Keynote speakers

Olivier Bodenreider

Lister Hill National Center for Biomedical Communications, National Library of Medicine, National Institutes of Health, Maryland, USA

Presentation title:

Ontologies and data integration in biomedicine: Success stories and challenging issues


In this presentation, we review some examples of successful biomedical data integration projects in which ontologies play an important role, including the integration of genomic data based on Gene Ontology annotations, the cancer Biomedical Informatics Grid (caBIG) project, and semantic mashups created by the Semantic Web for Health Care and Life Sciences community.

Peter Karp

In collaboration with Thomas J. Lee and Valerie Wagner, SRI International, Menlo Park, CA USA

Peter Karp Presentation title:

BioWarehouse: Relational Integration of Eleven Bioinformatics Databases and Formats


 BioWarehouse is an open-source project for integrating bioinformatics databases within a relational database warehouse. It has two key features. A comprehensive database schema models many different bioinformatics datatypes. A set of loader tools permits loading of public bioinformatics databases, and of standard bioinformatics formats, into that database schema. Thus, multiple databases can be queried together within a single common schema. The supported databases are BioCyc, CMR, ENZYME, Eco2DBase, Genbank, Gene Ontology, KEGG, NCBI Taxonomy, and UniProt. The supported formats are BioPAX (protein interactions subset only) and MAGE-ML.

Norman Paton

School of Computer Science, University of Manchester, UK

Norman Paton Presentation title: Data Integration in the Life Sciences: Fun, Findings and Frustrations


This paper concerns the research topic of data integration in the life sciences. The paper presents no technical results, but rather provides a classification of research activities in terms of the contributions they seek to make to the life sciences, bioinformatics or computer science.