| Tentative Detailed Agenda for ISMB/ECCB 2004 - Times and running orders of presentations may change | ||||
Scroll to view the entire agenda or select an option from the following to jump to a specific day: | ||||
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| Color Key | ||||
 | SIGs/SIG Reports | | Long Papers | |
| Tutorials | Short Papers | |||
| Opening/Closing Ceremonies/Program Chair Introductions | Demos | |||
| Keynotes | Social Events | |||
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| Saturday, 31 July 2004 | |||||||
| Tutorials | Tutorials | Tutorials | Tutorials | Tutorials | Tutorials | Tutorials | |
8:30 | 8:30-12:30 AM1 Tutorial (Lamond): Graph Data Management for Biology (Frank Olken) | 8:30-12:30 AM2 Tutorial (Alsh): Immunoinformatics: Recent Developments and Applications (Can Kesmir and Ole Lund) | 8:30-12:30 AM3 Tutorial (Biosdale) : Microarray Data-Analysis – Understanding and Application of Modern Methods (David Kreil and Steven Russell) | 8:30-12:30 AM4 Tutorial (Dochart): Mining the Biomedical Literature: State of the Art, Challenges and Evaluation Issues (Hagit Shatkay) | 8:30-12:30 AM5 Tutorial (Carron) : Computational Methods for the Identification of Regulatory RNA Motifs (Graziano Pesole and Giulio Pavesi) | 8:30-12:30 AM6 Tutorial (Forth): In-silico Analysis and Prediction of Protein Function (Yanay Ofran, Macro Punta and Burkhardt Rost) | 8:30-12:30 AM7 Tutorial (Gala): Using Ontologies in Biological Research (Winston Hide and Janet Kelso) |
12:30 | 12:30-13:30 | ||||||
13:30 | 13:30-17:30 PM8 Tutorial (Alsh): The EM Algorithm and Some of its Applications in Molecular Biology (Frédérique Galisson) | 13:30-17:30 PM9 Tutorial: Cancelled | 13:30-17:30 PM10 Tutorial (Carron): Systems Biology of Host-Pathogen and other "Community" Interactions (Christian Forst) | 13:30-17:30 PM11 Tutorial (Biosdale) : Pattern Discovery (Laxmi Parida) | 13:30-17:30 PM12 Tutorial (Lamond): Advanced Data Mining for Bioinformatics (Stefan Kramer) | 13:30-17:30 | 13:30-17:30 PM14 Tutorial (Forth): Computational Methods for Proteomic Analysis (Michael Giddings and Michael Wisz) |
| 15:00 | 15:00-17:30 Orienteering Ice Breaker | ||||||
17:30 | |||||||
| 18:30 | 18:30-20:00 ISMB/ECCB 2004 Opening Reception: Glasgow Science Center (Next to Convention Center) | ||||||
20:00 | |||||||
| Sunday, 1 August 2004 | ||||||
| Keynotes & Papers: Clyde Auditorium | Papers: Lomond Auditorium | Industry Poster & Exhibit Hours: Hall 4 | Demos: Alsh 1 | Demos: Alsh 2 | SIG Reports: Carron | |
8:30 | 8:30-9:00 Opening Ceremony | |||||
9:00 | 9:00-9:50 Keynote: Leroy Hood - Systems Biology: Strategies for Deciphering Life | |||||
9:30 | 9:30-10:30 DEMO: | 9:30-10:30 DEMO: Blueprint SeqHound: A Bioinformatics Application Programming Platform | ||||
9:50 | 9:50-10:10 Program Chair's Introduction: Des Higgins - Sequence Analysis | 9:50-10:10 Program Chair's Introduction: Carole Goble - Databases, Ontologies & Text Mining | ||||
10:10 | 10:10-10:40 Long Paper #1 IMGT/JunctionAnalysis: The First Tool for the Analysis of the Immunoglobulin and T Cell Receptor Complex V-J and V-D-J Junctions | 10:10-10:40 Long Paper #2 The Gene Ontology Categorizer | ||||
