August 19, Saturday
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| Tutorials - All Day |
August 20, Sunday
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Networks and Modeling
Moderator: TBA
Keynote
08:30 - 09:15
Gerald Edelman, The Neurosciences Institute
How Matter Becomes Imagination: From Brain Dynamics to Consciousness
09:15 - 09:40
Eugene P. van Someren, Lodewyk F.A. Wessels, Marcel J.T. Reinders, Delft University of Technology
Linear
Modeling of Genetic Networks from Experimental Data
09:40 - 10:05
Mathius Fellenberg, Biomax Informatics GmbH
Max-Planck-Institute f. Biochemistry
Kaj Albermann, Alfred Zollner, Biomax Informatics GmbH
H.W. Mewes, Max-Planck-Institute f. Biochemistry
Jean Hani, Biomax Informatics GmbH
Integrative
Analysis of Protein Interaction Data
Coffee
10:05 - 10:30
10:30 - 10:55
Maura Cárdenas-García, Jaime Lagúnez-Otero, Instituto de Química, UNAM, Ciudad Universitaria
Nikolai Korneev, Instituto Nacional de Astrofísica Optica y Electrónica
Efficient
Attractor Analysis Based on Self-dependent Subsets of Elements--An
Application to Signal Transduction Studies
10:55 - 11:20
Yukako Tohsato, Hideo Matsuda, Akihiro Hashimoto, Osaka University
A
Multiple Alignment Algorithm for Metabolic Pathway Analysis Using
Enzyme Hierarchy
11:20 - 11:45
Michael P.S. Brown, HNC
Small
Subunit Ribosomal RNA Modeling Using Stochastic Context-Free Grammars
11:45- 01:30
Lunch, Job Fair Recruitment Event, and BOFs
Networks and Modeling Related to Microarrays
Moderator: TBA
Keynote
01:30 - 02:15
J. Andrew McCammon, Chemistry and Biochemistry, UC San Diego
Dynamics of Molecular Recognition
02:15 - 02:40
Soumya Raychaudhuri, Joshua M. Stuart, Xuemin Liu, Peter M. Small, Russ B. Altman, Stanford University
Pattern
Recognition of Genomic Features with Microarrays: Site Typing of
Mycobacterium Tuberculosis
Strains
02:40 - 03:05
Andrea Califano, Gustavo Stolovitzky, Yuhai Tu, IBM Computational Biology Center
Analysis
of Gene Expression Microarrays for Phenotype Classification
Coffee
03:05 - 03:30
03:30 - 03:55
Roded Sharan, Ron Shamir, Tel-Aviv University
CLICK:
A Clustering Algorithm with Applications to Gene Expression Analysis
03:55 - 04:20
Yizong Cheng, University of Cincinnati
George M. Church, Harvard Medical School
Biclustering
of Expression Data
04:20 - 04:45
Norbert Brändle, Horng-Yang Chen, Horst Bischof, Vienna University of Technology; Hilmar Lapp
Novartis Research Institute, Vienna
Robust
Parametric and Semi-parametric Spot Fitting for Spot Array Images
05:00 - 07:00 Posters, Software Demos, Exhibits
07:00 - 09:00 Industry Night |
August 21, Monday
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Back to the Top | August 20 (Sun) | August 22 (Tues) | August 23 (Weds)
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Protein Structure and Modeling I
Moderator: TBA
Keynote
08:30 - 09:15
Harold A. Scheraga, Chemistry and Chemical Biology, Cornell University
Ab Initio Folding of Proteins
09:15 - 09:40
Piero Fariselli, Rita Casadio, University of Bologna
Prediction
of the Number of Residue Contacts in Proteins
09:40 - 10:05
Iddo Friedberg, Tommy Kaplan, Hanah Margalit, The Hebrew University-Hadassah Medical School
Glimmers
in the Midnight Zone: Characterization of Aligned Identical Residues
in Sequence-Dissimilar Proteins Sharing a Common Fold
Coffee
10:05 - 10:30
10:30 - 10:55
Pierre Baldi, Gianluca Pollastri, University of California Irvine; Claus A. F. Andersen, Søren Brunak, The Technical University of Denmark
Matching
Protein b-Sheet Partners by Feedforward and Recurrent Neural Networks
10:55 - 11:20
Maxim Shatsky, Zipora Y. Fligelman, Tel Aviv University, Ruth Nussinov, Tel Aviv University, IRSP-SAIC Lab of Experimental and Computational Biology
Haim J. Wolfson, Tel Aviv University
Alignment
of Flexible Protein Structures
11:20 - 11:45
Lukasz Jaroszewski, Adam Godzik, The Burnham Institute
Search
