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FRONTIERS OF BIOINFORMATICS: UNSOLVED PROBLEMS AND CHALLENGES

October 15-17, 2004

Beckman Center of the National Academies

100 Academy Drive, Auditorium

Irvine, California

Organized by Samuel Karlin, David Eisenberg and Russ Altman

PROGRAM

Friday, October 15

7:45 pm

Buses Depart Hyatt Newporter for Beckman Center

8:00-10:00 pm

Registration, Welcome Reception, and Poster Session

10:00 pm

Buses Depart Beckman Center for Hyatt Newporter

Saturday, October 16

7:15 am and

7:45 am

Buses Depart Hyatt Newporter for Beckman Center

7:30 am

Breakfast

Opening Comments

8:30 am

Samuel Karlin (Stanford University)

Session I: Informatics of the Human Genome (8:35 am – 12:10 pm)

Chair

Samuel Karlin (Stanford University)

8:35 am

George Miklos (Secure Genetics Pty Limited and Human Genetic Signatures Pty Limited), Clinical Challenges for Bioinformatics

9:20 am

Mark Gerstein (Yale University), Human Genome Annotation

10:05 am

Break

10:35 am

David Haussler (University of California, Santa Cruz), Using Evolution to Explore the Human Genome

11:20 am

Pavel Pevzner (University of California, San Diego), Transforming Men into Mice (and into Cats, Dogs, Cows, Rats, Chimpanzees, etc.): Evolutionary Lessons from Mammalian Sequencing and Comparative Mapping Projects

12:10 pm

Lunch

Session II: Motifs and Genomics (1:30–3:00 pm)

Chair

Russ Altman (Stanford University)

1:30 pm

Peer Bork (European Molecular Biology Laboratory), Genome Evolution and Protein Networks

2:15 pm

Phil Green (Howard Hughes Medical Institute and University of Washington), Signal and Noise in Genomic Sequences

3:00 pm

Break



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Frontiers of Bioinformatics: Unsolved Problems and Challenges FRONTIERS OF BIOINFORMATICS: UNSOLVED PROBLEMS AND CHALLENGES October 15-17, 2004 Beckman Center of the National Academies 100 Academy Drive, Auditorium Irvine, California Organized by Samuel Karlin, David Eisenberg and Russ Altman PROGRAM Friday, October 15 7:45 pm Buses Depart Hyatt Newporter for Beckman Center 8:00-10:00 pm Registration, Welcome Reception, and Poster Session 10:00 pm Buses Depart Beckman Center for Hyatt Newporter Saturday, October 16 7:15 am and 7:45 am Buses Depart Hyatt Newporter for Beckman Center 7:30 am Breakfast Opening Comments 8:30 am Samuel Karlin (Stanford University) Session I: Informatics of the Human Genome (8:35 am – 12:10 pm) Chair Samuel Karlin (Stanford University) 8:35 am George Miklos (Secure Genetics Pty Limited and Human Genetic Signatures Pty Limited), Clinical Challenges for Bioinformatics 9:20 am Mark Gerstein (Yale University), Human Genome Annotation 10:05 am Break 10:35 am David Haussler (University of California, Santa Cruz), Using Evolution to Explore the Human Genome 11:20 am Pavel Pevzner (University of California, San Diego), Transforming Men into Mice (and into Cats, Dogs, Cows, Rats, Chimpanzees, etc.): Evolutionary Lessons from Mammalian Sequencing and Comparative Mapping Projects 12:10 pm Lunch Session II: Motifs and Genomics (1:30–3:00 pm) Chair Russ Altman (Stanford University) 1:30 pm Peer Bork (European Molecular Biology Laboratory), Genome Evolution and Protein Networks 2:15 pm Phil Green (Howard Hughes Medical Institute and University of Washington), Signal and Noise in Genomic Sequences 3:00 pm Break

OCR for page 1
Frontiers of Bioinformatics: Unsolved Problems and Challenges Session III: Protein-Protein Interactions (3:30–6:00 pm) Chair Valerie Daggett (University of Washington) 3:30 pm David Eisenberg (University of California, Los Angeles), Protein Interactions 4:15 pm Hanah Margalit (The Hebrew University of Jerusalem), From Cellular Networks to Molecular Interactions and Back 5:00 pm Shoshana Wodak (Hospital for Sick Children), Protein-Protein Interactions: The Challenge of Predicting Specificity 6:15 Reception and Poster Session 8:00 Dinner Russell F. Doolittle (University of California, San Diego), Regarding Irreducible Complexities, Introduced by David Eisenberg (University of California, Los Angeles) 10:30 Buses Depart Beckman Center for Hyatt Newporter Sunday, October 17 7:15 am and 7:45 am Buses Depart Hyatt Newporter for Beckman Center 7:30 am Breakfast Session IV: Regulation with RNA and Aspects of Splicing (8:30–10:45 am) Chair David Eisenberg (University of California, Los Angeles) 8:30 am Sean Eddy (Washington University, St. Louis), The Modern RNA World: Computational Screens for Noncoding RNA Genes 9:15 am Christopher Burge (Massachusetts Instittue of Technology), Toward an RNA Splicing Code 10:00 am Christopher Lee (University of California, Los Angeles), Discovering Evolutionary Mechanisms from Multiple Metrics of Molecular Evolution 10:45 am Break Session V: Protein Structure (11:00 am – 12:30 pm) Chair George Miklos (Secure Genetics Pty Limited and Human Genetic Signatures Pty Limited) 11:00 am Helen Berman (Rutgers University), Probing the PDB 11:45 am Michael Levitt (Stanford University), Structural Alignment and Classification of all Known Protein Structure 12:30 pm Lunch Session VI: Transcription and Translation in Eukaryotic Genomes (1:30–4:45 pm) Chair George Miklos (Secure Genetics Pty Limited and Human Genetic Signatures Pty Limited) 1:30 pm Volker Brendel (Iowa State University), Comparative Plant Genomics: Evaluation of the Model Genome Concept 2:15 pm Terry Gaasterland (Rockefeller University and University of California, San Diego/SIO), Lessons from the Arabadopsis Genome: Decoding Evidence for Novel Transcription 3:00 pm Break 3:15 pm Russ Altman (Stanford University), Building Genotype Phenotype Data Resources 4:00 pm Samuel Karlin (Stanford University), Highly Expressed Genes Based on Codon Usage Biases in Archaeal and Eukaryotic Genomes 5:00 pm Buses Depart Beckman Center for Hyatt Newporter and Orange County Airport