10:30 | 10:30-11:30 DEMO: Bioinformatics Institute WILDFIRE: Distributed, Grid-enabled Workflow Enactment Engine | 10:30-11:30 DEMO: Universitat Autònoma de Barcelona PDA: A Pipeline to Explore and Estimate Polymorphism in Large DNA Databases | ||||
10:40 | COFFEE | COFFEE | ||||
11:10 | 11:10-11:40 Long Paper #3 Tracking Repeats Using Significance and Transitivity | 11:10-11:40 Long Paper #4 HyBrow - A Prototype System for Computer-Aided Hypothesis Evaluation | 11:10-11:40 SIG Report: WEB '04 | |||
11:30 | 11:30-13:30 DEMO: European Bioinformatics Institute and The Research Collaboratory for Structural Bioinformatics MSD/RCSB PDB Access Tools and Databases | 11:30-12:30 DEMO: Japan Biological Information Research Center, AIST H-Invitational Database - A New Human Gene Annotation Database | ||||
11:40 | 11:40-12:10 Long Paper #5 Efficient Approximations for Learning Phylogenetic HMM Models from Data | 11:40-12:10 Long Paper #6 Mining MEDLINE for Implicit Links between Dietary Substances and Diseases | 11:40-12:10 SIG Report: Genome Annotation | |||
12:10 | 12:10-12:30 Short Paper #7 | 12:10-12:40 Long Paper #8 Protein Names Precisely Peeled Off Free Text | ||||
12:30 | 12:30-12:50 Short Paper #9 PROBCONS: Probabilistic Consistency-based Multiple Alignment of Amino Acid Sequences | 12:30-20:30 Industry Exhibits | 12:30-13:30 DEMO: Bilkent University PATIKA - Pathway Analysis Tool for Integration and Knowledge Acquisition | |||
12:40 | 12:40-13:00 Short Paper #10 False Annotations of Proteins: Automatic Detection via Keyword-Based Clustering | |||||
| 12:50 | ||||||
| 13:00 | 13:00-14:30 LUNCH ISCB/ECCB Open Business Meeting (Hall 1) | LUNCH - Hall 4 | BOF Luncheons | |||
| 13:30 | 13:30-14:30 DEMO: European Bioinformatics Institute EMBOSS | 13:30-14:30 DEMO: Cornell University BIOZON: A System for Unification, Management and Analysis of Heterogeneous Biological Data | ||||
| 14:30 | 14:30-14:50 Program Chair's Introduction: Win Hide - Applications | 14:30-14:50 Program Chair's Introduction: Ying Xu and Gene Myers- Genomes 1 | 14:30-16:30 DEMO: IBM Graph Data Management for Bioinformatics | 14:30-15:30 DEMO: Nanyang Technological University MolStudio - A low end system for VR-enhanced protein visualization | ||
| 14:50 | 14:50-15:20 Long Paper #11 Reconstructing Tumor Amplisomes | 14:50-15:20 Long Paper #12 Splice Site Identification by idlBNs | 14:50-15:20 SIG Report: Bio-link | |||
| 15:20 | 15:20-15:50 Long Paper #13 The Cell Graphs of Cancer | 15:20-15:50 Long Paper #14 Improved Techniques for the Identification of Pseudogenes | 15:20-15:50 SIG Report: Bioinformatics & Statistical Physics | |||
| 15:30 | 15:30-16:30 DEMO: Max Planck Institute for Dynamics of Complex Technical Systems Exploring Metabolic Networks Using the FluxAnalyzer | |||||
| 15:50 | 15:50-16:20 Long Paper #15 Prediction of Class I T-cell Epitopes: Evidence of Presence of Immunological Hot Spots Inside Antigens | 15:50-16:20 Long Paper #16 Exploiting Conserved Structure for Faster Annotation of Non-coding RNAs Without Loss of Accuracy | 15:50-16:20 SIG Report: BioOntologies | |||
| 16:20 | TEA | TEA | ||||