for a New Description of Protein Topology and Local Structure
11:45 - 12:10
J. Michael Sauder; Roland L. Dunbrack Jr., Fox Chase Cancer Center
Genomic
Fold Assignment and Rational Modeling of Proteins of Biological
Interest
Lunch and BOFs
12:10 - 01:30
Protein Structure and Modeling II
Moderator: TBA
Keynote
01:30 - 02:15
Leroy Hood, Institute for Systems Biology, University of Washington
Computing Life and Biological Complexity
02:15 - 02:40
Golan Yona, Michael Levitt, Stanford University
Towards
a Complete Map of the Protein Space Based on a Unified Sequence
and Structure Analysis of All Known Proteins
Gene Regulation I
Moderator: TBA
02:40 - 03:05
Harmen J. Bussemaker, University of Amsterdam
Hao Li, University of California, San Francisco
Eric D. Siggia, Rockefeller University
Regulatory
Element Detection Using a Probabilistic Segmentation Model
Coffee
03:05 - 03:30
03:30 - 03:55
Jaak Vilo, Alvis Brazma, European Bioinformatics Institute EBI
Inge Jonassen, University of Bergen
Alan Robinson, European Bioinformatics Institute EBI
Esko Ukkonen, University of Helsinki
Mining
for Putative Regulatory Elements in the Yeast Genome using Gene
Expression Data
03:55 - 04:20
Steve Hampson, Pierre Baldi, Dennis Kibler, Suzanne B. Sandmeyer, University of California Irvine
Analysis
of Yeast's ORF Upstream Regions by Parallel Processing, Microarrays,
and Computational Methods
04:20 - 04:45
Ian Holmes, University of California Berkeley
William J. Bruno, Los Alamos National Laboratory
Finding
Regulatory Elements Using Joint Likelihoods for Sequence and Expression
Profile Data
05:00 - 07:00 Posters, Software Demos, Exhibits
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August 22, Tuesday
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Back to the Top | August 20 (Sun) | August 21 (Mon) | August 23 (Weds)
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Sequence - Alignments, Families and Phylogeny I
Moderator: TBA
Keynote
08:30 - 09:15
Gene Myers, Celera Genomics Corporation, Rockville, MD
A Whole Genome Assembly of Drosophila and a Progress Report on the Human Genome
09:15 - 09:40
Eleazar Eskin, William Noble Grundy, Columbia University
Yoram Singer, Hebrew University
Protein Family Classification using Sparse Markov Transducers
09:40 - 10:05
Itsik Pe'er, Ron Shamir, Tel Aviv University
Spectrum
Alignment: Efficient Resequencing by Hybridization
Coffee
10:05 - 10:30
10:30 - 10:55
Bogdan Dorohonceanu, C.G. Nevill-Manning, Rutgers University
Accelerating
Protein Classification Using Suffix Trees
10:55 - 11:20
Rainer Spang, Duke University; Marc Rehmsmeier, Jens Stoye, German Cancer Research Center
Sequence
Database Search Using Jumping Alignments
11:20 - 11:45
Mary E. Cosner, Ohio State University
Robert K. Jansen, University of Texas-Austin
Bernard M.E. Moret, University of New Mexico
Linda A. Raubeson, Central Washington University
Li-San Wang, Tandy Warnow, Stacia Wyman, University of Texas-Austin
A
New Fast Heuristic for Computing the Breakpoint Phylogeny and
Experimental Phylogenetic Analyses of Real and Synthetic Data
11:45 - 12:10
Dan Gusfield, University of California, Davis
A
Practical Algorithm for Optimal Inference of Haplotypes from Diploid
Populations
Lunch, BOFs, and ISCB Business Session (open meeting)
12:10 - 01:50
Gene Regulation II
Moderator: TBA
01:50 - 02:15
Alexander Zien, Robert Kuffner, Ralf Zimmer, Thomas Lengauer
GMD-German National Research Center for Information Technology
Analysis
of Gene Expression Data with Pathway Scores
02:15 - 02:40
Pavel A. Pevzner, Sing-Hoi Sze, University of Southern California
Combinatorial
Approaches to Finding Subtle Signals in DNA Sequences
02:40 - 03:05
Saurabh Sinha, Martin Tompa, University of Washington
A
Statistical Method for Finding Transcription Factor Binding Sites
Coffee
03:05 - 03:30
03:30 - 03:55
Vineet Bafna, Daniel H. Huson, Celera Genomics Corp.
