Data Integration in the Life Sciences: Second International Workshop, DILS 2005, San Diego, CA, USA, July 20-22, 2005, Proceedings (Lecture Notes in Computer Science (3615))

This book constitutes the refereed proceedings of the Second International Workshop on Data Integration in the Life Sciences, DILS 2005, held in San Diego, CA, USA in July 2005. The 20 revised full papers presented together with 8 revised posters and demonstration papers, 2 keynote articles and 5 invited position statements were carefully reviewed and selected from 50 initial submissions. The papers are organized in topical sections on user applications, ontologies, data integration, and others and address all current issues in data integration from the life science point of view. Front Matter....Pages - Challenges in Biological Data Integration in the Post-genome Sequence Era....Pages 1-1 Curated Databases....Pages 2-2 A User-Centric Framework for Accessing Biological Sources and Tools....Pages 3-18 BioLog: A Browser Based Collaboration and Resource Navigation Assistant for BioMedical Researchers....Pages 19-30 Learning Layouts of Biological Datasets Semi-automatically....Pages 31-45 Factors Affecting Ontology Development in Ecology....Pages 46-62 Querying Ontologies in Relational Database Systems....Pages 63-79 Scientific Names Are Ambiguous as Identifiers for Biological Taxa: Their Context and Definition Are Required for Accurate Data Integration....Pages 80-95 The Multiple Roles of Ontologies in the BioMediator Data Integration System....Pages 96-104 Integrating Heterogeneous Microarray Data Sources Using Correlation Signatures....Pages 105-120 Knowledge-Based Integrative Framework for Hypothesis Formation in Biochemical Networks....Pages 121-136 Semantic Correspondence in Federated Life Science Data Integration Systems....Pages 137-144 Assigning Unique Keys to Chemical Compounds for Data Integration: Some Interesting Counter Examples....Pages 145-157 Integrating and Warehousing Liver Gene Expression Data and Related Biomedical Resources in GEDAW....Pages 158-174 Information Integration and Knowledge Acquisition from Semantically Heterogeneous Biological Data Sources....Pages 175-190 Cluster Based Integration of Heterogeneous Biological Databases Using the AutoMed Toolkit....Pages 191-207 Hybrid Integration of Molecular-Biological Annotation Data....Pages 208-223 Setup and Annotation of Metabolomic Experiments by Integrating Biological and Mass Spectrometric Metadata....Pages 224-239 Performance-Oriented Privacy-Preserving Data Integration....Pages 240-256 Building a Generic Platform for Medical Screening Applications Based on Domain Specific Modeling and Process Orientation....Pages 257-265 Automatic Generation of Data Types for Classification of Deep Web Sources....Pages 266-274 BioNavigation: Selecting Optimum Paths Through Biological Resources to Evaluate Ontological Navigational Queries....Pages 275-283 Support for BioIndexing in BLASTgres....Pages 284-287 An Environment to Define and Execute In-Silico Workflows Using Web Services....Pages 288-291 Web Service Mining for Biological Pathway Discovery....Pages 292-295 SemanticBio: Building Conceptual Scientific Workflows over Web Services....Pages 296-299 PLATCOM: Current Status and Plan for the Next Stages....Pages 300-304 SOAP API for Integrating Biological Interaction Databases....Pages 305-308 Collaborative Curation of Data from Bio-medical Texts and Abstracts and Its integration....Pages 309-312 Towards an Ontology Based Visual Query System....Pages 313-316 Data Integration in the Biomedical Informatics Research Network (BIRN)....Pages 317-320 Data Integration and Workflow Solutions for Ecology....Pages 321-324 Eco-Informatics for Decision Makers Advancing a Research Agenda....Pages 325-334 An Architecture and Application for Integrating Curation Data at the Residue Level for Proteins....Pages 335-338 The Biozon System for Complex Analysis of Heterogeneous Interrelated Biological Data and Discovery of Emergent Structures....Pages 339-342 Back Matter....Pages - "The workshop was organized by the San Diego Supercomputer Center (SDSC) and took place July 20 -22, 2005 at the University of California, San Diego."