| 16:30 | 16:30-17:30 DEMO: European Bioinformatics Institute Jemboss - the Graphical User Interface to EMBOSS | 16:30-17:30 DEMO: European Bioinformatics Institute IntAct - an Open Source Molecular Interaction Database | ||||
| 16:50 | 16:50-17:20 Long Paper #17 Exploring Williams-Beuren Syndrome using my Grid | 16:50-17:20 Long Paper #18 Functional Inference from Non-random Distributions of Conserved Predicted Transcription Factor Binding Sites | ||||
| 17:20 | 17:20-18:00 Keynote: Denis Noble - Computational systems biology of the heart | |||||
| 17:30 | ||||||
| 18:00 | 18:00-18:10 Introduction to ISMB 2005, Detroit USA | 18:00-20:30 Reception & Poster Session 1 | ||||
| 18:10 | 19:30-20:30 DEMO: Accelrys From Genes to Protein Structures Prediction: "A Genome Analysis" | 19:30-20:30 DEMO: The Hebrew Univeristy SPRINT – the Side-chain Prediction Inference Toolbox | ||||
| 19:30 | ||||||
| 20:00 | ||||||
| 20:30 | ||||||
| Monday, 2 August 2004 | ||||||
| Keynotes & Papers: Clyde Auditorium | Papers: Lomond Auditorium | Industry Poster & Exhibit Hours: Hall 4 | Demos: Alsh 1 | Demos: Alsh 2 | SIG Reports: Carron | |
8:30 | 8:30-9:20 Keynote: Eric Green - Decoding the Human Genome by Multi-Species Sequence Comparisons | |||||
9:20 | 9:20-9:40 Genomes 2: Short Paper #19 CHAINER: Software for Comparing Genomes | 9:20-9:40 Program Chairs' Introduction: Martin Vingron and John Quackenbush: Transcriptomes | ||||
9:30 | 9:30-10:30 DEMO: Kyushu Institute of Technology CADLIVE: A Direct Link of Biochecmial Netoworks to Dynamic Simulations | 9:30-10:30 DEMO: EMBL Protein Disorder Prediction | ||||
9:40 | 9:40-10:10 Long Paper #21 Predicting Gene Regulation by Sigma Factors in Bacillus subtilis from Genome-wide Data | 9:40-10:10 SIG Reports 3D Structural Bioinformatics | ||||
10:10 | 10:10-10:40 Long Paper #22 Using MoBIoS’ Scalable Genome Join to Find Conserved Primer Pair Candidates Between Two Genomes | 10:10-10:40 Long Paper #23 Deconvolving Cell Cycle Expression Data with Complementary Information | 10:30-20:30 Industry Exhibits and Posters | 10:10-10:40 SIG Report Bioinformatics & Disease | ||
10:30 | 10:30-12:30 DEMO: The MathWorks, Inc. MATLAB for Bioinformatics | 10:30-12:30 DEMO: Cold Spring Harbor Laboratory Reactome - A Knowledgebase of Biological Processes | ||||
| 10:40 | COFFEE | COFFEE | ||||
11:10 | 11:10-11:40 Long Paper #24 High Density Linkage Disequilibrium Mapping using Models of Haplotype Block Variation | 11:10-11:40 Long Paper #25 Statistical Modeling of Sequencing Errors in SAGE Libraries | ||||
11:30 | ||||||
11:40 | 11:40-12:10 Long Paper #26 Into the Heart of Darkness: Large Scale Clustering of Human Non-Coding DNA | 11:40-12:10 Long Paper #27 Optimal Robust Non-Unique Probe Selection Using Integer Linear Programming | ||||
| 12:00 | ||||||
12:10 | 12:10-12:30 Short Paper #28 | 12:10-12:30 Short Paper #29 TIDE – Terra Incognita Discovery Endeavor: Comprehensive EST Assignment to GeneCards Genes | ||||
12:30 | LUNCH - Special Session on Funding Opportunities for Bioinformatics Research Hall 5 | LUNCH (Hall 4) | 12:30-13:30 DEMO: Weizmann Institute of Science The LAMA and CYRCA Protein Profile-to-Profile Alignment and Multiple Profile Alignment Methods | 12:30-13:30 DEMO: European Bioinformatics Institute An Introduction to a Number of Web Based Services from the EMBL-European Bioinformatics Institute (EBI) | BOF Luncheons (split 1 and 2) | |