The
Conserved Exon Method for Gene Finding
04:00 - 06:00 Posters, Software Demos, Exhibits
06:00 - 10:00 ISMB 2000 Reception, San Diego Zoo |
August 23, Wednesday
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Methods
Moderator: TBA
08:30 - 09:15
Keynote: G. Christian Overton Lecture: Reading the Book of Life
David B. Searls
SmithKline Beecham Pharmaceuticals
09:15 - 09:40
Hagit Shatkay, Stephen Edwards, W. John Wilbur, Mark Boguski, National Center for Biotechnology Information
Genes,
Themes, and Microarrays Using Information Retrieval for Large-Scale
Gene Analysis
09:40 - 10:05
Chris Bailey-Kellogg, John J. Kelley III, Cliff Stein, Bruce Randall Donald, Dartmouth College
Reducing
Mass Degeneracy in SAR by MS by Stable Isotopic Labeling
Coffee
10:05 - 10:30
10:30 - 10:55
Vanathi Gopalakrishnan, Bruce G. Buchanan, John M. Rosenberg, University of Pittsburgh
Intelligent
Aids for Parallel Experiment Planning and Macromolecular Crystallization
10:55 - 11:20
Denys Proux, Xerox Research Centre Europe
François Rechenmann, INRIA Rhône-Alpes
Laurent Julliard, Xerox Research Centre Europe
A
Pragmatic Information Extraction Strategy for gathering Data on
Genetic Interactions
11:20 - 11:45
Robert F. Murphy, Michael V. Boland, Meel Velliste, Carnegie Mellon University
Toward
a Systematics for Protein Subcellular Location: Quantitative Description
of Protein Localization Patterns and Automated Analysis of Fluorescence
Microscope Images
11:45 - 12:10
Zhengyan Kan, Washington University
Warren Gish, Washington University School of Medicine
Eric Rouchka, Washington University
Jarret Glasscock, Washington University School of Medicine
David States, Washington University
UTR
Reconstruction and Analysis Using Genomically Aligned EST Sequences
Lunch and BOFs
12:10 - 01:30
Sequence - Alignments, Families and Phylogeny, II
Moderator: TBA
Keynote
01:30 - 02:15
Minoru Kanehisa, Institute for Chemical Research, Kyoto University
Graph Comparison and Path Computation Methods for Predicting Molecular Networks from Genome
Information
02:15 - 02:40
Robin McEntire, SmithKline Beecham Pharmaceuticals
Peter Karp, SRI-International
Neil Abernethy, InGenuity
David Benton, SmithKline Beecham Pharmaceuticals
Gregg Helt, University of California Berkeley
Matt DeJongh, NetGenics
Robert Kent, Ontologos
Anthony Kosky, GeneLogic
Suzanna Lewis, University of California Berkeley
Dan Hodnett, NetGenics
Eric Neumann, 3rd Millenium
Frank Olken, Lawrence Berkeley Livermore Laboratory
Dhiraj Pathak, SmithKline Beecham Pharmaceuticals
Luca Toldo, Merck KgaA
Thodoros Topaloglou, GeneLogic
An
Evaluation of Ontology Exchange Languages for Bioinformatics
02:40 - 03:05
Mark Craven, David Page, Jude Shavlik, Joseph Bockhorst, Jeremy Glasner, University of Wisconsin
A
Probabilistic Learning Approach to Whole-Genome Operon Prediction
Coffee
03:05 - 03:30
03:30 - 03:55
Stefan Kurtz, Enno Ohlebusch, Chris Schleiermacher, University of Bielefeld
Jens Stoye, German Cancer Research Center
Robert Giegerich, University of Bielefeld
Computation
and Visualization of Degenerate Repeats in Complete Genomes
03:55 - 04:20
Mathieu Blanchette, Benno Schwikowski, Martin Tompa, University of Washington
An
Exact Algorithm to Identify Motifs in Orthologous Sequences from
Multiple Species
04:20 - 04:45
Best Poster and Paper Awards Session
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Back to the Top | August 20 (Sun) | August 21 (Mon) | August 22 (Tues) | August 23 (Weds)
ISMB | Agenda | For additional assistance, please consult the Contact Information page.
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