gene-Finding Approaches for Neurospora crassa
Eileen Kraemer, Jian Wang, Jinhua Guo, Samuel Hopkins, and Jonathan Arnold
The University of Georgia, USA

LumberJack Generates a Forest of Trees by Jackknifing Alignments
Carolyn J. Lawrence, R. Kelly Dawe, and Russell L. Malmberg
The University of Georgia, USA

mRNA Segment Scores of Neurospora crassa Genes Decrease Following Intron Splicing
Tong Lee, April C. Ashford, Kaee N. Ross, Giovanni Carter, LaTreace Harris and William Seffens

Rule and Dictionary-Based Text Mining to Cross-Reference Genes and Proteins to Relevant Journal Articles, and Clustering of Microarray Results by their Medline Associations using the CELL Platform
Julie Leonard, Toby Segaran, Hong Dang, Jeff Colombe, Jennifer Pan, Josh Levy
Incellico, Inc; North Carolina State University, USA
Clark Atlanta University; Georgia State University, USA

Application of Error-Driven Learning to Biologically-Significant Patterns in Protein Sequences.
Sergei Levin and Birgit H. Satir.
Albert Einstein College of Medicine, USA

Strategies for Improving Multiple Alignment of Retrotransposon Sequences
Renyi Liu and Eileen Kraemer
The University of Georgia, USA

Refining Function Prediction by Analyzing Site Specific Amino Acid Conservation: A Case of PAS Domain-Containing Chemoreceptors
Qinhong Ma, Barry L. Taylor and Igor B. Zhulin
Loma Linda University; Georgia Institute of Technology, USA

Predicting Class II MHC/Peptide Multi-Level Binding with an Iterative Stepwise Discriminant Analysis Meta-Algorithm
Ronna R. Mallios
University of California at San Francisco, USA

Prediction of the Transmembrane Regions of Beta Barrel Membrane Proteins with a Predictor Based on HMM and Neural Networks
P.L.Martelli, A.Krogh and R.Casadio
Centro Interdipartimentale per le Ricerche Biotecnologiche, ITALY
The Technical University of Denmark, DENMARK
University of Bologna, ITALY

Automated Annotation of Viral Genomes
Ryan Mills, John Besemer, Alex Lomsadze and Mark Borodovsky
Georgia Institute of Technology, USA

Comparative Genomics of Two-Component Signal Transduction in Pseudomonas aeruginosa and Vibrio cholera
Christophe Mougel and Igor B. Zhulin
Georgia Institute of Technology, USA

A New Approach to Sequence Assembly Using Divide-and-Conquer Algorithms
Hasan H. Otu and Khalid Sayood
University of Nebraska-Lincoln, USA

Integrated Genetic Map Service (IGMS)
Harald Pankow, Heike Pospisil, Alexander Herrmann, and Jens G. Reich
Max-Delbrueck-Center for Molecular Medicine, GERMANY

Mining SNPs for Associating Disease with Transcription Factor Binding Site Altered by Mutation
Julia Ponomarenko, Tatyana Merkulova, Galya Orlova, Elena Gorshkova, and Misha Ponomarenko
Institute of Cytology and Genetics, RUSSIA

Presence of ATG Triplets in Untranslated Regions of Eukaryotic cDNAs Correlates with a "Weak" Context of the Start Codon
Igor B. Rogozin, Alexey V. Kochetov, Fyodor A. Kondrashov, Eugene V. Koonin and Luciano Milanesi
National Center for Biotechnology Information, USA
Institute of Cytology and Genetics, RUSSIA
Istituto di Tecnologie Biomediche Avanzate, ITALY

Sequence-Structure Space and Resultant Data Redundancy in the Protein Data Bank
I.N. Shindyalov and P.E. Bourne
University of California at San Diego; The Burnham Institute, USA

Splice Site Prediction by Using Neural Networks: Revisited Topic
Yuan Tian, Naira Hovakimyan, Mark Borodovsky
Georgia Institute of Technology, USA

Identifying Number of Clusters in Gene Expression Data
Dali Wang, Habtom Ressom, Mohamad T. Musavi, and Cristian Domnisoru
University of Maine, USA

Expression Profiler: Software to Analyze and Visualize Gene Expression Profiles
Tao Wu and Eileen Kraemer
The University of Georgia, USA

Analysis of Gene Expression Data by Ellipsoid ART and ARTMAP
Rui Xu, Donald C. Wunsch II
University of Missouri, Rolla, USA

DIGIT: a Novel Gene Finding Program by Combining Gene-Finders
Tetsushi Yada, Yasushi Totoki, Yoshio Takaeda, Yoshiyuki Sakaki and Toshihisa Takagi
University of Tokyo; Genomic Sciences Center, RIKEN, JAPAN

A Visualization System for Protein Interaction Mapping
Yong Zhang, Hui Tian, Jonathan Arnold, Eileen Kraemer
The University of Georgia, USA

Parallelism between Fusion Peptides and Other Fusion Systems Revealed by an Exhaustive Search for Sequences with Potential for Dynamic Insertion into Membranes
Victoria Dominguez Del Angel, Jean-Paul Mornon and Isabelle Callebaut
Universite Pierre et Marie Curie, FRANCE

Prediction of N-Glycosylation Sites in Proteins
Ramneek Gupta, Eva Jung and Soren Brunak
Technical University of Denmark, DENMARK
Swiss Institute of Bioinformatics, SWITZERLAND

A DNA Repair System Specific for Thermophilic Archaea and Bacteria Predicted by Genomic Context Analysis
Kira S. Makarova, L. Aravind, Nick V. Grishin, Igor B. Rogozin and Eugene V. Koonin
National Center for Biotechnology Information; Uniformed Services University of the Health Sciences; University of Texas Southwestern Medical Center USA

Prediction of Structure, Function and Evolution of a Putative beta- Xylosidase in Escherichia coli using Bioinformatic Techniques.
Anuradha Raghunathan and James F. Preston, III
University of Florida, USA

The Phosphoproteome Predicted: Using Neural Networks for Predicting Kinase Substrate Sites
Thomas Sicheritz-Ponten, Nikolaj Blom and Soren Brunak
Technical University of Denmark, DENMARK

Phylogenomic Atlases for Sequenced Microbial Genomes
T. Sicheritz-Ponten, J.O. Andersson, D. Ussery, A.J- Roger, J. Logsdon, R. Hirt and T.M. Embley
Technical University of Denmark, DENMARK

Reannotation of the E. coli K12 Genome
Vera van Noort, Marie Skovgaard, Thomas schou Larsen and David Ussery
Technical University of Denmark, DENMARK
Utrecht University, THE NETHERLANDS

Genome Trees Constructed using Five Different Approaches Suggest New Major Bacterial Clades
Yuri I. Wolf, Igor B. Rogozin, Nick V. Grishin, Roman L. Tatusov, Eugene V. Koonin
National Center for Biotechnology Information, USA