| 13:30 | 13:30-15:30 DEMO: Synamatix Advantages of a Novel Structured Network Database in Prediction of Biologically Significant Patterns in High-throughput Genomics and Proteomics | 13:30-14:30 DEMO: Faculty of Science, University of Zagreb INCA: Synonymous Codon Usage Analysis Software | ||||
| 14:00 | 14:00-14:20 Program Chairs' Introduction: TBA: Evolution/Phylogeny | 14:00-14:20 Short Paper #61 NOTE TIME CHANGE Gene XPress: A Vizualization and Statistical Anaylsis Tool for Gene Expression and Sequence Data | ||||
| 14:20 | 14:20-14:50 Long Paper #30 Reconstructing Phylogeny by Quadratically Approximated Maximum Likelihood | 14:20 -14:50 Transcriptomes 2: Long Paper #31 Finding Disease Specific Alterations in the Co-expression of Genes | 14:20-14:50 SIG Reports BioPathways | |||
| 14:30 | 14:30-15:30 DEMO: University of California at Berkeley MUSCLE: Faster and More Accurate Multiple Sequence Alignment | |||||
| 14:50 | 14:50-15:20 Long Paper #32 Phylogenomics and the Number of Characters Required for Obtaining an Accurate Phylogeny of Eukaryote Model Species | 14:50-15:20 Long Paper #33 Partial Cox Regression Analysis for High-Dimensional Microarray Gene Expression Data | 14:50-15:20 SIG Report: BOSC | |||
| 15:20 | 15:20-15:40 Short Paper #34 Evolution of Multi-domain Proteins by Gene Fusion and Fission | 15:20-15:50 Long Paper #35 Predicting Genetic Regulatory Response Using Classification | 15:20-15:50 SIG Report: SIGSIM | |||
| 15:30 | 15:30-17:30 DEMO: Sun Microsystems, Inc. Managing Knowledge, Throughput, Visualization, Grids & Data Centers | 15:30-17:30 DEMO: University of Leeds Databases and Software Available at Leeds University | ||||
| 15:30 | ||||||
| 15:50 | TEA | TEA | ||||
| 16:20 | 16:20-16:50 Long Paper #36 A Nucleotide Substitution Model with Nearest-neighbour Interactions | 16:20-16:50 Long Paper #37 Robust inference of groups in gene expression time-courses using mixtures of HMMs | ||||
| 16:30 | ||||||
| 16:50 | 16:50-17:10 Short Paper #38 Transitions at CpG Dinucleotides: are Replication Errors to Blame? | 16:50-17:10 Short Paper #39 An Information Theory Approach for Validating Clusters in Microarray Data | ||||
| 17:10 | 17:10-18:00 Keynote: Svante Pääbo - Evolution of the primate transcriptome | |||||
| 17:30 | ||||||
| 18:00 | 18:00-18:10 Introduction to ECCB 2005, Madrid, Spain | 18:00-20:30 Reception & Poster Session 2 | ||||
| 18:10 | ||||||
| 20:30 | ||||||
| Tuesday, 3 August 2004 | ||||||
| Keynotes & Papers: Clyde Auditorium | Papers: Lomond Auditorium | Industry Poster & Exhibit Hours: Hall 4 | Demos: Alsh 1 | Demos: Alsh 2 | Carron | |
8:30 | 8:30-9:20 Keynote: Matthias Mann - Organellar and time resolved proteomics | |||||
9:20 | 9:20-9:40 Program Chairs' Introduction: Michal Linial and Michael Gribskov - Proteomes | |||||
9:30 | 9:30-9:40 Program Chairs' Introduction: Burkhard Rost - Structural bioinformatics | 9:30-11:30 DEMO: Vanderbilt University Medical Center Metaclinic Database System | 9:30-10:30 DEMO: Baylor College of Medicine Analysis of Intermediate Resolution Structures | |||
9:40 | 9:40-10:10 Structures 2: Long Paper #41 A Neural Network-Based Method for Predicting Protein Stability Changes upon Single Point Mutations | |||||
10:10 | 10:10-10:40 Long Paper #42 Predicting Protein-protein Interactions Via a Network-Based Motif Sampler | 10:10-10:40 Long Paper #43 Mining Frequent Patterns in Protein Structures: A Study of Protease Families | ||||
10:30 | 10:30-16:30 Industry Exhibits and Posters | 10:30-12:30 DEMO: UniProt UniProt (Universal Protein Resource): A Comprehensive Catalog of Information on Proteins | 10:30-11:30 Special session on bioinformatics in industry, chaired by Nick Stuart, Partnership Sourcing Ltd | |||
| 10:40 | COFFEE | |||||
11:10 | 11:10-11:40 Long Paper #44 Automatic Quality Assessment of Peptide Tandem Mass Spectra | 11:10-11:40 Long Paper #45 Striped Sheets and Protein Contact Prediction | ||||
11:30 | 11:30-12:30 DEMO: Apple Computer Xgrid and Mac OS X: A Platform for Distributed Scientific Computing | |||||
11:40 | 11:40-12:00 Short Paper #46 MSMS Peak Identification and its Applications | 11:40-12:10 Long Paper #47 SCOPEC: a Database of Protein Catalytic Domains | ||||
12:00 | 12:00-12:20 Short Paper #48 Cross-species Protein Identification in Proteomics via Protein Profiles | |||||
| 12:10 | ||||||
12:20 |
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12:30 | 12:30-14:00 LUNCH - ISCB Open Student Council Meeting(Hall 1) | LUNCH (Hall 4) | 12:30-13:30 DEMO: Apple Computer Blending Power with Simplicity in Life Science Clustering: iNquiry and the Apple Workgroup Cluster | 12:30-13:30 DEMO: CNRG Genoscope YIB: A Tool for Biological Network Motif Analysis | ||
| 13:30 | 13:30-15:30 DEMO: Scottish Enterprise The Scottish Bioinformatics Forum - Demonstrating Bioinformatics Excellence in Scotland | 13:30-14:30 DEMO: University of Georgia MAGIC Database: A Tool for Gene Discovery and Expression | ||||
| 14:00 | 14:00-14:20 Program Chairs' Introduction: Minoru Kanehisa and Alfonso Valencia, Pathways, networks and systems | |||||
| 14:10 | 14:10-14:20 Program Chairs' Introduction: Program Chair’s introduction part 2: R. Sowdhamini, Structural Bioinformatics | |||||
| 14:20 | 14:20-14:50 Long Paper #49 Assigning Transmembrane Segments to Helices in Intermediate-Resolution Structures | 14:20-14:50 Long Paper #50 Learning Kernels from Biological Networks by Maximizing Entropy | ||||
| 14:30 | 14:30-15:30 DEMO: | |||||
| 14:50 | 14:50-15:20 Long Paper #51 Predicting Protein Folding Pathways | 14:50-15:20 Long Paper #52 Protein Network Inference from Multiple Genomic Data: A Supervised Approach | ||||
| 15:20 | 15:20-15:50 Long Paper #53 A Two-stage Classifier for Identification of Protein-Protein Interface Residues | 15:20-15:50 Long Paper #54 Inferring Quantitative Models of Regulatory Networks from Expression Data | ||||
| 15:30 | 15:30-16:30 DEMO: SciTegic Private Demo by invitation | 15:30-16:30 DEMO: European Bioinformatics Institute The HUPO PSI Object Model and the mzData format | ||||
| 15:50 | TEA | |||||
| 16:20 | 16:20-16:50 Long Paper #55 Application of a New Probabilistic Model for Recognizing Complex Patterns in Glycans | 16:20-16:50 Long Paper #56 TraitMap: An XML-based Genetic-map Database Combining Multigenic Loci and Biomolecular Networks | ||||
| 16:30 | 16:30-17:30 DEMO: SciTegic A Graphical Pipelining Environment for the Integration of Bioinformatics Data and Tools: Pipeline Pilot™ | 16:30-17:30 DEMO: Rat Genome Database Rat Genome Database | ||||
| 16:50 | 16:50-17:10 Short Paper #57 Centrality of Weak Interhelical H-bonds in Membrane Protein Functional Assembly and Conformational Gating | 16:50-17:10 Short Paper #58 Divergent Evolutionary Drift Contradicts Power Law | ||||
| 17:00 | ||||||
| 17:10 | 17:10-18:00 Keynote: Anna Tramontano - Progress, assessment and perspectives in protein structure prediction | |||||
| 17:30 | ||||||
| 18:00 | ||||||
| 19:00 | 19:00 Gala Dinner | |||||
| 20:30 | ||||||
| Wednesday, 4 August 2004 | |||||
| Keynotes & Papers: Clyde Auditorium | Papers: Lomond Auditorium | Industry Poster & Exhibit Hours: Hall 4 | Demos: Alsh 1 | Demos: Alsh 2 | |
| 8:30 | 8:30-9:20 Keynote: Overton Prize Lecture: Uri Alon - Simplicity in complex biological networks | ||||
| 9:20 | 9:20-9:40 Pathways 2: Short Paper #59 Constraint-Based Modelling Of Perturbed Organisms: A ROOM for improvement | 9:20-9:40 Program Chairs' Introduction: Phil Bourne - Databases | |||
| 9:30 | 9:30-10:30 DEMO: Université Libre de Bruxelles-SCMBB A Snow/aMAZE Demo | 9:30-10:30 DEMO: European Bioinformatics Institute Taverna - a Bioinformatics Workflow Tool | |||
| 9:40 | 9:40-10:10 Long Paper #60 Filling gaps in a metabolic network using expression information | ||||
| 10:10 | 10:10-10:40 Long Paper #62 An Efficient Algorithm for Detecting Frequent Subgraphs in Biological Networks | ||||
| 10:30 | 10:30-14:00 | 10:30-11:30 DEMO: Gene Ontology Consortium The DAG-Edit Ontology Development System | 10:30-11:30 DEMO: European Bioinformatics Institute BioMart: A Family of Tools to Facilitate Rapid Querys Against Large Volumes of Biological Data | ||
| 10:40 | COFFEE | ||||
| 11:10 | 11:10-11:40 Long Paper #64 A Knowledge Based Approach for Representing and Reasoning about Signaling Networks | 11:10-11:40 Long Paper #65 Selecting Biomedical Data Sources according to User Preferences | |||
| 11:30 | 11:30-12:30 DEMO: Center for Applied Computer Science, University of Cologne and Max Planck Institute for Molecular Genetics, Berlin GQL - A comprehensive tool for gene expression time course analysis | 11:30-12:30 DEMO: Heriot-Watt University, Edinburgh University XSPAN - A Cross-Species Anatomy Network | |||
| 11:40 | 11:40-12:10 Short Paper #66 Integration of Biological Data From Web Resources : Management of Multiple Answers Through Metadata Retrieval | ||||
| 12:00 | |||||
| 12:10 |
| 12:10-12:30 Short Paper #67 | |||
| 12:30 | LUNCH | 12:30-13:30 DEMO: NESC Bridges Project | 12:30-13:30 DEMO: San Diego Supercomputer Center The Encyclopedia of Life | ||
| 13:30 | 13:30-14:30 DEMO: Fraunhofer FIT Biozoom | 13:30-14:30 DEMO: European Bioinformatics Institute ArrayExpress, MIAMExpress, Expression Profiler Tools for Microarray Annotation, Storage and Analysis | |||
| 14:00 | 14:00-14:50 Keynote: ISCB Senior Scientist Accomplishment Award Lecture: David Lipman - Message and meaning in sequence comparison: is systems biology possible? | ||||
| 14:20 | |||||
| 14:30 | |||||
| 14:50 | Closing Ceremony | ||||
| 15:20 | |||||
